Items where Author or Contributor is "Thomson, Nicholas"
Up a level |
Number of items: 181.
2024
Bote, Lia;
Taylor-Brown, Alyce;
Maes, Mailis;
Ingle, Danielle J;
Valcanis, Mary;
Howden, Benjamin P;
Thomson, Nicholas R;
(2024)
Surveillance of travel-associated isolates elucidates the diversity of non-pandemic Vibrio cholerae.
Microbial genomics, 10 (10).
001307.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.001307
Handley, Becca L;
Sokana, Oliver;
Addo, Kennedy Kwasi;
Wagner, Josef;
Fookes, María;
Harding-Esch, Emma;
Marks, Michael;
Thomson, Nicholas R;
Doyle, Ronan M;
(2024)
Using 16s rRNA sequencing to characterize the microbiome of tropical cutaneous ulcer disease: insights into the microbial landscape and implications for diagnosis and treatment.
Microbial genomics, 10 (5).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.001234
2023
Cuypers, Wim L;
Meysman, Pieter;
Weill, François-Xavier;
Hendriksen, Rene S;
Beyene, Getenet;
Wain, John;
Nair, Satheesh;
Chattaway, Marie A;
Perez-Sepulveda, Blanca M;
Ceyssens, Pieter-Jan;
+19 more...
de Block, Tessa;
Lee, Winnie WY;
Pardos de la Gandara, Maria;
Kornschober, Christian;
Moran-Gilad, Jacob;
Veldman, Kees T;
Cormican, Martin;
Torpdahl, Mia;
Fields, Patricia I;
Černý, Tomáš;
Hardy, Liselotte;
Tack, Bieke;
Mellor, Kate C;
Thomson, Nicholas;
Dougan, Gordon;
Deborggraeve, Stijn;
Jacobs, Jan;
Laukens, Kris;
Van Puyvelde, Sandra;
(2023)
A global genomic analysis of Salmonella Concord reveals lineages with high antimicrobial resistance in Ethiopia.
Nature communications, 14 (1).
3517-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-023-38902-x
Monir, Md Mamun;
Islam, Mohammad Tarequl;
Mazumder, Razib;
Mondal, Dinesh;
Nahar, Kazi Sumaita;
Sultana, Marzia;
Morita, Masatomo;
Ohnishi, Makoto;
Huq, Anwar;
Watanabe, Haruo;
+7 more...
Qadri, Firdausi;
Rahman, Mustafizur;
Thomson, Nicholas;
Seed, Kimberley;
Colwell, Rita R;
Ahmed, Tahmeed;
Alam, Munirul;
(2023)
Genomic attributes of Vibrio cholerae O1 responsible for 2022 massive cholera outbreak in Bangladesh.
Nature communications, 14 (1).
1154-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-023-36687-7
Van Puyvelde, Sandra;
de Block, Tessa;
Sridhar, Sushmita;
Bawn, Matt;
Kingsley, Robert A;
Ingelbeen, Brecht;
Beale, Mathew A;
Barbé, Barbara;
Jeon, Hyon Jin;
Mbuyi-Kalonji, Lisette;
+38 more...
Phoba, Marie-France;
Falay, Dadi;
Martiny, Delphine;
Vandenberg, Olivier;
Affolabi, Dissou;
Rutanga, Jean Pierre;
Ceyssens, Pieter-Jan;
Mattheus, Wesley;
Cuypers, Wim L;
van der Sande, Marianne AB;
Park, Se Eun;
Kariuki, Simon;
Otieno, Kephas;
Lusingu, John PA;
Mbwana, Joyce R;
Adjei, Samuel;
Sarfo, Anima;
Agyei, Seth O;
Asante, Kwaku P;
Otieno, Walter;
Otieno, Lucas;
Tahita, Marc C;
Lompo, Palpouguini;
Hoffman, Irving F;
Mvalo, Tisungane;
Msefula, Chisomo;
Hassan-Hanga, Fatimah;
Obaro, Stephen;
Mackenzie, Grant;
Deborggraeve, Stijn;
Feasey, Nicholas;
Marks, Florian;
MacLennan, Calman A;
Thomson, Nicholas R;
Jacobs, Jan;
Dougan, Gordon;
Kariuki, Samuel;
Lunguya, Octavie;
(2023)
A genomic appraisal of invasive Salmonella Typhimurium and associated antibiotic resistance in sub-Saharan Africa.
Nature communications, 14.
p. 6392.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-023-41152-6
2022
Bloomfield, Samuel;
Duong, Vu Thuy;
Tuyen, Ha Thanh;
Campbell, James I;
Thomson, Nicholas R;
Parkhill, Julian;
Le Phuc, Hoang;
Chau, Tran Thi Hong;
Maskell, Duncan J;
Perron, Gabriel G;
+5 more...
Ngoc, Nguyen Minh;
Vi, Lu Lan;
Adriaenssens, Evelien M;
Baker, Stephen;
Mather, Alison E;
(2022)
Mobility of antimicrobial resistance across serovars and disease presentations in non-typhoidal Salmonella from animals and humans in Vietnam.
Microbial Genomics, 8 (5).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000798
Gorrie, Claire L;
Mirčeta, Mirjana;
Wick, Ryan R;
Judd, Louise M;
Lam, Margaret MC;
Gomi, Ryota;
Abbott, Iain J;
Thomson, Nicholas R;
Strugnell, Richard A;
Pratt, Nigel F;
+9 more...
Garlick, Jill S;
Watson, Kerrie M;
Hunter, Peter C;
Pilcher, David V;
McGloughlin, Steve A;
Spelman, Denis W;
Wyres, Kelly L;
Jenney, Adam WJ;
Holt, Kathryn E;
(2022)
Genomic dissection of Klebsiella pneumoniae infections in hospital patients reveals insights into an opportunistic pathogen.
Nature communications, 13 (1).
3017-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-022-30717-6
Kane, L;
(2022)
Investigation of Vibrio cholerae pathogenesis using a novel human intestinal model of infection.
PhD thesis, London School of Hygiene & Tropical Medicine.
DOI: https://doi.org/10.17037/PUBS.04670346
Lewis, Joseph M;
Mphasa, Madalitso;
Banda, Rachel;
Beale, Mathew A;
Heinz, Eva;
Mallewa, Jane;
Jewell, Christopher;
Faragher, Brian;
Thomson, Nicholas R;
Feasey, Nicholas A;
(2022)
Colonization dynamics of extended-spectrum beta-lactamase-producing Enterobacterales in the gut of Malawian adults.
Nature Microbiology, 7 (10).
pp. 1593-1604.
ISSN 2058-5276
DOI: https://doi.org/10.1038/s41564-022-01216-7
Mellor, Kate C;
Blackwell, Grace A;
Cawthraw, Shaun A;
Mensah, Nana E;
Reid, Stuart WJ;
Thomson, Nicholas R;
Petrovska, Liljana;
Mather, Alison E;
(2022)
Contrasting long-term dynamics of antimicrobial resistance and virulence plasmids in Salmonella Typhimurium from animals.
Microbial genomics, 8 (8).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000826
Njoroge, Samuel M;
Madé, Laure F;
von Mentzer, Astrid;
Kulohoma, Benard W;
Kamanu, Timothy K;
Ouko, Tom T;
Kiiru, John;
Ward, Melissa J;
Thomson, Nicholas R;
Fèvre, Eric M;
+2 more...
Woolhouse, Mark;
Kariuki, Samuel;
(2022)
Draft Genome Sequence of an Enterotoxigenic Escherichia coli Strain Carrying Genes for Colonization Surface Antigen 13 and a Heat-Labile Toxin.
Microbiology resource announcements, 11 (10).
e0041622.
ISSN 2576-098X
DOI: https://doi.org/10.1128/mra.00416-22
Ramamurthy, Thandavarayan;
Pragasam, Agila Kumari;
Taylor-Brown, Alyce;
Will, Robert C;
Vasudevan, Karthick;
Das, Bhabatosh;
Srivastava, Sunil Kumar;
Chowdhury, Goutam;
Mukhopadhyay, Asish K;
Dutta, Shanta;
+8 more...
Veeraraghavan, Balaji;
Thomson, Nicholas R;
Sharma, Naresh C;
Nair, Gopinath Balakrish;
Takeda, Yoshifumi;
Ghosh, Amit;
Dougan, Gordon;
Mutreja, Ankur;
(2022)
Vibrio cholerae O139 genomes provide a clue to why it may have failed to usher in the eighth cholera pandemic.
Nature Communications, 13 (1).
3864-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-022-31391-4
Williams, David J;
Grimont, Patrick AD;
Cazares, Adrián;
Grimont, Francine;
Ageron, Elisabeth;
Pettigrew, Kerry A;
Cazares, Daniel;
Njamkepo, Elisabeth;
Weill, François-Xavier;
Heinz, Eva;
+3 more...
Holden, Matthew TG;
Thomson, Nicholas R;
Coulthurst, Sarah J;
(2022)
The genus Serratia revisited by genomics.
Nature Communications, 13 (1).
5195-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-022-32929-2
Yassine, Iman;
Lefèvre, Sophie;
Hansen, Elisabeth E;
Ruckly, Corinne;
Carle, Isabelle;
Lejay-Collin, Monique;
Fabre, Laëtitia;
Rafei, Rayane;
Clermont, Dominique;
de la Gandara, Maria Pardos;
+3 more...
Dabboussi, Fouad;
Thomson, Nicholas R;
Weill, François-Xavier;
(2022)
Population structure analysis and laboratory monitoring of Shigella by core-genome multilocus sequence typing.
Nature communications, 13 (1).
551-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-022-28121-1
2021
Beale, Mathew A;
Marks, Michael;
Cole, Michelle J;
Lee, Min-Kuang;
Pitt, Rachel;
Ruis, Christopher;
Balla, Eszter;
Crucitti, Tania;
Ewens, Michael;
Fernández-Naval, Candela;
+28 more...
Grankvist, Anna;
Guiver, Malcolm;
Kenyon, Chris R;
Khairullin, Rafil;
Kularatne, Ranmini;
Arando, Maider;
Molini, Barbara J;
Obukhov, Andrey;
Page, Emma E;
Petrovay, Fruzsina;
Rietmeijer, Cornelis;
Rowley, Dominic;
Shokoples, Sandy;
Smit, Erasmus;
Sweeney, Emma L;
Taiaroa, George;
Vera, Jaime H;
Wennerås, Christine;
Whiley, David M;
Williamson, Deborah A;
Hughes, Gwenda;
Naidu, Prenilla;
Unemo, Magnus;
Krajden, Mel;
Lukehart, Sheila A;
Morshed, Muhammad G;
Fifer, Helen;
Thomson, Nicholas R;
(2021)
Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis.
Nature Microbiology, 6 (12).
pp. 1549-1560.
ISSN 2058-5276
DOI: https://doi.org/10.1038/s41564-021-01000-z
Chung The, Hao;
Bodhidatta, Ladaporn;
Pham, Duy Thanh;
Mason, Carl J;
Ha Thanh, Tuyen;
Voong Vinh, Phat;
Turner, Paul;
Hem, Sopheak;
Dance, David AB;
Newton, Paul N;
+6 more...
Phetsouvanh, Rattanaphone;
Davong, Viengmon;
Thwaites, Guy E;
Thomson, Nicholas R;
Baker, Stephen;
Rabaa, Maia A;
(2021)
Evolutionary histories and antimicrobial resistance in Shigella flexneri and Shigella sonnei in Southeast Asia.
Communications biology, 4 (1).
353-.
ISSN 2399-3642
DOI: https://doi.org/10.1038/s42003-021-01905-9
Cowley, Lauren A;
Afrad, Mokibul Hassan;
Rahman, Sadia Isfat Ara;
Mamun, Md Mahfuz Al;
Chin, Taylor;
Mahmud, Ayesha;
Rahman, Mohammed Ziaur;
Billah, Mallick Masum;
Khan, Manjur Hossain;
Sultana, Sharmin;
+12 more...
Khondaker, Tilovatul;
Baker, Stephen;
Banik, Nandita;
Alam, Ahmed Nawsher;
Mannoor, Kaiissar;
Banu, Sayera;
Chowdhury, Anir;
Flora, Meerjady Sabrina;
Thomson, Nicholas R;
Buckee, Caroline O;
Qadri, Firdausi;
Shirin, Tahmina;
(2021)
Genomics, social media and mobile phone data enable mapping of SARS-CoV-2 lineages to inform health policy in Bangladesh.
Nature microbiology, 6 (10).
pp. 1271-1278.
ISSN 2058-5276
DOI: https://doi.org/10.1038/s41564-021-00955-3
Dorman, Matthew J;
Thomson, Nicholas R;
Campos, Josefina;
(2021)
Genomic contextualisation of ancient DNA molecular data from an Argentinian fifth pandemic Vibrio cholerae infection.
Microbial genomics, 7 (6).
000580-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000580
Fennell, Thea G;
Blackwell, Grace A;
Thomson, Nicholas R;
Dorman, Matthew J;
(2021)
gbpA and chiA genes are not uniformly distributed amongst diverse Vibrio cholerae.
Microbial genomics, 7 (6).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000594
Hawkey, Jane;
Paranagama, Kalani;
Baker, Kate S;
Bengtsson, Rebecca J;
Weill, François-Xavier;
Thomson, Nicholas R;
Baker, Stephen;
Cerdeira, Louise;
Iqbal, Zamin;
Hunt, Martin;
+5 more...
Ingle, Danielle J;
Dallman, Timothy J;
Jenkins, Claire;
Williamson, Deborah A;
Holt, Kathryn E;
(2021)
Global population structure and genotyping framework for genomic surveillance of the major dysentery pathogen, Shigella sonnei.
Nature communications, 12 (1).
2684-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-021-22700-4
Horesh, Gal;
Blackwell, Grace A;
Tonkin-Hill, Gerry;
Corander, Jukka;
Heinz, Eva;
Thomson, Nicholas R;
(2021)
A comprehensive and high-quality collection of Escherichia coli genomes and their genes.
Microbial genomics, 7 (2).
pp. 1-15.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000499
Horesh, Gal;
Taylor-Brown, Alyce;
McGimpsey, Stephanie;
Lassalle, Florent;
Corander, Jukka;
Heinz, Eva;
Thomson, Nicholas R;
(2021)
Different evolutionary trends form the twilight zone of the bacterial pan-genome.
Microbial genomics, 7 (9).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000670
Mai, Si-Nguyen T;
Bodhidatta, Ladaporn;
Turner, Paul;
Wangchuk, Sonam;
Ha Thanh, Tuyen;
Voong Vinh, Phat;
Pham, Duy Thanh;
Rabaa, Maia A;
Thwaites, Guy E;
Thomson, Nicholas R;
+2 more...
Baker, Stephen;
Chung The, Hao;
(2021)
The evolutionary history of Shigella flexneri serotype 6 in Asia.
Microbial genomics, 7 (12).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000736
2020
Dorman, Matthew J;
Domman, Daryl;
Poklepovich, Tomás;
Tolley, Charlotte;
Zolezzi, Gisella;
Kane, Leanne;
Viñas, María Rosa;
Panagópulo, Marcela;
Moroni, Miriam;
Binsztein, Norma;
+7 more...
Caffer, María Inés;
Clare, Simon;
Dougan, Gordon;
Salmond, George PC;
Parkhill, Julian;
Campos, Josefina;
Thomson, Nicholas R;
(2020)
Genomics of the Argentinian cholera epidemic elucidate the contrasting dynamics of epidemic and endemic Vibrio cholerae.
NATURE COMMUNICATIONS, 11 (1).
4918-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-020-18647-7
Dorman, Matthew J;
Thomson, Nicholas R;
(2020)
'Community evolution' - laboratory strains and pedigrees in the age of genomics.
MICROBIOLOGY-SGM, 166 (3).
pp. 233-238.
ISSN 1350-0872
DOI: https://doi.org/10.1099/mic.0.000869
Nair, Satheesh;
Fookes, Maria;
Corton, Craig;
Thomson, Nicholas R;
Wain, John;
Langridge, Gemma C;
(2020)
Genetic Markers in S. Paratyphi C Reveal Primary Adaptation to Pigs.
Microorganisms, 8 (5).
p. 657.
ISSN 2076-2607
DOI: https://doi.org/10.3390/microorganisms8050657
2019
Beale, Mathew A;
Marks, Michael;
Sahi, Sharon K;
Tantalo, Lauren C;
Nori, Achyuta V;
French, Patrick;
Lukehart, Sheila A;
Marra, Christina M;
Thomson, Nicholas R;
(2019)
Genomic epidemiology of syphilis reveals independent emergence of macrolide resistance across multiple circulating lineages.
Nature communications, 10 (1).
3255-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-019-11216-7
Boinett, Christine J;
Cain, Amy K;
Hawkey, Jane;
Do Hoang, Nhu Tran;
Khanh, Nhu Nguyen Thi;
Thanh, Duy Pham;
Dordel, Janina;
Campbell, James I;
Lan, Nguyen Phu Huong;
Mayho, Matthew;
+8 more...
Langridge, Gemma C;
Hadfield, James;
Chau, Nguyen Van Vinh;
Thwaites, Guy E;
Parkhill, Julian;
Thomson, Nicholas R;
Holt, Kathryn E;
Baker, Stephen;
(2019)
Clinical and laboratory-induced colistin-resistance mechanisms in Acinetobacter baumannii.
Microbial genomics, 5 (2).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000246
Bénard, Angèle HM;
Guenou, Etienne;
Fookes, Maria;
Ateudjieu, Jerome;
Kasambara, Watipaso;
Siever, Matthew;
Rebaudet, Stanislas;
Boncy, Jacques;
Adrien, Paul;
Piarroux, Renaud;
+3 more...
Sack, David A;
Thomson, Nicholas;
Debes, Amanda K;
(2019)
Whole genome sequence of Vibrio cholerae directly from dried spotted filter paper.
PLOS NEGLECTED TROPICAL DISEASES, 13 (5).
e0007330-.
ISSN 1935-2735
DOI: https://doi.org/10.1371/journal.pntd.0007330
Dorman, Matthew J;
Domman, Daryl;
Uddin, Muhammad Ikhtear;
Sharmin, Salma;
Afrad, Mokibul Hassan;
Begum, Yasmin Ara;
Qadri, Firdausi;
Thomson, Nicholas R;
(2019)
High quality reference genomes for toxigenic and non-toxigenic Vibrio cholerae serogroup O139.
SCIENTIFIC REPORTS, 9 (1).
5865-.
ISSN 2045-2322
DOI: https://doi.org/10.1038/s41598-019-41883-x
Dorman, Matthew J;
Kane, Leanne;
Domman, Daryl;
Turnbull, Jake D;
Cormie, Claire;
Fazal, Mohammed-Abbas;
Goulding, David A;
Russell, Julie E;
Alexander, Sarah;
Thomson, Nicholas R;
(2019)
The history, genome and biology of NCTC 30: a non-pandemic Vibrio cholerae isolate from World War One.
Proceedings. Biological sciences, 286 (1900).
20182025-.
ISSN 0962-8452
DOI: https://doi.org/10.1098/rspb.2018.2025
Heinz, Eva;
Brindle, Richard;
Morgan-McCalla, Andrina;
Peters, Keisha;
Thomson, Nicholas R;
(2019)
Caribbean multi-centre study of Klebsiella pneumoniae: whole-genome sequencing, antimicrobial resistance and virulence factors.
MICROBIAL GENOMICS, 5 (5).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000266
Mellor, Kate C;
Petrovska, Liljana;
Thomson, Nicholas R;
Harris, Kate;
Reid, Stuart WJ;
Mather, Alison E;
(2019)
Antimicrobial Resistance Diversity Suggestive of Distinct Salmonella Typhimurium Sources or Selective Pressures in Food-Production Animals.
FRONTIERS IN MICROBIOLOGY, 10 (APR).
708-.
ISSN 1664-302X
DOI: https://doi.org/10.3389/fmicb.2019.00708
Mercer, Catherine H;
Clifton, Soazig;
Prior, Gillian;
Aldridge, Robert W;
Bonell, Chris;
Copas, Andrew J;
Field, Nigel;
Gibbs, Jo;
Macdowall, Wendy;
Mitchell, Kirstin R;
+4 more...
Tanton, Clare;
Thomson, Nick;
Unemo, Magnus;
Sonnenberg, Pam;
(2019)
Collecting and exploiting data to understand a nation's sexual health needs: Implications for the British National Surveys of Sexual Attitudes and Lifestyles (Natsal).
Sexually Transmitted Infections, 95 (3).
pp. 159-161.
ISSN 1368-4973
DOI: https://doi.org/10.1136/sextrans-2018-053571
Mitchell, Holly D;
Mikhail, Amy FW;
Painset, Anaïs;
Dallman, Timothy J;
Jenkins, Claire;
Thomson, Nicholas R;
Field, Nigel;
Hughes, Gwenda;
(2019)
Use of whole-genome sequencing to identify clusters of Shigella flexneri associated with sexual transmission in men who have sex with men in England: a validation study using linked behavioural data.
Microbial genomics, 5 (11).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000311
Musicha, Patrick;
Msefula, Chisomo L;
Mather, Alison E;
Chaguza, Chrispin;
Cain, Amy K;
Peno, Chikondi;
Kallonen, Teemu;
Khonga, Margaret;
Denis, Brigitte;
Gray, Katherine J;
+4 more...
Heyderman, Robert S;
Thomson, Nicholas R;
Everett, Dean B;
Feasey, Nicholas A;
(2019)
Genomic analysis of Klebsiella pneumoniae isolates from Malawi reveals acquisition of multiple ESBL determinants across diverse lineages.
Journal of Antimicrobial Chemotherapy, 74 (5).
pp. 1223-1232.
ISSN 0305-7453
DOI: https://doi.org/10.1093/jac/dkz032
Weill, François-Xavier;
Domman, Daryl;
Njamkepo, Elisabeth;
Almesbahi, Abdullrahman A;
Naji, Mona;
Nasher, Samar Saeed;
Rakesh, Ankur;
Assiri, Abdullah M;
Sharma, Naresh Chand;
Kariuki, Samuel;
+19 more...
Pourshafie, Mohammad Reza;
Rauzier, Jean;
Abubakar, Abdinasir;
Carter, Jane Y;
Wamala, Joseph F;
Seguin, Caroline;
Bouchier, Christiane;
Malliavin, Thérèse;
Bakhshi, Bita;
Abulmaali, Hayder HN;
Kumar, Dhirendra;
Njoroge, Samuel M;
Malik, Mamunur Rahman;
Kiiru, John;
Luquero, Francisco J;
Azman, Andrew S;
Ramamurthy, Thandavarayan;
Thomson, Nicholas R;
Quilici, Marie-Laure;
(2019)
Genomic insights into the 2016-2017 cholera epidemic in Yemen.
Nature, 565 (7738).
pp. 230-233.
ISSN 0028-0836
DOI: https://doi.org/10.1038/s41586-018-0818-3
2018
Baker, Kate S;
Dallman, Timothy J;
Field, Nigel;
Childs, Tristan;
Mitchell, Holly;
Day, Martin;
Weill, François-Xavier;
Lefèvre, Sophie;
Tourdjman, Mathieu;
Hughes, Gwenda;
+2 more...
Jenkins, Claire;
Thomson, Nicholas;
(2018)
Genomic epidemiology of Shigella in the United Kingdom shows transmission of pathogen sublineages and determinants of antimicrobial resistance.
Scientific reports, 8 (1).
7389-.
ISSN 2045-2322
DOI: https://doi.org/10.1038/s41598-018-25764-3
Baker, Kate S;
Dallman, Timothy J;
Field, Nigel;
Childs, Tristan;
Mitchell, Holly;
Day, Martin;
Weill, François-Xavier;
Lefèvre, Sophie;
Tourdjman, Mathieu;
Hughes, Gwenda;
+2 more...
Jenkins, Claire;
Thomson, Nicholas;
(2018)
Horizontal antimicrobial resistance transfer drives epidemics of multiple Shigella species.
Nature communications, 9 (1).
1462-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-018-03949-8
Baker, Kate S;
Dallman, Timothy J;
Thomson, Nicholas R;
Jenkins, Claire;
(2018)
An outbreak of a rare Shiga-toxin-producing Escherichia coli serotype (O117:H7) among men who have sex with men.
MICROBIAL GENOMICS, 4 (7).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000181
Baker, Stephen;
Thomson, Nicholas;
Weill, François-Xavier;
Holt, Kathryn E;
(2018)
Genomic insights into the emergence and spread of antimicrobial-resistant bacterial pathogens.
Science, 360 (6390).
pp. 733-738.
ISSN 0036-8075
DOI: https://doi.org/10.1126/science.aar3777
Behar, Adi;
Baker, Kate Susan;
Bassal, Ravit;
Ezernitchi, Analia;
Valinsky, Lea;
Thomson, Nicholas R;
Cohen, Daniel;
(2018)
Microevolution and Patterns of Transmission of Shigella sonnei within Cyclic Outbreaks Shigellosis, Israel.
EMERGING INFECTIOUS DISEASES, 24 (7).
pp. 1335-1339.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2407.171313
Cain, Amy K;
Boinett, Christine J;
Barquist, Lars;
Dordel, Janina;
Fookes, Maria;
Mayho, Matthew;
Ellington, Matthew J;
Goulding, David;
Pickard, Derek;
Wick, Ryan R;
+3 more...
Holt, Kathryn E;
Parkhill, Julian;
Thomson, Nicholas R;
(2018)
Morphological, genomic and transcriptomic responses of Klebsiella pneumoniae to the last-line antibiotic colistin.
Scientific reports, 8 (1).
9868-.
ISSN 2045-2322
DOI: https://doi.org/10.1038/s41598-018-28199-y
Domman, Daryl;
Chowdhury, Fahima;
Khan, Ashraful I;
Dorman, Matthew J;
Mutreja, Ankur;
Uddin, Muhammad Ikhtear;
Paul, Anik;
Begum, Yasmin A;
Charles, Richelle C;
Calderwood, Stephen B;
+6 more...
Bhuiyan, Taufiqur R;
Harris, Jason B;
LaRocque, Regina C;
Ryan, Edward T;
Qadri, Firdausi;
Thomson, Nicholas R;
(2018)
Defining endemic cholera at three levels of spatiotemporal resolution within Bangladesh.
Nature genetics, 50 (7).
pp. 951-955.
ISSN 1061-4036
DOI: https://doi.org/10.1038/s41588-018-0150-8
Gorrie, Claire L;
Mirceta, Mirjana;
Wick, Ryan R;
Judd, Louise M;
Wyres, Kelly L;
Thomson, Nicholas R;
Strugnell, Richard A;
Pratt, Nigel F;
Garlick, Jill S;
Watson, Kerrie M;
+5 more...
Hunter, Peter C;
McGloughlin, Steve A;
Spelman, Denis W;
Jenney, Adam WJ;
Holt, Kathryn E;
(2018)
Antimicrobial-Resistant Klebsiella pneumoniae Carriage and Infection in Specialized Geriatric Care Wards Linked to Acquisition in the Referring Hospital.
CLINICAL INFECTIOUS DISEASES, 67 (2).
pp. 161-170.
ISSN 1058-4838
DOI: https://doi.org/10.1093/cid/ciy027
Horesh, Gal;
Harms, Alexander;
Fino, Cinzia;
Parts, Leopold;
Gerdes, Kenn;
Heinz, Eva;
Thomson, Nicholas Robert;
(2018)
SLING: a tool to search for linked genes in bacterial datasets.
Nucleic acids research, 46 (21).
e128-.
ISSN 0305-1048
DOI: https://doi.org/10.1093/nar/gky738
Last, AR;
Pickering, H;
Roberts, CH;
Coll, F;
Phelan, J;
Burr, SE;
Cassama, E;
Nabicassa, M;
Seth-Smith, HMB;
Hadfield, J;
+7 more...
Cutcliffe, LT;
Clarke, IN;
Mabey, DCW;
Bailey, RL;
Clark, TG;
Thomson, NR;
Holland, MJ;
(2018)
Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity.
Genome medicine, 10 (1).
15-.
ISSN 1756-994X
DOI: https://doi.org/10.1186/s13073-018-0521-x
Longbottom, David;
Sait, Michelle;
Livingstone, Morag;
Laroucau, Karine;
Sachse, Konrad;
Harris, Simon R;
Thomson, Nicholas R;
Seth-Smith, Helena MB;
(2018)
Genomic evidence that the live Chlamydia abortus vaccine strain 1B is not attenuated and has the potential to cause disease.
VACCINE, 36 (25).
pp. 3593-3598.
ISSN 0264-410X
DOI: https://doi.org/10.1016/j.vaccine.2018.05.042
Loraine, Jessica;
Heinz, Eva;
De Sousa Almeida, Jessica;
Milevskyy, Oleksandr;
Voravuthikunchai, Supayang P;
Srimanote, Potjanee;
Kiratisin, Pattarachai;
Thomson, Nicholas R;
Taylor, Peter W;
(2018)
Complement Susceptibility in Relation to Genome Sequence of Recent Klebsiella pneumoniae Isolates from Thai Hospitals.
mSphere, 3 (6).
ISSN 2379-5042
DOI: https://doi.org/10.1128/mSphere.00537-18
Marks, Michael;
Fookes, Maria;
Wagner, Josef;
Ghinai, Rosanna;
Sokana, Oliver;
Sarkodie, Yaw-Adu;
Solomon, Anthony W;
Mabey, David CW;
Thomson, Nicholas R;
(2018)
Direct Whole-Genome Sequencing of Cutaneous Strains of Haemophilus ducreyi.
Emerging infectious diseases, 24 (4).
pp. 786-789.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2404.171726
Mather, Alison E;
Phuong, Tu Le Thi;
Gao, Yunfeng;
Clare, Simon;
Mukhopadhyay, Subhankar;
Goulding, David A;
Hoang, Nhu Tran Do;
Tuyen, Ha Thanh;
Lan, Nguyen Phu Huong;
Thompson, Corinne N;
+22 more...
Trang, Nguyen Hoang Thu;
Carrique-Mas, Juan;
Tue, Ngo Tri;
Campbell, James I;
Rabaa, Maia A;
Thanh, Duy Pham;
Harcourt, Katherine;
Hoa, Ngo Thi;
Trung, Nguyen Vinh;
Schultsz, Constance;
Perron, Gabriel G;
Coia, John E;
Brown, Derek J;
Okoro, Chinyere;
Parkhill, Julian;
Thomson, Nicholas R;
Chau, Nguyen Van Vinh;
Thwaites, Guy E;
Maskell, Duncan J;
Dougan, Gordon;
Kenney, Linda J;
Baker, Stephen;
(2018)
New Variant of Multidrug-Resistant Salmonella enterica Serovar Typhimurium Associated with Invasive Disease in Immunocompromised Patients in Vietnam.
MBIO, 9 (5).
ISSN 2150-7511
DOI: https://doi.org/10.1128/mBio.01056-18
Moore, Sandra;
Dongdem, Anthony Zunuo;
Opare, David;
Cottavoz, Paul;
Fookes, Maria;
Sadji, Adodo Yao;
Dzotsi, Emmanuel;
Dogbe, Michael;
Jeddi, Fakhri;
Bidjada, Bawimodom;
+12 more...
Piarroux, Martine;
Valentin, Ouyi Tante;
Glèlè, Clément Kakaï;
Rebaudet, Stanislas;
Sow, Amy Gassama;
Constantin de Magny, Guillaume;
Koivogui, Lamine;
Dunoyer, Jessica;
Bellet, Francois;
Garnotel, Eric;
Thomson, Nicholas;
Piarroux, Renaud;
(2018)
Dynamics of cholera epidemics from Benin to Mauritania.
PLoS neglected tropical diseases, 12 (4).
e0006379-.
ISSN 1935-2727
DOI: https://doi.org/10.1371/journal.pntd.0006379
Page, Andrew J;
Wailan, Alexander;
Shao, Yan;
Judge, Kim;
Dougan, Gordon;
Klemm, Elizabeth J;
Thomson, Nicholas R;
Keane, Jacqueline A;
(2018)
PlasmidTron: assembling the cause of phenotypes and genotypes from NGS data.
MICROBIAL GENOMICS, 4 (3).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000164
Rew, Vanessa;
Mook, Piers;
Trienekens, Suzan;
Baker, Kate S;
Dallman, Timothy J;
Jenkins, Claire;
Crook, Paul D;
Thomson, Nicholas R;
(2018)
Whole-genome sequencing revealed concurrent outbreaks of shigellosis in the English Orthodox Jewish Community caused by multiple importations of Shigella sonnei from Israel.
MICROBIAL GENOMICS, 4 (3).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000170
Skilton, Rachel J;
Wang, Yibing;
O'Neill, Colette;
Filardo, Simone;
Marsh, Peter;
Bénard, Angèle;
Thomson, Nicholas R;
Ramsey, Kyle H;
Clarke, Ian N;
(2018)
The Chlamydia muridarum plasmid revisited : new insights into growth kinetics.
Wellcome open research, 3.
25-.
ISSN 2398-502X
DOI: https://doi.org/10.12688/wellcomeopenres.13905.1
Zhou, Zhemin;
Lundstrøm, Inge;
Tran-Dien, Alicia;
Duchêne, Sebastián;
Alikhan, Nabil-Fareed;
Sergeant, Martin J;
Langridge, Gemma;
Fotakis, Anna K;
Nair, Satheesh;
Stenøien, Hans K;
+9 more...
Hamre, Stian S;
Casjens, Sherwood;
Christophersen, Axel;
Quince, Christopher;
Thomson, Nicholas R;
Weill, François-Xavier;
Ho, Simon YW;
Gilbert, M Thomas P;
Achtman, Mark;
(2018)
Pan-genome Analysis of Ancient and Modern Salmonella enterica Demonstrates Genomic Stability of the Invasive Para C Lineage for Millennia.
CURRENT BIOLOGY, 28 (15).
2420-2428.e10.
ISSN 0960-9822
DOI: https://doi.org/10.1016/j.cub.2018.05.058
2017
Baker, KS;
Campos, J;
Pichel, M;
Della Gaspera, A;
Duarte-Martínez, F;
Campos-Chacón, E;
Bolaños-Acuña, HM;
Guzmán-Verri, C;
Mather, AE;
Diaz Velasco, S;
+19 more...
Zamudio Rojas, ML;
Forbester, JL;
Connor, TR;
Keddy, KH;
Smith, AM;
López de Delgado, EA;
Angiolillo, G;
Cuaical, N;
Fernández, J;
Aguayo, C;
Morales Aguilar, M;
Valenzuela, C;
Morales Medrano, AJ;
Sirok, A;
Weiler Gustafson, N;
Diaz Guevara, PL;
Montaño, LA;
Perez, E;
Thomson, NR;
(2017)
Whole genome sequencing of Shigella sonnei through PulseNet Latin America and Caribbean: advancing global surveillance of foodborne illnesses.
Clinical microbiology and infection, 23 (11).
pp. 845-853.
ISSN 1198-743X
DOI: https://doi.org/10.1016/j.cmi.2017.03.021
Bokhari, Habib;
Ali, Amjad;
Noreen, Zobia;
Thomson, Nicholas;
Wren, Brendan W;
(2017)
Galleria mellonella is low cost and suitable surrogate host for studying virulence of human pathogenic Vibrio cholerae.
Gene, 628.
pp. 1-7.
ISSN 0378-1119
DOI: https://doi.org/10.1016/j.gene.2017.07.019
Domman, Daryl;
Quilici, Marie-Laure;
Dorman, Matthew J;
Njamkepo, Elisabeth;
Mutreja, Ankur;
Mather, Alison E;
Delgado, Gabriella;
Morales-Espinosa, Rosario;
Grimont, Patrick AD;
Lizárraga-Partida, Marcial Leonardo;
+10 more...
Bouchier, Christiane;
Aanensen, David M;
Kuri-Morales, Pablo;
Tarr, Cheryl L;
Dougan, Gordon;
Parkhill, Julian;
Campos, Josefina;
Cravioto, Alejandro;
Weill, François-Xavier;
Thomson, Nicholas R;
(2017)
Integrated view of Vibrio cholerae in the Americas.
Science (New York, NY), 358 (6364).
pp. 789-793.
ISSN 0036-8075
DOI: https://doi.org/10.1126/science.aao2136
Full text not available from this repository.
Esson, Diane;
Gupta, Srishti;
Bailey, David;
Wigley, Paul;
Wedley, Amy;
Mather, Alison E;
Méric, Guillaume;
Mastroeni, Pietro;
Sheppard, Samuel K;
Thomson, Nicholas R;
+4 more...
Parkhill, Julian;
Maskell, Duncan J;
Christie, Graham;
Grant, Andrew J;
(2017)
Identification and initial characterisation of a protein involved in Campylobacter jejuni cell shape.
Microbial pathogenesis, 104.
pp. 202-211.
ISSN 0882-4010
DOI: https://doi.org/10.1016/j.micpath.2017.01.042
Fookes, Maria C;
Hadfield, James;
Harris, Simon;
Parmar, Surendra;
Unemo, Magnus;
Jensen, Jørgen S;
Thomson, Nicholas R;
(2017)
Mycoplasma genitalium: whole genome sequence analysis, recombination and population structure.
BMC genomics, 18 (1).
993-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/s12864-017-4399-6
Garrine, Marcelino;
Mandomando, Inácio;
Vubil, Delfino;
Nhampossa, Tacilta;
Acacio, Sozinho;
Li, Shan;
Paulson, Joseph N;
Almeida, Mathieu;
Domman, Daryl;
Thomson, Nicholas R;
+2 more...
Alonso, Pedro;
Stine, Oscar Colin;
(2017)
Minimal genetic change in Vibrio cholerae in Mozambique over time: Multilocus variable number tandem repeat analysis and whole genome sequencing.
PLOS NEGLECTED TROPICAL DISEASES, 11 (6).
e0005671-.
ISSN 1935-2735
DOI: https://doi.org/10.1371/journal.pntd.0005671
Gorrie, Claire L;
Mirceta, Mirjana;
Wick, Ryan R;
Edwards, David J;
Thomson, Nicholas R;
Strugnell, Richard A;
Pratt, Nigel F;
Garlick, Jill S;
Watson, Kerri M;
Pilcher, David V;
+4 more...
McGloughlin, Steve A;
Spelman, Denis W;
Jenney, Adam WJ;
Holt, Kathryn E;
(2017)
Gastrointestinal Carriage Is a Major Reservoir of Klebsiella pneumoniae Infection in Intensive Care Patients.
CLINICAL INFECTIOUS DISEASES, 65 (2).
pp. 208-215.
ISSN 1058-4838
DOI: https://doi.org/10.1093/cid/cix270
Gorrie, Claire L;
Mirceta, Mirjana;
Wick, Ryan R;
Judd, Louise M;
Wyres, Kelly L;
Thomson, Nicholas R;
Strugnell, Richard A;
Pratt, Nigel F;
Garlick, Jill S;
Watson, Kerrie M;
+5 more...
Hunter, Peter C;
McGloughlin, Steve A;
Spelman, Denis W;
Jenney, Adam WJ;
Holt, Kathryn E;
(2017)
Antimicrobial resistant <i>Klebsiella pneumoniae</i> carriage and infection in specialized geriatric care wards linked to acquisition in the referring hospital.
BiorXiv.
DOI: https://doi.org/10.1101/218461
Hadfield, James;
Bénard, Angèle;
Domman, Daryl;
Thomson, Nicholas;
(2017)
The Hidden Genomics of Chlamydia trachomatis.
Current topics in microbiology and immunology, 412.
pp. 107-131.
ISSN 0070-217X
DOI: https://doi.org/10.1007/82_2017_39
Full text not available from this repository.
Hadfield, James;
Harris, Simon R;
Seth-Smith, Helena MB;
Parmar, Surendra;
Andersson, Patiyan;
Giffard, Philip M;
Schachter, Julius;
Moncada, Jeanne;
Ellison, Louise;
Vaulet, María Lucía Gallo;
+28 more...
Fermepin, Marcelo Rodríguez;
Radebe, Frans;
Mendoza, Suyapa;
Ouburg, Sander;
Morré, Servaas A;
Sachse, Konrad;
Puolakkainen, Mirja;
Korhonen, Suvi J;
Sonnex, Chris;
Wiggins, Rebecca;
Jalal, Hamid;
Brunelli, Tamara;
Casprini, Patrizia;
Pitt, Rachel;
Ison, Cathy;
Savicheva, Alevtina;
Shipitsyna, Elena;
Hadad, Ronza;
Kari, Laszlo;
Burton, Matthew J;
Mabey, David;
Solomon, Anthony W;
Lewis, David;
Marsh, Peter;
Unemo, Magnus;
Clarke, Ian N;
Parkhill, Julian;
Thomson, Nicholas R;
(2017)
Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion.
Genome research, 27 (7).
pp. 1220-1229.
ISSN 1088-9051
DOI: https://doi.org/10.1101/gr.212647.116
Henson, Sonal P;
Boinett, Christine J;
Ellington, Matthew J;
Kagia, Ngure;
Mwarumba, Salim;
Nyongesa, Sammy;
Mturi, Neema;
Kariuki, Samuel;
Scott, J Anthony G;
Thomson, Nicholas R;
+1 more...
Morpeth, Susan C;
(2017)
Molecular epidemiology of Klebsiella pneumoniae invasive infections over a decade at Kilifi County Hospital in Kenya.
International journal of medical microbiology, 307 (7).
pp. 422-429.
ISSN 1438-4221
DOI: https://doi.org/10.1016/j.ijmm.2017.07.006
Iguchi, Atsushi;
von Mentzer, Astrid;
Kikuchi, Taisei;
Thomson, Nicholas R;
(2017)
An untypeable enterotoxigenic Escherichia coli represents one of the dominant types causing human disease.
MICROBIAL GENOMICS, 3 (9).
e000121-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000121
Last, AR;
Pickering, H;
Roberts, Ch;
Coll, F;
Phelan, J;
Burr, SE;
Cassama, E;
Nabicassa, M;
Seth-Smith, HMB;
Hadfield, J;
+7 more...
Cutcliffe, LT;
Clarke, IN;
Mabey, DCW;
Bailey, RL;
Clark, TG;
Thomson, NR;
Holland, MJ;
(2017)
Population-based analysis of ocular<i>Chlamydia trachomatis</i>in trachoma-endemic West African communities identifies genomic markers of disease severity.
BioRxiv.
DOI: https://doi.org/10.1101/205336
Marks, Michael;
Fookes, Maria;
Wagner, Josef;
Butcher, Robert;
Ghinai, Rosanna;
Sokana, Oliver;
Sarkodie, Yaw-Adu;
Lukehart, Sheila A;
Solomon, Anthony W;
Mabey, David CW;
+1 more...
Thomson, Nicholas;
(2017)
Diagnostics for Yaws Eradication: Insights From Direct Next-Generation Sequencing of Cutaneous Strains of Treponema pallidum.
Clinical infectious diseases, 66 (6).
pp. 818-824.
ISSN 1058-4838
DOI: https://doi.org/10.1093/cid/cix892
Musicha, Patrick;
Feasey, Nicholas A;
Cain, Amy K;
Kallonen, Teemu;
Chaguza, Chrispin;
Peno, Chikondi;
Khonga, Margaret;
Thompson, Sarah;
Gray, Katherine J;
Mather, Alison E;
+4 more...
Heyderman, Robert S;
Everett, Dean B;
Thomson, Nicholas R;
Msefula, Chisomo L;
(2017)
Genomic landscape of extended-spectrum β-lactamase resistance in Escherichia coli from an urban African setting.
The Journal of antimicrobial chemotherapy, 72 (6).
pp. 1602-1609.
ISSN 0305-7453
DOI: https://doi.org/10.1093/jac/dkx058
Oshota, Olusegun;
Conway, Max;
Fookes, Maria;
Schreiber, Fernanda;
Chaudhuri, Roy R;
Yu, Lu;
Morgan, Fiona JE;
Clare, Simon;
Choudhary, Jyoti;
Thomson, Nicholas R;
+4 more...
Lio, Pietro;
Maskell, Duncan J;
Mastroeni, Pietro;
Grant, Andrew J;
(2017)
Transcriptome and proteome analysis of Salmonella enterica serovar Typhimurium systemic infection of wild type and immune-deficient mice.
PloS one, 12 (8).
e0181365-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0181365
Page, Andrew J;
Wailan, Alexander;
Shao, Yan;
Judge, Kim;
Dougan, Gordon;
Klemm, Elizabeth J;
Thomson, Nicholas R;
Keane, Jacqueline A;
(2017)
PlasmidTron: assembling the cause of phenotypes from NGS data.
BiorXiv.
DOI: https://doi.org/10.1101/188920
Pickering, Harry;
Teng, Andy;
Faal, Nkoyo;
Joof, Hassan;
Makalo, Pateh;
Cassama, Eunice;
Nabicassa, Meno;
Last, Anna R;
Burr, Sarah E;
Rowland-Jones, Sarah L;
+7 more...
Thomson, Nicholas R;
Roberts, Chrissy H;
Mabey, David CW;
Bailey, Robin L;
Hayward, Richard D;
de la Maza, Luis M;
Holland, Martin J;
(2017)
Genome-wide profiling of humoral immunity and pathogen genes under selection identifies immune evasion tactics of Chlamydia trachomatis during ocular infection.
Scientific reports, 7 (1).
9634-.
ISSN 2045-2322
DOI: https://doi.org/10.1038/s41598-017-09193-2
Ramírez-Vargas, Gabriel;
Quesada-Gómez, Carlos;
Acuña-Amador, Luis;
López-Ureña, Diana;
Murillo, Tatiana;
Del Mar Gamboa-Coronado, María;
Chaves-Olarte, Esteban;
Thomson, Nicholas;
Rodríguez-Cavallini, Evelyn;
Rodríguez, César;
(2017)
A Clostridium difficile Lineage Endemic to Costa Rican Hospitals Is Multidrug Resistant by Acquisition of Chromosomal Mutations and Novel Mobile Genetic Elements.
Antimicrobial agents and chemotherapy, 61 (4).
ISSN 0066-4804
DOI: https://doi.org/10.1128/AAC.02054-16
Seth-Smith, HMB;
Busó, Leonor Sánchez;
Livingstone, M;
Sait, M;
Harris, SR;
Aitchison, KD;
Vretou, Evangelia;
Siarkou, VI;
Laroucau, K;
Sachse, K;
+2 more...
Longbottom, D;
Thomson, NR;
(2017)
European Chlamydia abortus livestock isolate genomes reveal unusual stability and limited diversity, reflected in geographical signatures.
BMC GENOMICS, 18 (1).
344-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/s12864-017-3657-y
Seth-Smith, Helena Mb;
Galán, Juan C;
Goldenberger, Daniel;
Lewis, David A;
Peuchant, Olivia;
Bébéar, Cecile;
de Barbeyrac, Bertille;
Bénard, Angele;
Carter, Ian;
Kok, Jen;
+6 more...
Bruisten, Sylvia M;
Versteeg, Bart;
Morré, Servaas A;
Thomson, Nicholas R;
Egli, Adrian;
de Vries, Henry Jc;
(2017)
Concern regarding the alleged spread of hypervirulent lymphogranuloma venereum Chlamydia trachomatis strain in Europe.
Euro surveillance, 22 (15).
pp. 16-17.
ISSN 1025-496X
DOI: https://doi.org/10.2807/1560-7917.ES.2017.22.15.30511
Suárez-Esquivel, Marcela;
Baker, Kate S;
Ruiz-Villalobos, Nazareth;
Hernández-Mora, Gabriela;
Barquero-Calvo, Elías;
González-Barrientos, Rocío;
Castillo-Zeledón, Amanda;
Jiménez-Rojas, César;
Chacón-Díaz, Carlos;
Cloeckaert, Axel;
+4 more...
Chaves-Olarte, Esteban;
Thomson, Nicholas R;
Moreno, Edgardo;
Guzmán-Verri, Caterina;
(2017)
Brucella Genetic Variability in Wildlife Marine Mammals Populations Relates to Host Preference and Ocean Distribution.
GENOME BIOLOGY AND EVOLUTION, 9 (7).
pp. 1901-1912.
ISSN 1759-6653
DOI: https://doi.org/10.1093/gbe/evx137
Suárez-Esquivel, Marcela;
Ruiz-Villalobos, Nazareth;
Jiménez-Rojas, César;
Barquero-Calvo, Elías;
Chacón-Díaz, Carlos;
Víquez-Ruiz, Eunice;
Rojas-Campos, Norman;
Baker, Kate S;
Oviedo-Sánchez, Gerardo;
Amuy, Ernesto;
+4 more...
Chaves-Olarte, Esteban;
Thomson, Nicholas R;
Moreno, Edgardo;
Guzmán-Verri, Caterina;
(2017)
Brucella neotomae Infection in Humans, Costa Rica.
EMERGING INFECTIOUS DISEASES, 23 (6).
pp. 997-1000.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2306.162018
The, Hao Chung;
Florez de Sessions, Paola;
Jie, Song;
Pham Thanh, Duy;
Thompson, Corinne N;
Nguyen Ngoc Minh, Chau;
Chu, Collins Wenhan;
Tran, Tuan-Anh;
Thomson, Nicholas R;
Thwaites, Guy E;
+3 more...
Rabaa, Maia A;
Hibberd, Martin;
Baker, Stephen;
(2017)
Assessing gut microbiota perturbations during the early phase of infectious diarrhea in Vietnamese children.
Gut microbes, 9 (1).
pp. 38-54.
ISSN 1949-0976
DOI: https://doi.org/10.1080/19490976.2017.1361093
Thomas, Christopher M;
Thomson, Nicholas R;
Cerdeño-Tárraga, Ana M;
Brown, Celeste J;
Top, Eva M;
Frost, Laura S;
(2017)
Annotation of plasmid genes.
PLASMID, 91.
pp. 61-67.
ISSN 0147-619X
DOI: https://doi.org/10.1016/j.plasmid.2017.03.006
Torok, Estee;
Brodrick, Hayley;
Khokhar, Fahad;
Blane, Beth;
Polgarova, Petra;
Brown, Joanne;
Enoch, David;
Brown, Nicholas;
Summers, Charlotte;
Preller, Jacobus;
+4 more...
Thomson, Nick;
Dougan, Gordon;
Parkhill, Julian;
Peacock, Sharon;
(2017)
Prospective Surveillance and Rapid Whole-Genome Sequencing Detects Two Unsuspected Outbreaks of Carbapenemase-Producing Klebsiella pneumoniae in a UK Teaching Hospital.
Open Forum Infectious Diseases, 4 (suppl_).
S43-S44.
ISSN 2328-8957
DOI: https://doi.org/10.1093/ofid/ofx162.104
Weill, François-Xavier;
Domman, Daryl;
Njamkepo, Elisabeth;
Tarr, Cheryl;
Rauzier, Jean;
Fawal, Nizar;
Keddy, Karen H;
Salje, Henrik;
Moore, Sandra;
Mukhopadhyay, Asish K;
+31 more...
Bercion, Raymond;
Luquero, Francisco J;
Ngandjio, Antoinette;
Dosso, Mireille;
Monakhova, Elena;
Garin, Benoit;
Bouchier, Christiane;
Pazzani, Carlo;
Mutreja, Ankur;
Grunow, Roland;
Sidikou, Fati;
Bonte, Laurence;
Breurec, Sébastien;
Damian, Maria;
Njanpop-Lafourcade, Berthe-Marie;
Sapriel, Guillaume;
Page, Anne-Laure;
Hamze, Monzer;
Henkens, Myriam;
Chowdhury, Goutam;
Mengel, Martin;
Koeck, Jean-Louis;
Fournier, Jean-Michel;
Dougan, Gordon;
Grimont, Patrick AD;
Parkhill, Julian;
Holt, Kathryn E;
Piarroux, Renaud;
Ramamurthy, Thandavarayan;
Quilici, Marie-Laure;
Thomson, Nicholas R;
(2017)
Genomic history of the seventh pandemic of cholera in Africa.
Science (New York, NY), 358 (6364).
pp. 785-789.
ISSN 0036-8075
DOI: https://doi.org/10.1126/science.aad5901
Full text not available from this repository.
Yeung, Amy TY;
Hale, Christine;
Lee, Amy H;
Gill, Erin E;
Bushell, Wendy;
Parry-Smith, David;
Goulding, David;
Pickard, Derek;
Roumeliotis, Theodoros;
Choudhary, Jyoti;
+4 more...
Thomson, Nick;
Skarnes, William C;
Dougan, Gordon;
Hancock, Robert EW;
(2017)
Exploiting induced pluripotent stem cell-derived macrophages to unravel host factors influencing Chlamydia trachomatis pathogenesis.
NATURE COMMUNICATIONS, 8 (1).
15013-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/ncomms15013
Yeung, Amy TY;
Hale, Christine;
Lee, Amy H;
Gill, Erin E;
Bushell, Wendy;
Parry-Smith, David;
Goulding, David;
Pickard, Derek;
Roumeliotis, Theodoros;
Choudhary, Jyoti;
+4 more...
Thomson, Nick;
Skarnes, William C;
Dougan, Gordon;
Hancock, Robert EW;
(2017)
Exploiting induced pluripotent stem cell-derived macrophages to unravel host factors influencing Chlamydia trachomatis pathogenesis.
NATURE COMMUNICATIONS, 8.
ISSN 2041-1723
DOI: https://doi.org/10.1038/ncomms15013
2016
Andersson, Patiyan;
Harris, Simon R;
Smith, Helena MB Seth;
Hadfield, James;
O'Neill, Colette;
Cutcliffe, Lesley T;
Douglas, Fiona P;
Asche, L Valerie;
Mathews, John D;
Hutton, Susan I;
+5 more...
Sarovich, Derek S;
Tong, Steven YC;
Clarke, Ian N;
Thomson, Nicholas R;
Giffard, Philip M;
(2016)
Chlamydia trachomatis from Australian Aboriginal people with trachoma are polyphyletic composed of multiple distinctive lineages.
Nature communications, 7 (1).
10688-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/ncomms10688
Baker, Kate S;
Dallman, Timothy J;
Behar, Adi;
Weill, François-Xavier;
Gouali, Malika;
Sobel, Jeremy;
Fookes, Maria;
Valinsky, Lea;
Gal-Mor, Ohad;
Connor, Thomas R;
+6 more...
Nissan, Israel;
Bertrand, Sophie;
Parkhill, Julian;
Jenkins, Claire;
Cohen, Dani;
Thomson, Nicholas R;
(2016)
Travel- and Community-Based Transmission of Multidrug-Resistant Shigella sonnei Lineage among International Orthodox Jewish Communities.
EMERGING INFECTIOUS DISEASES, 22 (9).
pp. 1545-1553.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2209.151953
Chinen, Isabel;
Galas, Marcelo;
Tuduri, Ezequiel;
Viñas, Maria Rosa;
Carbonari, Carolina;
Della Gaspera, Anabella;
Nápoli, Daniela;
Aanensen, David M;
Argimón, Silvia;
Thomson, Nicholas R;
+25 more...
Hughes, Darren;
Baker, Stephen;
Guzmán-Verri, Caterina;
Holden, Matthew TG;
Abdala, Alejandra M;
Alvarez, Lucia P;
Alvez, Beatriz;
Barros, Rosana;
Budall, Shirley;
Campano, Constanza;
Chamosa, Luciana S;
Cheddie, Paul;
Cisterna, Daniel;
De Belder, Denise;
Dropa, Milena;
Durand, David;
Elena, Alan;
Fontecha, Gustavo;
Huber, Claudia;
Lemos, Ana Paula;
Melli, Luciano;
Paul, Roxana Elizabeth;
Suarez, Lesly;
Torres Flores, Julian;
Campos, Josefina;
(2016)
Whole genome sequencing identifies independent outbreaks of Shigellosis in 2010 and 2011 in La Pampa Province, Argentina.
BiorXiv.
DOI: https://doi.org/10.1101/049940
Chung The, Hao;
Rabaa, Maia A;
Pham Thanh, Duy;
De Lappe, Niall;
Cormican, Martin;
Valcanis, Mary;
Howden, Benjamin P;
Wangchuk, Sonam;
Bodhidatta, Ladaporn;
Mason, Carl J;
+12 more...
Nguyen Thi Nguyen, To;
Vu Thuy, Duong;
Thompson, Corinne N;
Phu Huong Lan, Nguyen;
Voong Vinh, Phat;
Ha Thanh, Tuyen;
Turner, Paul;
Sar, Poda;
Thwaites, Guy;
Thomson, Nicholas R;
Holt, Kathryn E;
Baker, Stephen;
(2016)
South Asia as a Reservoir for the Global Spread of Ciprofloxacin-Resistant Shigella sonnei: A Cross-Sectional Study.
PLoS medicine, 13 (8).
e1002055-.
ISSN 1549-1277
DOI: https://doi.org/10.1371/journal.pmed.1002055
Connor, Thomas R;
Owen, Sian V;
Langridge, Gemma;
Connell, Steve;
Nair, Satheesh;
Reuter, Sandra;
Dallman, Timothy J;
Corander, Jukka;
Tabing, Kristine C;
Le Hello, Simon;
+15 more...
Fookes, Maria;
Doublet, Benoît;
Zhou, Zhemin;
Feltwell, Theresa;
Ellington, Matthew J;
Herrera, Silvia;
Gilmour, Matthew;
Cloeckaert, Axel;
Achtman, Mark;
Parkhill, Julian;
Wain, John;
De Pinna, Elizabeth;
Weill, François-Xavier;
Peters, Tansy;
Thomson, Nick;
(2016)
What's in a Name? Species-Wide Whole-Genome Sequencing Resolves Invasive and Noninvasive Lineages of Salmonella enterica Serotype Paratyphi B.
mBio, 7 (4).
ISSN 2150-7511
DOI: https://doi.org/10.1128/mBio.00527-16
Di Pilato, Vincenzo;
Chiarelli, Adriana;
Boinett, Christine J;
Riccobono, Eleonora;
Harris, Simon R;
D'Andrea, Marco Maria;
Thomson, Nicholas R;
Rossolini, Gian Maria;
Giani, Tommaso;
(2016)
Complete Genome Sequence of the First KPC-Type Carbapenemase-Positive Proteus mirabilis Strain from a Bloodstream Infection.
Genome announcements, 4 (3).
ISSN 2169-8287
DOI: https://doi.org/10.1128/genomeA.00607-16
Esson, Diane;
Mather, Alison E;
Scanlan, Eoin;
Gupta, Srishti;
de Vries, Stefan PW;
Bailey, David;
Harris, Simon R;
McKinley, Trevelyan J;
Méric, Guillaume;
Berry, Sophia K;
+7 more...
Mastroeni, Pietro;
Sheppard, Samuel K;
Christie, Graham;
Thomson, Nicholas R;
Parkhill, Julian;
Maskell, Duncan J;
Grant, Andrew J;
(2016)
Genomic variations leading to alterations in cell morphology of Campylobacter spp.
Scientific reports, 6 (1).
38303-.
ISSN 2045-2322
DOI: https://doi.org/10.1038/srep38303
Feasey, Nicholas A;
Hadfield, James;
Keddy, Karen H;
Dallman, Timothy J;
Jacobs, Jan;
Deng, Xiangyu;
Wigley, Paul;
Barquist, Lars;
Langridge, Gemma C;
Feltwell, Theresa;
+37 more...
Harris, Simon R;
Mather, Alison E;
Fookes, Maria;
Aslett, Martin;
Msefula, Chisomo;
Kariuki, Samuel;
Maclennan, Calman A;
Onsare, Robert S;
Weill, François-Xavier;
Le Hello, Simon;
Smith, Anthony M;
McClelland, Michael;
Desai, Prerak;
Parry, Christopher M;
Cheesbrough, John;
French, Neil;
Campos, Josefina;
Chabalgoity, Jose A;
Betancor, Laura;
Hopkins, Katie L;
Nair, Satheesh;
Humphrey, Tom J;
Lunguya, Octavie;
Cogan, Tristan A;
Tapia, Milagritos D;
Sow, Samba O;
Tennant, Sharon M;
Bornstein, Kristin;
Levine, Myron M;
Lacharme-Lora, Lizeth;
Everett, Dean B;
Kingsley, Robert A;
Parkhill, Julian;
Heyderman, Robert S;
Dougan, Gordon;
Gordon, Melita A;
Thomson, Nicholas R;
(2016)
Distinct Salmonella Enteritidis lineages associated with enterocolitis in high-income settings and invasive disease in low-income settings.
Nature genetics, 48 (10).
pp. 1211-1217.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng.3644
Follador, Rainer;
Heinz, Eva;
Wyres, Kelly L;
Ellington, Matthew J;
Kowarik, Michael;
Holt, Kathryn E;
Thomson, Nicholas R;
(2016)
The diversity of Klebsiella pneumoniae surface polysaccharides.
Microbial genomics, 2 (8).
e000073-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000073
Jones-Dias, Daniela;
Clemente, Lurdes;
Egas, Conceição;
Froufe, Hugo;
Sampaio, Daniel A;
Vieira, Luís;
Fookes, Maria;
Thomson, Nicholas R;
Manageiro, Vera;
Caniça, Manuela;
(2016)
Salmonella Enteritidis Isolate Harboring Multiple Efflux Pumps and Pathogenicity Factors, Shows Absence of O Antigen Polymerase Gene.
FRONTIERS IN MICROBIOLOGY, 7 (AUG).
1130-.
ISSN 1664-302X
DOI: https://doi.org/10.3389/fmicb.2016.01130
Karlsson, Stefan L;
Thomson, Nicholas;
Mutreja, Ankur;
Connor, Thomas;
Sur, Dipika;
Ali, Mohammad;
Clemens, John;
Dougan, Gordon;
Holmgren, Jan;
Lebens, Michael;
(2016)
Retrospective Analysis of Serotype Switching of Vibrio cholerae O1 in a Cholera Endemic Region Shows It Is a Non-random Process.
PLoS neglected tropical diseases, 10 (10).
e0005044-.
ISSN 1935-2727
DOI: https://doi.org/10.1371/journal.pntd.0005044
Labbate, Maurizio;
Orata, Fabini D;
Petty, Nicola K;
Jayatilleke, Nathasha D;
King, William L;
Kirchberger, Paul C;
Allen, Chris;
Mann, Gulay;
Mutreja, Ankur;
Thomson, Nicholas R;
+2 more...
Boucher, Yan;
Charles, Ian G;
(2016)
A genomic island in Vibrio cholerae with VPI-1 site-specific recombination characteristics contains CRISPR-Cas and type VI secretion modules.
SCIENTIFIC REPORTS, 6 (1).
36891-.
ISSN 2045-2322
DOI: https://doi.org/10.1038/srep36891
Mather, Alison E;
Lawson, Becki;
de Pinna, Elizabeth;
Wigley, Paul;
Parkhill, Julian;
Thomson, Nicholas R;
Page, Andrew J;
Holmes, Mark A;
Paterson, Gavin K;
(2016)
Genomic Analysis of Salmonella enterica Serovar Typhimurium from Wild Passerines in England and Wales.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 82 (22).
pp. 6728-6735.
ISSN 0099-2240
DOI: https://doi.org/10.1128/AEM.01660-16
McNally, Alan;
Thomson, Nicholas R;
Reuter, Sandra;
Wren, Brendan W;
(2016)
'Add, stir and reduce': Yersinia spp. as model bacteria for pathogen evolution.
Nature reviews Microbiology, 14 (3).
pp. 177-190.
ISSN 1740-1526
DOI: https://doi.org/10.1038/nrmicro.2015.29
Full text not available from this repository.
Njamkepo, Elisabeth;
Fawal, Nizar;
Tran-Dien, Alicia;
Hawkey, Jane;
Strockbine, Nancy;
Jenkins, Claire;
Talukder, Kaisar A;
Bercion, Raymond;
Kuleshov, Konstantin;
Kolínská, Renáta;
+62 more...
Russell, Julie E;
Kaftyreva, Lidia;
Accou-Demartin, Marie;
Karas, Andreas;
Vandenberg, Olivier;
Mather, Alison E;
Mason, Carl J;
Page, Andrew J;
Ramamurthy, Thandavarayan;
Bizet, Chantal;
Gamian, Andrzej;
Carle, Isabelle;
Sow, Amy Gassama;
Bouchier, Christiane;
Wester, Astrid Louise;
Lejay-Collin, Monique;
Fonkoua, Marie-Christine;
Le Hello, Simon;
Blaser, Martin J;
Jernberg, Cecilia;
Ruckly, Corinne;
Mérens, Audrey;
Page, Anne-Laure;
Aslett, Martin;
Roggentin, Peter;
Fruth, Angelika;
Denamur, Erick;
Venkatesan, Malabi;
Bercovier, Hervé;
Bodhidatta, Ladaporn;
Chiou, Chien-Shun;
Clermont, Dominique;
Colonna, Bianca;
Egorova, Svetlana;
Pazhani, Gururaja P;
Ezernitchi, Analia V;
Guigon, Ghislaine;
Harris, Simon R;
Izumiya, Hidemasa;
Korzeniowska-Kowal, Agnieszka;
Lutyńska, Anna;
Gouali, Malika;
Grimont, Francine;
Langendorf, Céline;
Marejková, Monika;
Peterson, Lorea AM;
Perez-Perez, Guillermo;
Ngandjio, Antoinette;
Podkolzin, Alexander;
Souche, Erika;
Makarova, Mariia;
Shipulin, German A;
Ye, Changyun;
Žemličková, Helena;
Herpay, Mária;
Grimont, Patrick AD;
Parkhill, Julian;
Sansonetti, Philippe;
Holt, Kathryn E;
Brisse, Sylvain;
Thomson, Nicholas R;
Weill, François-Xavier;
(2016)
Global phylogeography and evolutionary history of Shigella dysenteriae type 1.
Nature microbiology, 1 (4).
16027-.
ISSN 2058-5276
DOI: https://doi.org/10.1038/nmicrobiol.2016.27
Full text not available from this repository.
Pollard, Dominic J;
Young, Joanna C;
Covarelli, Valentina;
Herrera-León, Silvia;
Connor, Thomas R;
Fookes, Maria;
Walker, Danielle;
Echeita, Aurora;
Thomson, Nicholas R;
Berger, Cedric N;
+1 more...
Frankel, Gad;
(2016)
The Type III Secretion System Effector SeoC of Salmonella enterica subsp. salamae and S. enterica subsp. arizonae ADP-Ribosylates Src and Inhibits Opsonophagocytosis.
Infection and immunity, 84 (12).
pp. 3618-3628.
ISSN 0019-9567
DOI: https://doi.org/10.1128/IAI.00704-16
Skipp, Paul JS;
Hughes, Chris;
McKenna, Thérèse;
Edwards, Richard;
Langridge, James;
Thomson, Nicholas R;
Clarke, Ian N;
(2016)
Quantitative Proteomics of the Infectious and Replicative Forms of Chlamydia trachomatis.
PLOS ONE, 11 (2).
e0149011-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0149011
Suárez-Esquivel, Marcela;
Ruiz-Villalobos, Nazareth;
Castillo-Zeledón, Amanda;
Jiménez-Rojas, César;
Roop Ii, R Martin;
Comerci, Diego J;
Barquero-Calvo, Elías;
Chacón-Díaz, Carlos;
Caswell, Clayton C;
Baker, Kate S;
+6 more...
Chaves-Olarte, Esteban;
Thomson, Nicholas R;
Moreno, Edgardo;
Letesson, Jean J;
De Bolle, Xavier;
Guzmán-Verri, Caterina;
(2016)
Brucella abortus Strain 2308 Wisconsin Genome: Importance of the Definition of Reference Strains.
Frontiers in microbiology, 7 (SEP).
1557-.
ISSN 1664-302X
DOI: https://doi.org/10.3389/fmicb.2016.01557
The, Hao Chung;
Thanh, Duy Pham;
Holt, Kathryn E;
Thomson, Nicholas R;
Baker, Stephen;
(2016)
The genomic signatures of Shigella evolution, adaptation and geographical spread.
Nature reviews Microbiology, 14 (4).
pp. 235-250.
ISSN 1740-1526
DOI: https://doi.org/10.1038/nrmicro.2016.10
Full text not available from this repository.
Wyres, Kelly L;
Wick, Ryan R;
Gorrie, Claire;
Jenney, Adam;
Follador, Rainer;
Thomson, Nicholas R;
Holt, Kathryn E;
(2016)
Identification of Klebsiella capsule synthesis loci from whole genome data.
Microbial genomics, 2 (12).
e000102-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000102
Wyres, Kelly L;
Wick, Ryan R;
Gorrie, Claire;
Jenney, Adam;
Follador, Rainer;
Thomson, Nicholas R;
Holt, Kathryn E;
(2016)
Identification of<i>Klebsiella</i>capsule synthesis loci from whole genome data.
BioRxiv.
DOI: https://doi.org/10.1101/071415
2015
Baker, Kate S;
Burnett, Edward;
McGregor, Hannah;
Deheer-Graham, Ana;
Boinett, Christine;
Langridge, Gemma C;
Wailan, Alexander M;
Cain, Amy K;
Thomson, Nicholas R;
Russell, Julie E;
+1 more...
Parkhill, Julian;
(2015)
The Murray collection of pre-antibiotic era Enterobacteriacae: a unique research resource.
Genome medicine, 7 (1).
97-.
ISSN 1756-994X
DOI: https://doi.org/10.1186/s13073-015-0222-7
Baker, Kate S;
Dallman, Timothy J;
Ashton, Philip M;
Day, Martin;
Hughes, Gwenda;
Crook, Paul D;
Gilbart, Victoria L;
Zittermann, Sandra;
Allen, Vanessa G;
Howden, Benjamin P;
+19 more...
Tomita, Takehiro;
Valcanis, Mary;
Harris, Simon R;
Connor, Thomas R;
Sintchenko, Vitali;
Howard, Peter;
Brown, Jeremy D;
Petty, Nicola K;
Gouali, Malika;
Thanh, Duy Pham;
Keddy, Karen H;
Smith, Anthony M;
Talukder, Kaisar A;
Faruque, Shah M;
Parkhill, Julian;
Baker, Stephen;
Weill, François-Xavier;
Jenkins, Claire;
Thomson, Nicholas R;
(2015)
Intercontinental dissemination of azithromycin-resistant shigellosis through sexual transmission: a cross-sectional study.
The Lancet infectious diseases, 15 (8).
pp. 913-921.
ISSN 1473-3099
DOI: https://doi.org/10.1016/S1473-3099(15)00002-X
Full text not available from this repository.
Bentley, Stephen;
Thomson, Nicholas;
(2015)
70th Anniversary Collection for the Microbiology Society: Microbial Genomics.
MICROBIAL GENOMICS, 1 (6).
e000040-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000040
Chowdhury, Fahima;
Mather, Alison E;
Begum, Yasmin Ara;
Asaduzzaman, Muhammad;
Baby, Nabilah;
Sharmin, Salma;
Biswas, Rajib;
Uddin, Muhammad Ikhtear;
LaRocque, Regina C;
Harris, Jason B;
+5 more...
Calderwood, Stephen B;
Ryan, Edward T;
Clemens, John D;
Thomson, Nicholas R;
Qadri, Firdausi;
(2015)
Vibrio cholerae Serogroup O139: Isolation from Cholera Patients and Asymptomatic Household Family Members in Bangladesh between 2013 and 2014.
PLoS neglected tropical diseases, 9 (11).
e0004183-.
ISSN 1935-2727
DOI: https://doi.org/10.1371/journal.pntd.0004183
Chung The, Hao;
Karkey, Abhilasha;
Pham Thanh, Duy;
Boinett, Christine J;
Cain, Amy K;
Ellington, Matthew;
Baker, Kate S;
Dongol, Sabina;
Thompson, Corinne;
Harris, Simon R;
+11 more...
Jombart, Thibaut;
Le Thi Phuong, Tu;
Tran Do Hoang, Nhu;
Ha Thanh, Tuyen;
Shretha, Shrijana;
Joshi, Suchita;
Basnyat, Buddha;
Thwaites, Guy;
Thomson, Nicholas R;
Rabaa, Maia A;
Baker, Stephen;
(2015)
A high-resolution genomic analysis of multidrug-resistant hospital outbreaks of Klebsiella pneumoniae.
EMBO molecular medicine, 7 (3).
pp. 227-239.
ISSN 1757-4676
DOI: https://doi.org/10.15252/emmm.201404767
Chung The, Hao;
Rabaa, Maia A;
Thanh, Duy Pham;
Ruekit, Sirigade;
Wangchuk, Sonam;
Dorji, Tshering;
Tshering, Kinzang Pem;
Nguyen, To Nguyen Thi;
Vinh, Phat Voong;
Thanh, Tuyen Ha;
+9 more...
Minh, Chau Nguyen Ngoc;
Turner, Paul;
Sar, Poda;
Thwaites, Guy;
Holt, Kathryn E;
Thomson, Nicholas R;
Bodhidatta, Ladaporn;
Jeffries Mason, Carl;
Baker, Stephen;
(2015)
Introduction and establishment of fluoroquinolone-resistant Shigella sonnei into Bhutan.
Microbial genomics, 1 (6).
e000042-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000042
Connor, Thomas R;
Barker, Clare R;
Baker, Kate S;
Weill, François-Xavier;
Talukder, Kaisar Ali;
Smith, Anthony M;
Baker, Stephen;
Gouali, Malika;
Pham Thanh, Duy;
Jahan Azmi, Ishrat;
+10 more...
Dias da Silveira, Wanderley;
Semmler, Torsten;
Wieler, Lothar H;
Jenkins, Claire;
Cravioto, Alejandro;
Faruque, Shah M;
Parkhill, Julian;
Wook Kim, Dong;
Keddy, Karen H;
Thomson, Nicholas R;
(2015)
Species-wide whole genome sequencing reveals historical global spread and recent local persistence in Shigella flexneri.
eLife, 4 (AUGUST).
e07335-.
ISSN 2050-084X
DOI: https://doi.org/10.7554/eLife.07335
Hjerde, Erik;
Karlsen, Christian;
Sørum, Henning;
Parkhill, Julian;
Willassen, Nils Peder;
Thomson, Nicholas R;
(2015)
Co-cultivation and transcriptome sequencing of two co-existing fish pathogens Moritella viscosa and Aliivibrio wodanis.
BMC GENOMICS, 16 (1).
447-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/s12864-015-1669-z
Holt, Kathryn E;
Wertheim, Heiman;
Zadoks, Ruth N;
Baker, Stephen;
Whitehouse, Chris A;
Dance, David;
Jenney, Adam;
Connor, Thomas R;
Hsu, Li Yang;
Severin, Juliëtte;
+18 more...
Brisse, Sylvain;
Cao, Hanwei;
Wilksch, Jonathan;
Gorrie, Claire;
Schultz, Mark B;
Edwards, David J;
Nguyen, Kinh Van;
Nguyen, Trung Vu;
Dao, Trinh Tuyet;
Mensink, Martijn;
Minh, Vien Le;
Nhu, Nguyen Thi Khanh;
Schultsz, Constance;
Kuntaman, Kuntaman;
Newton, Paul N;
Moore, Catrin E;
Strugnell, Richard A;
Thomson, Nicholas R;
(2015)
Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella pneumoniae, an urgent threat to public health.
Proceedings of the National Academy of Sciences of the United States of America, 112 (27).
E3574-E3581.
ISSN 0027-8424
DOI: https://doi.org/10.1073/pnas.1501049112
Full text not available from this repository.
Le, Vien;
Nhu, Nguyen Thi Khanh;
Cerdeno-Tarraga, Ana;
Campbell, James I;
Tuyen, Ha Thanh;
Nhu, Tran Do Hoang;
Tam, Pham Thi Thanh;
Schultsz, Constance;
Thwaites, Guy;
Thomson, Nicholas R;
+1 more...
Baker, Stephen;
(2015)
Genetic characterization of three qnrS1-harbouring multidrug-resistance plasmids and qnrS1-containing transposons circulating in Ho Chi Minh City, Vietnam.
Journal of medical microbiology, 64 (8).
pp. 869-878.
ISSN 0022-2615
DOI: https://doi.org/10.1099/jmm.0.000100
Miwanda, Berthe;
Moore, Sandra;
Muyembe, Jean-Jacques;
Nguefack-Tsague, Georges;
Kabangwa, Ickel Kakongo;
Ndjakani, Daniel Yassa;
Mutreja, Ankur;
Thomson, Nicholas;
Thefenne, Helene;
Garnotel, Eric;
+4 more...
Tshapenda, Gaston;
Kakongo, Denis Kandolo;
Kalambayi, Guy;
Piarroux, Renaud;
(2015)
Antimicrobial Drug Resistance of Vibrio cholerae, Democratic Republic of the Congo.
Emerging infectious diseases, 21 (5).
pp. 847-851.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2105.141233
Moore, Sandra;
Miwanda, Berthe;
Sadji, Adodo Yao;
Thefenne, Hélène;
Jeddi, Fakhri;
Rebaudet, Stanislas;
de Boeck, Hilde;
Bidjada, Bawimodom;
Depina, Jean-Jacques;
Bompangue, Didier;
+9 more...
Abedi, Aaron Aruna;
Koivogui, Lamine;
Keita, Sakoba;
Garnotel, Eric;
Plisnier, Pierre-Denis;
Ruimy, Raymond;
Thomson, Nicholas;
Muyembe, Jean-Jacques;
Piarroux, Renaud;
(2015)
Relationship between Distinct African Cholera Epidemics Revealed via MLVA Haplotyping of 337 Vibrio cholerae Isolates.
PLoS neglected tropical diseases, 9 (6).
e0003817-.
ISSN 1935-2727
DOI: https://doi.org/10.1371/journal.pntd.0003817
Njoroge, Samuel M;
Boinett, Christine J;
Madé, Laure F;
Ouko, Tom T;
Fèvre, Eric M;
Thomson, Nicholas R;
Kariuki, Samuel;
(2015)
A putative, novel coli surface antigen 8B (CS8B) of enterotoxigenic Escherichia coli.
PATHOGENS AND DISEASE, 73 (7).
ftv047-ftv047.
ISSN 2049-632X
DOI: https://doi.org/10.1093/femspd/ftv047
Olasz, Ferenc;
Nagy, Tibor;
Szabó, Móni;
Kiss, János;
Szmolka, Ama;
Barta, Endre;
van Tonder, Andries;
Thomson, Nicholas;
Barrow, Paul;
Nagy, Béla;
(2015)
Genome Sequences of Three Salmonella enterica subsp. enterica Serovar Infantis Strains from Healthy Broiler Chicks in Hungary and in the United Kingdom.
Genome announcements, 3 (1).
ISSN 2169-8287
DOI: https://doi.org/10.1128/genomeA.01468-14
Rapa, Rita A;
Islam, Atiqul;
Monahan, Leigh G;
Mutreja, Ankur;
Thomson, Nicholas;
Charles, Ian G;
Stokes, Harold W;
Labbate, Maurizio;
(2015)
A genomic island integrated into recA of Vibrio cholerae contains a divergent recA and provides multi-pathway protection from DNA damage.
ENVIRONMENTAL MICROBIOLOGY, 17 (4).
pp. 1090-1102.
ISSN 1462-2912
DOI: https://doi.org/10.1111/1462-2920.12512
Reuter, Sandra;
Corander, Jukka;
de Been, Mark;
Harris, Simon;
Cheng, Lu;
Hall, Miquette;
Thomson, Nicholas R;
McNally, Alan;
(2015)
Directional gene flow and ecological separation in Yersinia enterocolitica.
Microbial genomics, 1 (3).
e000030-.
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000030
Vehkala, Minna;
Shubin, Mikhail;
Connor, Thomas R;
Thomson, Nicholas R;
Corander, Jukka;
(2015)
Novel R pipeline for analyzing Biolog Phenotypic MicroArray data.
PloS one, 10 (3).
e0118392-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0118392
Wong, Vanessa K;
Baker, Stephen;
Pickard, Derek J;
Parkhill, Julian;
Page, Andrew J;
Feasey, Nicholas A;
Kingsley, Robert A;
Thomson, Nicholas R;
Keane, Jacqueline A;
Weill, François-Xavier;
+64 more...
Edwards, David J;
Hawkey, Jane;
Harris, Simon R;
Mather, Alison E;
Cain, Amy K;
Hadfield, James;
Hart, Peter J;
Thieu, Nga Tran Vu;
Klemm, Elizabeth J;
Glinos, Dafni A;
Breiman, Robert F;
Watson, Conall H;
Kariuki, Samuel;
Gordon, Melita A;
Heyderman, Robert S;
Okoro, Chinyere;
Jacobs, Jan;
Lunguya, Octavie;
Edmunds, W John;
Msefula, Chisomo;
Chabalgoity, Jose A;
Kama, Mike;
Jenkins, Kylie;
Dutta, Shanta;
Marks, Florian;
Campos, Josefina;
Thompson, Corinne;
Obaro, Stephen;
MacLennan, Calman A;
Dolecek, Christiane;
Keddy, Karen H;
Smith, Anthony M;
Parry, Christopher M;
Karkey, Abhilasha;
Mulholland, E Kim;
Campbell, James I;
Dongol, Sabina;
Basnyat, Buddha;
Dufour, Muriel;
Bandaranayake, Don;
Naseri, Take Toleafoa;
Singh, Shalini Pravin;
Hatta, Mochammad;
Newton, Paul;
Onsare, Robert S;
Isaia, Lupeoletalalei;
Dance, David;
Davong, Viengmon;
Thwaites, Guy;
Wijedoru, Lalith;
Crump, John A;
De Pinna, Elizabeth;
Nair, Satheesh;
Nilles, Eric J;
Thanh, Duy Pham;
Turner, Paul;
Soeng, Sona;
Valcanis, Mary;
Powling, Joan;
Dimovski, Karolina;
Hogg, Geoff;
Farrar, Jeremy;
Holt, Kathryn E;
Dougan, Gordon;
(2015)
Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intracontinental transmission events.
Nature genetics, 47 (6).
pp. 632-639.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng.3281
Full text not available from this repository.
2014
Abd El Ghany, Moataz;
Chander, Jagadish;
Mutreja, Ankur;
Rashid, Mamoon;
Hill-Cawthorne, Grant A;
Ali, Shahjahan;
Naeem, Raeece;
Thomson, Nicholas R;
Dougan, Gordon;
Pain, Arnab;
(2014)
The population structure of Vibrio cholerae from the Chandigarh Region of Northern India.
PLOS NEGLECTED TROPICAL DISEASES, 8 (7).
e2981-.
ISSN 1935-2735
DOI: https://doi.org/10.1371/journal.pntd.0002981
Ashton, Philip M;
Baker, Kate S;
Gentle, Amy;
Wooldridge, David J;
Thomson, Nicholas R;
Dallman, Timothy J;
Jenkins, Claire;
(2014)
Draft genome sequences of the type strains of Shigella flexneri held at Public Health England: comparison of classical phenotypic and novel molecular assays with whole genome sequence.
GUT PATHOGENS, 6 (1).
7-.
ISSN 1757-4749
DOI: https://doi.org/10.1186/1757-4749-6-7
Baker, Kate S;
Mather, Alison E;
McGregor, Hannah;
Coupland, Paul;
Langridge, Gemma C;
Day, Martin;
Deheer-Graham, Ana;
Parkhill, Julian;
Russell, Julie E;
Thomson, Nicholas R;
(2014)
The extant World War 1 dysentery bacillus NCTC1: a genomic analysis.
Lancet, 384 (9955).
pp. 1691-1697.
ISSN 0140-6736
DOI: https://doi.org/10.1016/S0140-6736(14)61789-X
Iguchi, Atsushi;
Iyoda, Sunao;
Kikuchi, Taisei;
Ogura, Yoshitoshi;
Katsura, Keisuke;
Ohnishi, Makoto;
Hayashi, Tetsuya;
Thomson, Nicholas R;
(2014)
A complete view of the genetic diversity of the Escherichia coli O-antigen biosynthesis gene cluster.
DNA research, 22 (1).
pp. 101-107.
ISSN 1340-2838
DOI: https://doi.org/10.1093/dnares/dsu043
Iguchi, Atsushi;
Nagaya, Yutaka;
Pradel, Elizabeth;
Ooka, Tadasuke;
Ogura, Yoshitoshi;
Katsura, Keisuke;
Kurokawa, Ken;
Oshima, Kenshiro;
Hattori, Masahira;
Parkhill, Julian;
+6 more...
Sebaihia, Mohamed;
Coulthurst, Sarah J;
Gotoh, Naomasa;
Thomson, Nicholas R;
Ewbank, Jonathan J;
Hayashi, Tetsuya;
(2014)
Genome evolution and plasticity of Serratia marcescens, an important multidrug-resistant nosocomial pathogen.
Genome biology and evolution, 6 (8).
pp. 2096-2110.
ISSN 1759-6653
DOI: https://doi.org/10.1093/gbe/evu160
Lindgreen, Stinus;
Umu, Sinan Uğur;
Lai, Alicia Sook-Wei;
Eldai, Hisham;
Liu, Wenting;
McGimpsey, Stephanie;
Wheeler, Nicole E;
Biggs, Patrick J;
Thomson, Nick R;
Barquist, Lars;
+2 more...
Poole, Anthony M;
Gardner, Paul P;
(2014)
Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling.
PLOS COMPUTATIONAL BIOLOGY, 10 (10).
e1003907-.
ISSN 1553-7358
DOI: https://doi.org/10.1371/journal.pcbi.1003907
Mather, Alison E;
Baker, Kate S;
McGregor, Hannah;
Coupland, Paul;
Mather, Pamela L;
Deheer-Graham, Ana;
Parkhill, Julian;
Bracegirdle, Philippa;
Russell, Julie E;
Thomson, Nicholas R;
(2014)
Bacillary dysentery from World War 1 and NCTC1, the first bacterial isolate in the National Collection.
Lancet, 384 (9955).
1720-.
ISSN 0140-6736
DOI: https://doi.org/10.1016/S0140-6736(14)61790-6
Full text not available from this repository.
Reuter, Sandra;
Connor, Thomas R;
Barquist, Lars;
Walker, Danielle;
Feltwell, Theresa;
Harris, Simon R;
Fookes, Maria;
Hall, Miquette E;
Petty, Nicola K;
Fuchs, Thilo M;
+23 more...
Corander, Jukka;
Dufour, Muriel;
Ringwood, Tamara;
Savin, Cyril;
Bouchier, Christiane;
Martin, Liliane;
Miettinen, Minna;
Shubin, Mikhail;
Riehm, Julia M;
Laukkanen-Ninios, Riikka;
Sihvonen, Leila M;
Siitonen, Anja;
Skurnik, Mikael;
Falcão, Juliana Pfrimer;
Fukushima, Hiroshi;
Scholz, Holger C;
Prentice, Michael B;
Wren, Brendan W;
Parkhill, Julian;
Carniel, Elisabeth;
Achtman, Mark;
McNally, Alan;
Thomson, Nicholas R;
(2014)
Parallel independent evolution of pathogenicity within the genus Yersinia.
Proceedings of the National Academy of Sciences of the United States of America, 111 (18).
pp. 6768-6773.
ISSN 0027-8424
DOI: https://doi.org/10.1073/pnas.1317161111
Full text not available from this repository.
Sigar, Ira M;
Schripsema, Justin H;
Wang, Yibing;
Clarke, Ian N;
Cutcliffe, Lesley T;
Seth-Smith, Helena MB;
Thomson, Nicholas R;
Bjartling, Carina;
Unemo, Magnus;
Persson, Kenneth;
+1 more...
Ramsey, Kyle H;
(2014)
Plasmid deficiency in urogenital isolates of Chlamydia trachomatis reduces infectivity and virulence in a mouse model.
PATHOGENS AND DISEASE, 70 (1).
pp. 61-69.
ISSN 2049-632X
DOI: https://doi.org/10.1111/2049-632X.12086
Vergara-Irigaray, Marta;
Fookes, Maria C;
Thomson, Nicholas R;
Tang, Christoph M;
(2014)
RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri.
BMC GENOMICS, 15 (1).
438-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-15-438
2013
Bronowski, Christina;
Fookes, Maria C;
Gilderthorp, Ruth;
Ashelford, Kevin E;
Harris, Simon R;
Phiri, Amos;
Hall, Neil;
Gordon, Melita A;
Wain, John;
Hart, Charles A;
+3 more...
Wigley, Paul;
Thomson, Nicholas R;
Winstanley, Craig;
(2013)
Genomic characterisation of invasive non-typhoidal Salmonella enterica Subspecies enterica Serovar Bovismorbificans isolates from Malawi.
PLOS NEGLECTED TROPICAL DISEASES, 7 (11).
e2557-.
ISSN 1935-2735
DOI: https://doi.org/10.1371/journal.pntd.0002557
Davies, Mark R;
Broadbent, Sarah E;
Harris, Simon R;
Thomson, Nicholas R;
van der Woude, Marjan W;
(2013)
Horizontally acquired glycosyltransferase operons drive salmonellae lipopolysaccharide diversity.
PLoS genetics, 9 (6).
e1003568-.
ISSN 1553-7390
DOI: https://doi.org/10.1371/journal.pgen.1003568
Holt, Kathryn E;
Thieu Nga, Tran Vu;
Thanh, Duy Pham;
Vinh, Ha;
Kim, Dong Wook;
Vu Tra, My Phan;
Campbell, James I;
Hoang, Nguyen Van Minh;
Vinh, Nguyen Thanh;
Minh, Pham Van;
+20 more...
Thuy, Cao Thu;
Nga, Tran Thi Thu;
Thompson, Corinne;
Dung, Tran Thi Ngoc;
Nhu, Nguyen Thi Khanh;
Vinh, Phat Voong;
Tuyet, Pham Thi Ngoc;
Phuc, Hoang Le;
Lien, Nguyen Thi Nam;
Phu, Bui Duc;
Ai, Nguyen Thi Thuy;
Tien, Nguyen Manh;
Dong, Nguyen;
Parry, Christopher M;
Hien, Tran Tinh;
Farrar, Jeremy J;
Parkhill, Julian;
Dougan, Gordon;
Thomson, Nicholas R;
Baker, Stephen;
(2013)
Tracking the establishment of local endemic populations of an emergent enteric pathogen.
Proceedings of the National Academy of Sciences of the United States of America, 110 (43).
pp. 17522-17527.
ISSN 0027-8424
DOI: https://doi.org/10.1073/pnas.1308632110
Full text not available from this repository.
Hopkinson, Nicholas;
Wallis, Colin;
Higgins, Bernard;
Gaduzo, Stephen;
Sherrington, Rebecca;
Keilty, Sarah;
Stern, Myra;
Britton, John;
Bush, Andrew;
Moxham, John;
+438 more...
Sylvester, Karl;
Griffiths, Valerie;
Sutherland, Tim;
Crossingham, Iain;
Raju, Raghu;
Spencer, Charlotte;
Safavi, Shahideh;
Deegan, Paul;
Seymour, John;
Hickman, Katherine;
Hughes, John;
Wieboldt, Jason;
Shaheen, Fizah;
Peedell, Clive;
Mackenzie, Nesta;
Nicholl, David;
Jolley, Caroline;
Crooks, Gillian;
Crooks, Gillian;
Dow, Claire;
Deveson, Pete;
Bintcliffe, Oliver;
Gray, Barry;
Kumar, Sanjay;
Haney, Sarah;
Docherty, Marianne;
Thomas, Angela;
Chua, Felix;
Dwarakanath, Akshay;
Summers, Geoffrey;
Prowse, Keith;
Lytton, Stephen;
Ong, Yee Ean;
Graves, Jennifer;
Banerjee, Tushar;
English, Peter;
Leonard, Andrew;
Brunet, Martin;
Chaudhry, Nauman;
Ketchell, Robert Ian;
Cummings, Natalie;
Lebus, Jenny;
Sharp, Charles;
Meadows, Chris;
Harle, Amelie;
Stewart, Tara;
Parry, Diane;
Templeton-Wright, Suzanne;
Moore-Gillon, John;
Stratford- Martin, James;
Saini, Sarvesh;
Matusiewicz, Simon;
Merritt, Simon;
Dowson, Lee;
Satkunam, Karnan;
Hodgson, Luke;
Suh, Eui-Sik;
Durrington, Hannah;
Browne, Emma;
Walters, Nicola;
Steier, Joerg;
Barry, Simon;
Griffiths, Mark;
Hart, Nicholas;
Nikolic, Marko;
Berry, Matthew;
Thomas, Ajit;
Miller, Joy;
McNicholl, Diarmuid;
Marsden, Paul;
Warwick, Geoffrey;
Barr, Laura;
Adeboyeku, David;
Mohd Noh, Mohd Shahrin;
Griffiths, Paul;
Davies, Lisa;
Quint, Jennifer;
Lyall, Rebecca;
Shribman, Jonathan;
Collins, Andrea;
Goldman, Jon;
Bloch, Susannah;
Gill, Alison;
Man, William;
Christopher, Anne;
Yasso, Razouqi;
Rajhan, Ashwin;
Shrikrishna, Dinesh;
Moore, Caroline;
Absalom, Gareth;
Booton, Richard;
Fowler, Robert William;
Mackinlay, Carolyn;
Sapey, Elizabeth;
Lock, Sara;
Walker, Paul;
Jha, Akhilesh;
Satia, Imran;
Bradley, Bethia;
Mustfa, Naveed;
Haqqee, Raana;
Thomas, Matt;
Patel, Anant;
Redington, Anthony;
Pillai, Anilkumar;
Keaney, Niall;
Fowler, Stephen;
Lowe, Lesley;
Brennan, Amanda;
Morrison, Douglas;
Murray, Clare;
Hankinson, Jenny;
Dutta, P;
Maddocks, Matthew;
Pengo, Martino;
Curtis, Katrina;
Rafferty, Gerrard;
Hutchinson, John;
Whitfield, Ruth;
Turner, Steve;
Breen, Ronan;
Naveed, Shams-un-nisa;
Goode, Chris;
Esterbrook, Georgina;
Ahmed, Liju;
Walker, Woolf;
Ford, David;
Connett, Gary;
Davidson, Philip;
Elston, Will;
Stanton, Andrew;
Morgan, David;
Myerson, James;
Maxwell, David;
Harrris, Ann;
Parmar, Sonia;
Houghton, Catherine;
Winter, Robert;
Puthucheary, Zudin;
Thomson, Fiona;
Sturney, Sharon;
Harvey, John;
Haslam, Patricia L;
Patel, Irem;
Jennings, David;
Range, Simon;
Mallia-Milanes, Brendan;
Collett, Anne;
Tate, Paul;
Russell, Richard;
Feary, Johanna;
O'Driscoll, Ronan;
Eaden, James;
Round, Jonathan;
Sharkey, Emma;
Montgomery, Mary;
Vaughan, Sophie;
Scheele, Kate;
Lithgow, Anna;
Partridge, Samuel;
Chavasse, Richard;
Restrick, Louise;
Agrawal, Sanjay;
Abdallah, Said;
Lacy-Colson, Amruta;
Adams, Nick;
Mitchell, Sally;
Haja Mydin, Helmy;
Ward, Ann;
Denniston, Sarah;
Steel, Mark;
Ghosh, Dipansu;
Connellan, Stephen;
Rigge, Lucy;
Williams, Ruth;
Grove, Alison;
Anwar, Sadia;
Dobson, Lee;
Hosker, Harold;
Stableforth, David;
Greening, Neil;
Howell, Tim;
Casswell, Georgina;
Davies, Sarah;
Tunnicliffe, Georgia;
Mitchelmore, Philip;
Phitidis, Elpida;
Robinson, Louise;
Prowse, Keith;
Bafadhel, Mona;
Robinson, Grace;
Boland, Alison;
Lipman, Marc;
Bourke, Stephen;
Kaul, Sundeep;
Cowie, Calvin;
Forrest, Ian;
Starren, Elizabeth;
Burke, Hannah;
Furness, John;
Bhowmik, Angshu;
Everett, Caroline;
Seaton, Douglas;
Holmes, Steve;
Doe, Simon;
Parker, Samuel;
Graham, Annika;
Paterson, Ian;
Maqsood, Usman;
Ohri, Chandra;
Iles, Peter;
Kemp, Samuel;
Iftikhar, Ahsan;
Carlin, Chris;
Fletcher, Tim;
Emerson, Peter;
Beasley, Victoria;
Ramsay, Michelle;
Buttery, Robert;
Mungall, Sarah;
Crooks, Stephen;
Ridyard, John;
Ross, David;
Guadagno, Alison;
Holden, Emma;
Coutts, Ian;
Cullen, Kathy;
O'Connor, Sally;
Barker, Jack;
Sloper, Katherine;
Watson, John;
Smith, Peter;
Anderson, Paul;
Brown, Louise;
Nyman, Cyril;
Milburn, Heather;
Clive, Amelia;
Serlin, Matthew;
Bolton, Charlotte;
Fuld, Jonathan;
Powell, Helen;
Dayer, Mark;
Woolhouse, Ian;
Georgiadi, Adamantia;
Leonard, Helen;
Dodd, James;
Campbell, Ian;
Ruiz, Gary;
Zurek, Andrew;
Paton, James Y;
Malin, Adam;
Wood, Fraser;
Hynes, Gareth;
Connell, David;
Spencer, David;
Brown, Sarah;
Smith, David;
Cooper, David;
O'Kane, Cecilia;
Hicks, Alex;
Creagh-Brown, Ben;
Lordan, James;
Nickol, Annabel;
Primhak, Robert;
Fleming, Louise;
Powrie, Duncan;
Brown, Joanna;
Zoumot, Zaid;
Elkin, Sarah;
Szram, Joanna;
Scaffardi, Anthony;
Marshall, Robert;
Macdonald, Ian;
Lightbody, Darren;
Farmer, Ray;
Wheatley, Iain;
Radnan, Paul;
Lane, Ian;
Booth, Andrew;
Tilbrook, Sean;
Capstick, Toby;
Hewitt, Lee;
McHugh, Martin;
Nelson, Christopher;
Wilson, Patrick;
Padmanaban, Vijay;
White, John;
Davison, John;
O'Callaghan, Una;
Hodson, Matthew;
Edwards, John;
Campbell, Colin;
Ward, Simon;
Wooler, Edwina;
Ringrose, Elizabeth;
Bridges, Diana;
Matthew Hodson;
John Edwards;
Colin Campbell;
Simon Ward;
Edwina Wooler;
Elizabeth Ringrose;
Diana Bridges;
Rosalind Backham;
Kim Randall;
Tracey Mathieson;
Long, Alex;
Parkes, Marilyn;
Clarke, Sarah;
Allen, Bev;
Connelly, Carol;
Forster, Georgia;
Hoadley, Jacky;
Martin, Katharine;
Barnham, Kate;
Khan, Katie;
Munday, Maureen;
Edwards, Catherine;
O'Hara, Doreen;
Turner, Sally;
Pieri-Davies, Sue;
Ford, Kate;
Daniels, Tracey;
Wright, Joanne;
Towns, Rebecca;
Fern, Karen;
Butcher, Jane;
Burgin, Karen;
Winter, Barbara;
Freeman, Debbie;
Olive, Sandra;
Gray, Linda;
Pye, Kathy;
Roots, Debbie;
Cox, Nicola;
Davies, Carol-Anne;
Wicker, Jacquelyne;
Hilton, Kay;
Lloyd, Jananee;
MacBean, Vicky;
Wood, Marion;
Kowal, Julia;
Downs, Janis;
Ryan, Helen;
Guyatt, Fran;
Nicoll, Debby;
Lyons, Elizabeth;
Narasimhan, Divya;
Rodman, Anne;
Walmsley, Sandy;
Newey, Alison;
Buxton, Maria;
Dewar, Maria;
Cooper, Angela;
Reilly, Jacqui;
Lloyd, Julie;
Macmillan, Alison Bennett;
Roots, Debbie;
Olley, Amy;
Voase, Nia;
Martin, Sarah;
McCarvill, Iona;
Christensen, Anne;
Agate, Rowan;
Heslop, Karen;
Timlett, Amber;
Hailes, Karen;
Davey, Claire;
Pawulska, Barbara;
Lane, Amber;
Ioakim, Shona;
Hough, Alexandra;
Treharne, Jo;
Jones, Helen;
Winter-Burke, Alice;
Miller, Lauren;
Connolly, Bronwen;
Bingham, Lyn;
Fraser, Una;
Bott, Julia;
Johnston, Carol;
Graham, Alison;
Curry, Denise;
Sumner, Helen;
Costello, Carol Ann;
Bartoszewicz, Charlotte;
Badman, Ros;
Williamson, Kathryn;
Taylor, Amy;
Purcell, Helen;
Barnett, Emma;
Molloy, Alanna;
Crawfurd, Laura;
Collins, Nicola;
Monaghan, Valerie;
Mir, Misbah;
Lord, Victoria;
Stocks, Janet;
Edwards, Adrian;
Greenhalgh, Trish;
Lenney, Warren;
McKee, Martin;
McAuley, Danny;
Majeed, Azeem;
Cookson, John;
Baker, Emma;
Janes, Sam;
Wedzicha, Wisia;
Lomas Dean, David;
Harrison, Brian;
Davison, Tony;
Calverley, Peter;
Wilson, Robert;
Stockley, Robert;
Ayres, Jon;
Gibson, John;
Simpson, John;
Burge, Sherwood;
Warner, John;
Lenney, Warren;
Thomson, Neil;
Davies, Peter;
Woodcock, Ashley;
Woodhead, Mark;
Spiro, Stephen;
Ormerod, Lawrence;
Bothamley, Graham;
Partridge, Martyn;
Shields, Michael;
Montgomery, Hugh;
Simonds, Anita;
Barnes, Peter;
Durham, Stephen;
Malone, Sarah;
Arabnia, Gilda;
Olivier, Sharon;
Gardiner, Karen;
Edwards, Sheila;
(2013)
Children must be protected from the tobacco industry's marketing tactics.
BMJ (Clinical research ed), 347 (dec09 ).
f7358-.
ISSN 0959-8138
DOI: https://doi.org/10.1136/bmj.f7358
Kiiru, John;
Mutreja, Ankur;
Mohamed, Ahmed Abade;
Kimani, Racheal W;
Mwituria, Joyce;
Sanaya, Robert Onsare;
Muyodi, Jane;
Revathi, Gunturu;
Parkhill, Julian;
Thomson, Nicholas;
+2 more...
Dougan, Gordon;
Kariuki, Samuel;
(2013)
A study on the geophylogeny of clinical and environmental Vibrio cholerae in Kenya.
PLOS ONE, 8 (9).
e74829-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0074829
Kingsley, Robert A;
Kay, Sally;
Connor, Thomas;
Barquist, Lars;
Sait, Leanne;
Holt, Kathryn E;
Sivaraman, Karthi;
Wileman, Thomas;
Goulding, David;
Clare, Simon;
+10 more...
Hale, Christine;
Seshasayee, Aswin;
Harris, Simon;
Thomson, Nicholas R;
Gardner, Paul;
Rabsch, Wolfgang;
Wigley, Paul;
Humphrey, Tom;
Parkhill, Julian;
Dougan, Gordon;
(2013)
Genome and transcriptome adaptation accompanying emergence of the definitive type 2 host-restricted Salmonella enterica serovar Typhimurium pathovar.
MBIO, 4 (5).
e00565-e00513.
ISSN 2150-7511
DOI: https://doi.org/10.1128/mBio.00565-13
Mather, AE;
Reid, SWJ;
Maskell, DJ;
Parkhill, J;
Fookes, MC;
Harris, SR;
Brown, DJ;
Coia, JE;
Mulvey, MR;
Gilmour, MW;
+11 more...
Petrovska, L;
de Pinna, E;
Kuroda, M;
Akiba, M;
Izumiya, H;
Connor, TR;
Suchard, MA;
Lemey, P;
Mellor, DJ;
Haydon, DT;
Thomson, NR;
(2013)
Distinguishable epidemics of multidrug-resistant Salmonella Typhimurium DT104 in different hosts.
Science (New York, NY), 341 (6153).
pp. 1514-1517.
ISSN 0036-8075
DOI: https://doi.org/10.1126/science.1240578
Full text not available from this repository.
Seth-Smith, Helena MB;
Harris, Simon R;
Skilton, Rachel J;
Radebe, Frans M;
Golparian, Daniel;
Shipitsyna, Elena;
Duy, Pham Thanh;
Scott, Paul;
Cutcliffe, Lesley T;
O'Neill, Colette;
+11 more...
Parmar, Surendra;
Pitt, Rachel;
Baker, Stephen;
Ison, Catherine A;
Marsh, Peter;
Jalal, Hamid;
Lewis, David A;
Unemo, Magnus;
Clarke, Ian N;
Parkhill, Julian;
Thomson, Nicholas R;
(2013)
Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture.
Genome research, 23 (5).
pp. 855-866.
ISSN 1088-9051
DOI: https://doi.org/10.1101/gr.150037.112
Full text not available from this repository.
2012
Harris, Simon R;
Clarke, Ian N;
Seth-Smith, Helena MB;
Solomon, Anthony W;
Cutcliffe, Lesley T;
Marsh, Peter;
Skilton, Rachel J;
Holland, Martin J;
Mabey, David;
Peeling, Rosanna W;
+14 more...
Lewis, David A;
Spratt, Brian G;
Unemo, Magnus;
Persson, Kenneth;
Bjartling, Carina;
Brunham, Robert;
de Vries, Henry JC;
Morré, Servaas A;
Speksnijder, Arjen;
Bébéar, Cécile M;
Clerc, Maïté;
de Barbeyrac, Bertille;
Parkhill, Julian;
Thomson, Nicholas R;
(2012)
Whole-genome analysis of diverse Chlamydia trachomatis strains identifies phylogenetic relationships masked by current clinical typing.
Nature genetics, 44 (4).
413-S1.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng.2214
Holt, Kathryn E;
Baker, Stephen;
Weill, François-Xavier;
Holmes, Edward C;
Kitchen, Andrew;
Yu, Jun;
Sangal, Vartul;
Brown, Derek J;
Coia, John E;
Kim, Dong Wook;
+8 more...
Choi, Seon Young;
Kim, Su Hee;
da Silveira, Wanderley D;
Pickard, Derek J;
Farrar, Jeremy J;
Parkhill, Julian;
Dougan, Gordon;
Thomson, Nicholas R;
(2012)
Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe.
Nature genetics, 44 (9).
pp. 1056-1059.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng.2369
Humphrey, Bruce;
Thomson, Nicholas R;
Thomas, Christopher M;
Brooks, Karen;
Sanders, Mandy;
Delsol, Anne A;
Roe, John M;
Bennett, Peter M;
Enne, Virve I;
(2012)
Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids.
BMC MICROBIOLOGY, 12 (1).
53-.
ISSN 1471-2180
DOI: https://doi.org/10.1186/1471-2180-12-53
Kröger, Carsten;
Dillon, Shane C;
Cameron, Andrew DS;
Papenfort, Kai;
Sivasankaran, Sathesh K;
Hokamp, Karsten;
Chao, Yanjie;
Sittka, Alexandra;
Hébrard, Magali;
Händler, Kristian;
+11 more...
Colgan, Aoife;
Leekitcharoenphon, Pimlapas;
Langridge, Gemma C;
Lohan, Amanda J;
Loftus, Brendan;
Lucchini, Sacha;
Ussery, David W;
Dorman, Charles J;
Thomson, Nicholas R;
Vogel, Jörg;
Hinton, Jay CD;
(2012)
The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium.
Proceedings of the National Academy of Sciences of the United States of America, 109 (20).
E1277-E1286.
ISSN 0027-8424
DOI: https://doi.org/10.1073/pnas.1201061109
Full text not available from this repository.
Mellata, Melha;
Maddux, Jacob T;
Nam, Timothy;
Thomson, Nicholas;
Hauser, Heidi;
Stevens, Mark P;
Mukhopadhyay, Suman;
Sarker, Shameema;
Crabbé, Aurélie;
Nickerson, Cheryl A;
+2 more...
Santander, Javier;
Curtiss, Roy;
(2012)
New insights into the bacterial fitness-associated mechanisms revealed by the characterization of large plasmids of an avian pathogenic E. coli.
PLOS ONE, 7 (1).
e29481-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0029481
2011
Arnvig, Kristine B;
Comas, Iñaki;
Thomson, Nicholas R;
Houghton, Joanna;
Boshoff, Helena I;
Croucher, Nicholas J;
Rose, Graham;
Perkins, Timothy T;
Parkhill, Julian;
Dougan, Gordon;
+1 more...
Young, Douglas B;
(2011)
Sequence-based analysis uncovers an abundance of non-coding RNA in the total transcriptome of Mycobacterium tuberculosis.
PLOS PATHOGENS, 7 (11).
e1002342-.
ISSN 1553-7366
DOI: https://doi.org/10.1371/journal.ppat.1002342
Fookes, Maria;
Schroeder, Gunnar N;
Langridge, Gemma C;
Blondel, Carlos J;
Mammina, Caterina;
Connor, Thomas R;
Seth-Smith, Helena;
Vernikos, Georgios S;
Robinson, Keith S;
Sanders, Mandy;
+15 more...
Petty, Nicola K;
Kingsley, Robert A;
Bäumler, Andreas J;
Nuccio, Sean-Paul;
Contreras, Inés;
Santiviago, Carlos A;
Maskell, Duncan;
Barrow, Paul;
Humphrey, Tom;
Nastasi, Antonino;
Roberts, Mark;
Frankel, Gad;
Parkhill, Julian;
Dougan, Gordon;
Thomson, Nicholas R;
(2011)
Salmonella bongori provides insights into the evolution of the Salmonellae.
PLoS pathogens, 7 (8).
e1002191-.
ISSN 1553-7366
DOI: https://doi.org/10.1371/journal.ppat.1002191
Mutreja, Ankur;
Kim, Dong Wook;
Thomson, Nicholas R;
Connor, Thomas R;
Lee, Je Hee;
Kariuki, Samuel;
Croucher, Nicholas J;
Choi, Seon Young;
Harris, Simon R;
Lebens, Michael;
+11 more...
Niyogi, Swapan Kumar;
Kim, Eun Jin;
Ramamurthy, T;
Chun, Jongsik;
Wood, James LN;
Clemens, John D;
Czerkinsky, Cecil;
Nair, G Balakrish;
Holmgren, Jan;
Parkhill, Julian;
Dougan, Gordon;
(2011)
Evidence for several waves of global transmission in the seventh cholera pandemic.
Nature, 477 (7365).
pp. 462-465.
ISSN 0028-0836
DOI: https://doi.org/10.1038/nature10392
Full text not available from this repository.
Petty, Nicola K;
Feltwell, Theresa;
Pickard, Derek;
Clare, Simon;
Toribio, Ana L;
Fookes, Maria;
Roberts, Kevin;
Monson, Rita;
Nair, Satheesh;
Kingsley, Robert A;
+18 more...
Bulgin, Richard;
Wiles, Siouxsie;
Goulding, David;
Keane, Thomas;
Corton, Craig;
Lennard, Nicola;
Harris, David;
Willey, David;
Rance, Richard;
Yu, Lu;
Choudhary, Jyoti S;
Churcher, Carol;
Quail, Michael A;
Parkhill, Julian;
Frankel, Gad;
Dougan, Gordon;
Salmond, George PC;
Thomson, Nicholas R;
(2011)
Citrobacter rodentium is an unstable pathogen showing evidence of significant genomic flux.
PLoS pathogens, 7 (4).
e1002018-.
ISSN 1553-7366
DOI: https://doi.org/10.1371/journal.ppat.1002018
2010
Chaudhuri, Roy R;
Sebaihia, Mohammed;
Hobman, Jon L;
Webber, Mark A;
Leyton, Denisse L;
Goldberg, Martin D;
Cunningham, Adam F;
Scott-Tucker, Anthony;
Ferguson, Paul R;
Thomas, Christopher M;
+10 more...
Frankel, Gad;
Tang, Christoph M;
Dudley, Edward G;
Roberts, Ian S;
Rasko, David A;
Pallen, Mark J;
Parkhill, Julian;
Nataro, James P;
Thomson, Nicholas R;
Henderson, Ian R;
(2010)
Complete genome sequence and comparative metabolic profiling of the prototypical enteroaggregative Escherichia coli strain 042.
PLOS ONE, 5 (1).
e8801-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0008801
Morelli, Giovanna;
Song, Yajun;
Mazzoni, Camila J;
Eppinger, Mark;
Roumagnac, Philippe;
Wagner, David M;
Feldkamp, Mirjam;
Kusecek, Barica;
Vogler, Amy J;
Li, Yanjun;
+14 more...
Cui, Yujun;
Thomson, Nicholas R;
Jombart, Thibaut;
Leblois, Raphael;
Lichtner, Peter;
Rahalison, Lila;
Petersen, Jeannine M;
Balloux, Francois;
Keim, Paul;
Wirth, Thierry;
Ravel, Jacques;
Yang, Ruifu;
Carniel, Elisabeth;
Achtman, Mark;
(2010)
Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity.
Nature genetics, 42 (12).
pp. 1140-1143.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng.705
Nguyen, Nhu Thi Khanh;
Ha, Vinh;
Tran, Nga Vu Thieu;
Stabler, Richard;
Pham, Duy Thanh;
Le, Thi Minh Vien;
van Doorn, H Rogier;
Cerdeño-Tárraga, Ana;
Thomson, Nicholas;
Campbell, James;
+7 more...
Nguyen, Van Minh Hoang;
Tran, Thi Thu Nga;
Pham, Minh Van;
Cao, Thuy Thu;
Wren, Brendan;
Farrar, Jeremy;
Baker, Stephen;
(2010)
The sudden dominance of blaCTX-M harbouring plasmids in Shigella spp. Circulating in Southern Vietnam.
PLoS neglected tropical diseases, 4 (6).
e702-.
ISSN 1935-2727
DOI: https://doi.org/10.1371/journal.pntd.0000702
Timms, Andrew R;
Cambray-Young, Joanna;
Scott, Andrew E;
Petty, Nicola K;
Connerton, Phillippa L;
Clarke, Louise;
Seeger, Kathy;
Quail, Mike;
Cummings, Nicola;
Maskell, Duncan J;
+2 more...
Thomson, Nicholas R;
Connerton, Ian F;
(2010)
Evidence for a lineage of virulent bacteriophages that target Campylobacter.
BMC GENOMICS, 11 (1).
214-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-11-214
2009
Betancor, Laura;
Yim, Lucia;
Fookes, Maria;
Martinez, Araci;
Thomson, Nicholas R;
Ivens, Alasdair;
Peters, Sarah;
Bryant, Clare;
Algorta, Gabriela;
Kariuki, Samuel;
+4 more...
Schelotto, Felipe;
Maskell, Duncan;
Dougan, Gordon;
Chabalgoity, Jose A;
(2009)
Genomic and phenotypic variation in epidemic-spanning Salmonella enterica serovar Enteritidis isolates.
BMC MICROBIOLOGY, 9 (1).
237-.
ISSN 1471-2180
DOI: https://doi.org/10.1186/1471-2180-9-237
Carver, Tim;
Thomson, Nick;
Bleasby, Alan;
Berriman, Matthew;
Parkhill, Julian;
(2009)
DNAPlotter: circular and linear interactive genome visualization.
BIOINFORMATICS, 25 (1).
pp. 119-120.
ISSN 1367-4803
DOI: https://doi.org/10.1093/bioinformatics/btn578
Croucher, Nicholas J;
Fookes, Maria C;
Perkins, Timothy T;
Turner, Daniel J;
Marguerat, Samuel B;
Keane, Thomas;
Quail, Michael A;
He, Miao;
Assefa, Sammey;
Bähler, Jürg;
+5 more...
Kingsley, Robert A;
Parkhill, Julian;
Bentley, Stephen D;
Dougan, Gordon;
Thomson, Nicholas R;
(2009)
A simple method for directional transcriptome sequencing using Illumina technology.
NUCLEIC ACIDS RESEARCH, 37 (22).
e148-.
ISSN 0305-1048
DOI: https://doi.org/10.1093/nar/gkp811
Holt, Kathryn E;
Thomson, Nicholas R;
Wain, John;
Langridge, Gemma C;
Hasan, Rumina;
Bhutta, Zulfiqar A;
Quail, Michael A;
Norbertczak, Halina;
Walker, Danielle;
Simmonds, Mark;
+5 more...
White, Brian;
Bason, Nathalie;
Mungall, Karen;
Dougan, Gordon;
Parkhill, Julian;
(2009)
Pseudogene accumulation in the evolutionary histories of Salmonella enterica serovars Paratyphi A and Typhi.
BMC GENOMICS, 10 (1).
36-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-10-36
Jackson, Andrew P;
Thomas, Gavin H;
Parkhill, Julian;
Thomson, Nicholas R;
(2009)
Evolutionary diversification of an ancient gene family (rhs) through C-terminal displacement.
BMC GENOMICS, 10 (1).
584-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-10-584
Perkins, Timothy T;
Kingsley, Robert A;
Fookes, Maria C;
Gardner, Paul P;
James, Keith D;
Yu, Lu;
Assefa, Samuel A;
He, Miao;
Croucher, Nicholas J;
Pickard, Derek J;
+5 more...
Maskell, Duncan J;
Parkhill, Julian;
Choudhary, Jyoti;
Thomson, Nicholas R;
Dougan, Gordon;
(2009)
A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi.
PLOS GENETICS, 5 (7).
e1000569-.
ISSN 1553-7404
DOI: https://doi.org/10.1371/journal.pgen.1000569
Petty, Nicola K;
Bulgin, Richard;
Crepin, Valerie F;
Cerdeño-Tárraga, Ana M;
Schroeder, Gunnar N;
Quail, Michael A;
Lennard, Nicola;
Corton, Craig;
Barron, Andrew;
Clark, Louise;
+5 more...
Toribio, Ana L;
Parkhill, Julian;
Dougan, Gordon;
Frankel, Gad;
Thomson, Nicholas R;
(2009)
The Citrobacter rodentium genome sequence reveals convergent evolution with human pathogenic Escherichia coli.
Journal of bacteriology, 192 (2).
pp. 525-538.
ISSN 0021-9193
DOI: https://doi.org/10.1128/JB.01144-09
Seth-Smith, Helena MB;
Harris, Simon R;
Persson, Kenneth;
Marsh, Pete;
Barron, Andrew;
Bignell, Alexandra;
Bjartling, Carina;
Clark, Louise;
Cutcliffe, Lesley T;
Lambden, Paul R;
+10 more...
Lennard, Nicola;
Lockey, Sarah J;
Quail, Michael A;
Salim, Omar;
Skilton, Rachel J;
Wang, Yibing;
Holland, Martin J;
Parkhill, Julian;
Thomson, Nicholas R;
Clarke, Ian N;
(2009)
Co-evolution of genomes and plasmids within Chlamydia trachomatis and the emergence in Sweden of a new variant strain.
BMC genomics, 10 (1).
239-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-10-239
Silby, Mark W;
Cerdeño-Tárraga, Ana M;
Vernikos, Georgios S;
Giddens, Stephen R;
Jackson, Robert W;
Preston, Gail M;
Zhang, Xue-Xian;
Moon, Christina D;
Gehrig, Stefanie M;
Godfrey, Scott AC;
+24 more...
Knight, Christopher G;
Malone, Jacob G;
Robinson, Zena;
Spiers, Andrew J;
Harris, Simon;
Challis, Gregory L;
Yaxley, Alice M;
Harris, David;
Seeger, Kathy;
Murphy, Lee;
Rutter, Simon;
Squares, Rob;
Quail, Michael A;
Saunders, Elizabeth;
Mavromatis, Konstantinos;
Brettin, Thomas S;
Bentley, Stephen D;
Hothersall, Joanne;
Stephens, Elton;
Thomas, Christopher M;
Parkhill, Julian;
Levy, Stuart B;
Rainey, Paul B;
Thomson, Nicholas R;
(2009)
Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens.
Genome biology, 10 (5).
R51-.
ISSN 1465-6906
DOI: https://doi.org/10.1186/gb-2009-10-5-r51
2008
Clayton, Debra J;
Bowen, Alison J;
Hulme, Scott D;
Buckley, Anthony M;
Deacon, Victoria L;
Thomson, Nicholas R;
Barrow, Paul A;
Morgan, Eirwen;
Jones, Michael A;
Watson, Michael;
+1 more...
Stevens, Mark P;
(2008)
Analysis of the role of 13 major fimbrial subunits in colonisation of the chicken intestines by Salmonella enterica serovar Enteritidis reveals a role for a novel locus.
BMC MICROBIOLOGY, 8 (1).
228-.
ISSN 1471-2180
DOI: https://doi.org/10.1186/1471-2180-8-228
Crossman, Lisa C;
Gould, Virginia C;
Dow, J Maxwell;
Vernikos, Georgios S;
Okazaki, Aki;
Sebaihia, Mohammed;
Saunders, David;
Arrowsmith, Claire;
Carver, Tim;
Peters, Nicholas;
+15 more...
Adlem, Ellen;
Kerhornou, Arnaud;
Lord, Angela;
Murphy, Lee;
Seeger, Katharine;
Squares, Robert;
Rutter, Simon;
Quail, Michael A;
Rajandream, Mari-Adele;
Harris, David;
Churcher, Carol;
Bentley, Stephen D;
Parkhill, Julian;
Thomson, Nicholas R;
Avison, Matthew B;
(2008)
The complete genome, comparative and functional analysis of Stenotrophomonas maltophilia reveals an organism heavily shielded by drug resistance determinants.
GENOME BIOLOGY, 9 (4).
R74-.
ISSN 1474-760X
DOI: https://doi.org/10.1186/gb-2008-9-4-r74
Hjerde, Erik;
Lorentzen, Marit Sjo;
Holden, Matthew Tg;
Seeger, Kathy;
Paulsen, Steinar;
Bason, Nathalie;
Churcher, Carol;
Harris, David;
Norbertczak, Halina;
Quail, Michael A;
+5 more...
Sanders, Suzanne;
Thurston, Scott;
Parkhill, Julian;
Willassen, Nils Peder;
Thomson, Nicholas R;
(2008)
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay.
BMC GENOMICS, 9 (1).
616-.
ISSN 1471-2164
DOI: https://doi.org/10.1186/1471-2164-9-616
Klasson, Lisa;
Walker, Thomas;
Sebaihia, Mohammed;
Sanders, Mandy J;
Quail, Michael A;
Lord, Angela;
Sanders, Susanne;
Earl, Julie;
O'Neill, Scott L;
Thomson, Nicholas;
+2 more...
Sinkins, Steven P;
Parkhill, Julian;
(2008)
Genome evolution of Wolbachia strain wPip from the Culex pipiens group.
Molecular biology and evolution, 25 (9).
pp. 1877-1887.
ISSN 0737-4038
DOI: https://doi.org/10.1093/molbev/msn133
2007
Sebaihia, Mohammed;
Peck, Michael W;
Minton, Nigel P;
Thomson, Nicholas R;
Holden, Matthew TG;
Mitchell, Wilfrid J;
Carter, Andrew T;
Bentley, Stephen D;
Mason, David R;
Crossman, Lisa;
+24 more...
Paul, Catherine J;
Ivens, Alasdair;
Wells-Bennik, Marjon HJ;
Davis, Ian J;
Cerdeño-Tárraga, Ana M;
Churcher, Carol;
Quail, Michael A;
Chillingworth, Tracey;
Feltwell, Theresa;
Fraser, Audrey;
Goodhead, Ian;
Hance, Zahra;
Jagels, Kay;
Larke, Natasha;
Maddison, Mark;
Moule, Sharon;
Mungall, Karen;
Norbertczak, Halina;
Rabbinowitsch, Ester;
Sanders, Mandy;
Simmonds, Mark;
White, Brian;
Whithead, Sally;
Parkhill, Julian;
(2007)
Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes.
Genome research, 17 (7).
pp. 1082-1092.
ISSN 1088-9051
DOI: https://doi.org/10.1101/gr.6282807
Full text not available from this repository.
Thomson, Nicholas R;
Howard, Sarah;
Wren, Brendan W;
Prentice, Michael B;
(2007)
Comparative genome analyses of the pathogenic Yersiniae based on the genome sequence of Yersinia enterocolitica strain 8081.
Advances in experimental medicine and biology, 603.
pp. 2-16.
ISSN 0065-2598
DOI: https://doi.org/10.1007/978-0-387-72124-8_1
Full text not available from this repository.
Vernikos, Georgios S;
Thomson, Nicholas R;
Parkhill, Julian;
(2007)
Genetic flux over time in the Salmonella lineage.
GENOME BIOLOGY, 8 (6).
R100-.
ISSN 1465-6906
DOI: https://doi.org/10.1186/gb-2007-8-6-r100
Walker, Thomas;
Klasson, Lisa;
Sebaihia, Mohammed;
Sanders, Mandy J;
Thomson, Nicholas R;
Parkhill, Julian;
Sinkins, Steven P;
(2007)
Ankyrin repeat domain-encoding genes in the wPip strain of Wolbachia from the Culex pipiens group.
BMC biology, 5 (1).
39-.
ISSN 1741-7007
DOI: https://doi.org/10.1186/1741-7007-5-39
2006
Riley, Monica;
Abe, Takashi;
Arnaud, Martha B;
Berlyn, Mary KB;
Blattner, Frederick R;
Chaudhuri, Roy R;
Glasner, Jeremy D;
Horiuchi, Takashi;
Keseler, Ingrid M;
Kosuge, Takehide;
+9 more...
Mori, Hirotada;
Perna, Nicole T;
Plunkett, Guy;
Rudd, Kenneth E;
Serres, Margrethe H;
Thomas, Gavin H;
Thomson, Nicholas R;
Wishart, David;
Wanner, Barry L;
(2006)
Escherichia coli K-12: a cooperatively developed annotation snapshot--2005.
NUCLEIC ACIDS RESEARCH, 34 (1).
pp. 1-9.
ISSN 0305-1048
DOI: https://doi.org/10.1093/nar/gkj405
Sebaihia, Mohammed;
Wren, Brendan W;
Mullany, Peter;
Fairweather, Neil F;
Minton, Nigel;
Stabler, Richard;
Thomson, Nicholas R;
Roberts, Adam P;
Cerdeño-Tárraga, Ana M;
Wang, Hongmei;
+29 more...
Holden, Matthew TG;
Wright, Anne;
Churcher, Carol;
Quail, Michael A;
Baker, Stephen;
Bason, Nathalie;
Brooks, Karen;
Chillingworth, Tracey;
Cronin, Ann;
Davis, Paul;
Dowd, Linda;
Fraser, Audrey;
Feltwell, Theresa;
Hance, Zahra;
Holroyd, Simon;
Jagels, Kay;
Moule, Sharon;
Mungall, Karen;
Price, Claire;
Rabbinowitsch, Ester;
Sharp, Sarah;
Simmonds, Mark;
Stevens, Kim;
Unwin, Louise;
Whithead, Sally;
Dupuy, Bruno;
Dougan, Gordon;
Barrell, Bart;
Parkhill, Julian;
(2006)
The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome.
Nature genetics, 38 (7).
pp. 779-786.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng1830
Full text not available from this repository.
Thomson, Nicholas R;
Howard, Sarah;
Wren, Brendan W;
Holden, Matthew TG;
Crossman, Lisa;
Challis, Gregory L;
Churcher, Carol;
Mungall, Karen;
Brooks, Karen;
Chillingworth, Tracey;
+12 more...
Feltwell, Theresa;
Abdellah, Zahra;
Hauser, Heidi;
Jagels, Kay;
Maddison, Mark;
Moule, Sharon;
Sanders, Mandy;
Whitehead, Sally;
Quail, Michael A;
Dougan, Gordon;
Parkhill, Julian;
Prentice, Michael B;
(2006)
The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081.
PLoS genetics, 2 (12).
e206-.
ISSN 1553-7390
DOI: https://doi.org/10.1371/journal.pgen.0020206
Thomson, Nicholas R;
Howard, Sarah;
Wren, Brendan W;
Holden, Matthew TG;
Crossman, Lisa;
Challis, Gregory L;
Churcher, Carol;
Mungall, Karen;
Brooks, Karen;
Chillingworth, Tracey;
+12 more...
Feltwell, Theresa;
Abdellah, Zahra;
Hauser, Heidi;
Jagels, Kay;
Maddison, Mark;
Moule, Sharon;
Sanders, Mandy;
Whitehead, Sally;
Quail, Michael A;
Dougan, Gordon;
Parkhill, Julian;
Prentice, Michael B;
(2006)
The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081.
PLoS genetics, 2 (12).
e206-.
ISSN 1553-7404
https://researchonline.lshtm.ac.uk/id/eprint/19591
Young, J Peter W;
Crossman, Lisa C;
Johnston, Andrew WB;
Thomson, Nicholas R;
Ghazoui, Zara F;
Hull, Katherine H;
Wexler, Margaret;
Curson, Andrew RJ;
Todd, Jonathan D;
Poole, Philip S;
+22 more...
Mauchline, Tim H;
East, Alison K;
Quail, Michael A;
Churcher, Carol;
Arrowsmith, Claire;
Cherevach, Inna;
Chillingworth, Tracey;
Clarke, Kay;
Cronin, Ann;
Davis, Paul;
Fraser, Audrey;
Hance, Zahra;
Hauser, Heidi;
Jagels, Kay;
Moule, Sharon;
Mungall, Karen;
Norbertczak, Halina;
Rabbinowitsch, Ester;
Sanders, Mandy;
Simmonds, Mark;
Whitehead, Sally;
Parkhill, Julian;
(2006)
The genome of Rhizobium leguminosarum has recognizable core and accessory components.
GENOME BIOLOGY, 7 (4).
R34-.
ISSN 1474-760X
DOI: https://doi.org/10.1186/gb-2006-7-4-r34
2004
Holden, Matthew TG;
Titball, Richard W;
Peacock, Sharon J;
Cerdeño-Tárraga, Ana M;
Atkins, Timothy;
Crossman, Lisa C;
Pitt, Tyrone;
Churcher, Carol;
Mungall, Karen;
Bentley, Stephen D;
+38 more...
Sebaihia, Mohammed;
Thomson, Nicholas R;
Bason, Nathalie;
Beacham, Ifor R;
Brooks, Karen;
Brown, Katherine A;
Brown, Nat F;
Challis, Greg L;
Cherevach, Inna;
Chillingworth, Tracy;
Cronin, Ann;
Crossett, Ben;
Davis, Paul;
DeShazer, David;
Feltwell, Theresa;
Fraser, Audrey;
Hance, Zahra;
Hauser, Heidi;
Holroyd, Simon;
Jagels, Kay;
Keith, Karen E;
Maddison, Mark;
Moule, Sharon;
Price, Claire;
Quail, Michael A;
Rabbinowitsch, Ester;
Rutherford, Kim;
Sanders, Mandy;
Simmonds, Mark;
Songsivilai, Sirirurg;
Stevens, Kim;
Tumapa, Sarinna;
Vesaratchavest, Monkgol;
Whitehead, Sally;
Yeats, Corin;
Barrell, Bart G;
Oyston, Petra CF;
Parkhill, Julian;
(2004)
Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei.
Proceedings of the National Academy of Sciences of the United States of America, 101 (39).
pp. 14240-14245.
ISSN 0027-8424
DOI: https://doi.org/10.1073/pnas.0403302101
Full text not available from this repository.
2003
Prentice, Michael B;
Cuccui, Jon;
Thomson, Nick;
Parkhill, Julian;
Deery, Evelyn;
Warren, Martin J;
(2003)
Cobalamin synthesis in Yersinia enterocolitica 8081. Functional aspects of a putative metabolic island.
Advances in experimental medicine and biology, 529.
pp. 43-46.
ISSN 0065-2598
DOI: https://doi.org/10.1007/0-306-48416-1_8
Full text not available from this repository.
2002
Bentley, SD;
Chater, KF;
Cerdeño-Tárraga, A-M;
Challis, GL;
Thomson, NR;
James, KD;
Harris, DE;
Quail, MA;
Kieser, H;
Harper, D;
+33 more...
Bateman, A;
Brown, S;
Chandra, G;
Chen, CW;
Collins, M;
Cronin, A;
Fraser, A;
Goble, A;
Hidalgo, J;
Hornsby, T;
Howarth, S;
Huang, C-H;
Kieser, T;
Larke, L;
Murphy, L;
Oliver, K;
O'Neil, S;
Rabbinowitsch, E;
Rajandream, M-A;
Rutherford, K;
Rutter, S;
Seeger, K;
Saunders, D;
Sharp, S;
Squares, R;
Squares, S;
Taylor, K;
Warren, T;
Wietzorrek, A;
Woodward, J;
Barrell, BG;
Parkhill, J;
Hopwood, DA;
(2002)
Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2).
Nature, 417 (6885).
pp. 141-147.
ISSN 0028-0836
DOI: https://doi.org/10.1038/417141a
Full text not available from this repository.
2001
Parkhill, J;
Wren, BW;
Thomson, NR;
Titball, RW;
Holden, MT;
Prentice, MB;
Sebaihia, M;
James, KD;
Churcher, C;
Mungall, KL;
+25 more...
Baker, S;
Basham, D;
Bentley, SD;
Brooks, K;
Cerdeño-Tárraga, AM;
Chillingworth, T;
Cronin, A;
Davies, RM;
Davis, P;
Dougan, G;
Feltwell, T;
Hamlin, N;
Holroyd, S;
Jagels, K;
Karlyshev, AV;
Leather, S;
Moule, S;
Oyston, PC;
Quail, M;
Rutherford, K;
Simmonds, M;
Skelton, J;
Stevens, K;
Whitehead, S;
Barrell, BG;
(2001)
Genome sequence of Yersinia pestis, the causative agent of plague.
Nature, 413 (6855).
pp. 523-527.
ISSN 0028-0836
DOI: https://doi.org/10.1038/35097083