Items where Author or Contributor is "Holt, Kathryn E"
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Number of items: 130.
2021
Lin, Heyu;
Ascher, David B;
Myung, Yoochan;
Lamborg, Carl H;
Hallam, Steven J;
Gionfriddo, Caitlin M;
Holt, Kathryn E;
Moreau, John W;
(2021)
Mercury methylation by metabolically versatile and cosmopolitan marine bacteria.
The ISME journal.
ISSN 1751-7362
DOI: https://doi.org/10.1038/s41396-020-00889-4
2020
Britto, Carl D;
Dyson, Zoe A;
Mathias, Sitarah;
Bosco, Ashish;
Dougan, Gordon;
Jose, Sanju;
Nagaraj, Savitha;
Holt, Kathryn E;
Pollard, Andrew J;
(2020)
Persistent circulation of a fluoroquinolone-resistant Salmonella enterica Typhi clone in the Indian subcontinent.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 75 (2).
pp. 337-341.
ISSN 0305-7453
DOI: https://doi.org/10.1093/jac/dkz435
Hawkey, Jane;
Monk, Jonathan M;
Billman-Jacobe, Helen;
Palsson, Bernhard;
Holt, Kathryn E;
(2020)
Impact of insertion sequences on convergent evolution of Shigella species.
PLOS GENETICS, 16 (7).
e1008931.
ISSN 1553-7404
DOI: https://doi.org/10.1371/journal.pgen.1008931
Holt, Kathryn E;
Lassalle, Florent;
Wyres, Kelly L;
Wick, Ryan;
Mostowy, Rafał J;
(2020)
Diversity and evolution of surface polysaccharide synthesis loci in Enterobacteriales.
ISME JOURNAL, 14 (7).
pp. 1713-1730.
ISSN 1751-7362
DOI: https://doi.org/10.1038/s41396-020-0628-0
Huang, Qin Qin;
Tang, Howard HF;
Teo, Shu Mei;
Mok, Danny;
Ritchie, Scott C;
Nath, Artika P;
Brozynska, Marta;
Salim, Agus;
Bakshi, Andrew;
Holt, Barbara J;
+5 more...
Khor, Chiea Chuen;
Sly, Peter D;
Holt, Patrick G;
Holt, Kathryn E;
Inouye, Michael;
(2020)
Neonatal genetics of gene expression reveal potential origins of autoimmune and allergic disease risk.
NATURE COMMUNICATIONS, 11 (1).
p. 3761.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-020-17477-x
Im, Justin;
Islam, Md Taufiqul;
Kim, Deok Ryun;
Ahmmed, Faisal;
Chon, Yun;
Zaman, K;
Khan, Ashraful Islam;
Ali, Mohammad;
Sur, Dipika;
Kanungo, Suman;
+8 more...
Dutta, Shanta;
Bhattacharya, Sujit K;
Dougan, Gordon;
Holt, Kathryn E;
Marks, Florian;
Kim, Jerome H;
Qadri, Firdausi;
Clemens, John D;
(2020)
Protection conferred by typhoid fever against recurrent typhoid fever in urban Kolkata.
PLOS NEGLECTED TROPICAL DISEASES, 14 (8).
e0008530.
ISSN 1935-2735
DOI: https://doi.org/10.1371/journal.pntd.0008530
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Okomo, Uduak;
Senghore, Madikay;
Darboe, Saffiatou;
Bojang, Ebrima;
Zaman, Syed MA;
Hossain, Mohammad Jahangir;
Nwakanma, Davis;
Le Doare, Kirsty;
Holt, Kathryn E;
Hos, Nina Judith;
+3 more...
Lawn, Joy E;
Bentley, Stephen D;
Kampmann, Beate;
(2020)
Investigation of sequential outbreaks of Burkholderia cepacia and multidrug-resistant extended spectrum β-lactamase producing Klebsiella species in a West African tertiary hospital neonatal unit: a retrospective genomic analysis.
The Lancet Microbe, 1 (3).
e119-e129.
ISSN 2666-5247
DOI: https://doi.org/10.1016/s2666-5247(20)30061-6
Repetti, Sonja I;
Jackson, Christopher J;
Judd, Louise M;
Wick, Ryan R;
Holt, Kathryn E;
Verbruggen, Heroen;
(2020)
The inflated mitochondrial genomes of siphonous green algae reflect processes driving expansion of noncoding DNA and proliferation of introns.
PEERJ, 8 (1).
e8273-.
ISSN 2167-8359
DOI: https://doi.org/10.7717/peerj.8273
Torraca, Vincenzo;
Holt, Kathryn;
Mostowy, Serge;
(2020)
Shigella sonnei.
Trends in Microbiology, 28 (8).
pp. 696-697.
ISSN 0966-842X
DOI: https://doi.org/10.1016/j.tim.2020.02.011
Wan, Yu;
Wick, Ryan R;
Zobel, Justin;
Ingle, Danielle J;
Inouye, Michael;
Holt, Kathryn E;
(2020)
GeneMates: an R package for detecting horizontal gene co-transfer between bacteria using gene-gene associations controlled for population structure.
BMC GENOMICS, 21 (1).
p. 658.
ISSN 1471-2164
DOI: https://doi.org/10.1186/s12864-020-07019-6
Wyres, Kelly L;
Cahill, Sarah M;
Holt, Kathryn E;
Hall, Ruth M;
Kenyon, Johanna J;
(2020)
Identification of Acinetobacter baumannii loci for capsular polysaccharide (KL) and lipooligosaccharide outer core (OCL) synthesis in genome assemblies using curated reference databases compatible with Kaptive.
MICROBIAL GENOMICS, 6 (3).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000339
Wyres, Kelly L;
Nguyen, To NT;
Lam, Margaret MC;
Judd, Louise M;
van Vinh Chau, Nguyen;
Dance, David AB;
Ip, Margaret;
Karkey, Abhilasha;
Ling, Clare L;
Miliya, Thyl;
+10 more...
Newton, Paul N;
Lan, Nguyen Phu Huong;
Sengduangphachanh, Amphone;
Turner, Paul;
Veeraraghavan, Balaji;
Vinh, Phat Voong;
Vongsouvath, Manivanh;
Thomson, Nicholas R;
Baker, Stephen;
Holt, Kathryn E;
(2020)
Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from South and Southeast Asia.
Genome Medicine, 12 (1).
11-.
DOI: https://doi.org/10.1186/s13073-019-0706-y
Zhou, Kai;
Xiao, Tingting;
David, Sophia;
Wang, Qin;
Zhou, Yanzi;
Guo, Lihua;
Aanensen, David;
Holt, Kathryn E;
Thomson, Nicholas R;
Grundmann, Hajo;
+2 more...
Shen, Ping;
Xiao, Yonghong;
(2020)
Novel Subclone of Carbapenem-Resistant Klebsiella pneumoniae Sequence Type 11 with Enhanced Virulence and Transmissibility, China.
EMERGING INFECTIOUS DISEASES, 26 (2).
pp. 289-297.
ISSN 1080-6040
DOI: https://doi.org/10.3201/eid2602.190594
2019
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
Cerdeira, Louise T;
Lam, Margaret MC;
Wyres, Kelly L;
Wick, Ryan R;
Judd, Louise M;
Lopes, Ralf;
Ribas, Rosineide M;
Morais, Marcia M;
Holt, Kathryn E;
Lincopan, Nilton;
(2019)
Small IncQ1 and Col-Like Plasmids Harboring blaKPC-2 and Non-Tn4401 Elements (NTEKPC-IId) in High-Risk Lineages of Klebsiella pneumoniae CG258.
Antimicrobial agents and chemotherapy, 63 (3).
ISSN 0066-4804
DOI: https://doi.org/10.1128/AAC.02140-18
Chung The, Hao;
Boinett, Christine;
Pham Thanh, Duy;
Jenkins, Claire;
Weill, Francois-Xavier;
Howden, Benjamin P;
Valcanis, Mary;
De Lappe, Niall;
Cormican, Martin;
Wangchuk, Sonam;
+15 more...
Bodhidatta, Ladaporn;
Mason, Carl J;
Nguyen, To Nguyen Thi;
Ha Thanh, Tuyen;
Voong, Vinh Phat;
Duong, Vu Thuy;
Nguyen, Phu Huong Lan;
Turner, Paul;
Wick, Ryan;
Ceyssens, Pieter-Jan;
Thwaites, Guy;
Holt, Kathryn E;
Thomson, Nicholas R;
Rabaa, Maia A;
Baker, Stephen;
(2019)
Dissecting the molecular evolution of fluoroquinolone-resistant Shigella sonnei.
Nature communications, 10 (1).
4828-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-019-12823-0
Hamidian, Mohammad;
Hawkey, Jane;
Wick, Ryan;
Holt, Kathryn E;
Hall, Ruth M;
(2019)
Evolution of a clade of Acinetobacter baumannii global clone 1, lineage 1 via acquisition of carbapenem- and aminoglycoside-resistance genes and dispersion of ISAba1.
Microbial Genomics, 5 (1).
DOI: https://doi.org/10.1099/mgen.0.000242
Hamidian, Mohammad;
Wick, Ryan R;
Hartstein, Rebecca M;
Judd, Louise M;
Holt, Kathryn E;
Hall, Ruth M;
(2019)
Insights from the revised complete genome sequences of Acinetobacter baumannii strains AB307-0294 and ACICU belonging to global clones 1 and 2.
Microbial genomics, 5 (10).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000298
Hamidian, Mohammad;
Wick, Ryan R;
Judd, Louise M;
Holt, Kathryn E;
Hall, Ruth M;
(2019)
Complete Genome Sequence of A388, an Antibiotic-Resistant Acinetobacter baumannii Global Clone 1 Isolate from Greece.
Microbiology resource announcements, 8 (41).
ISSN 2576-098X
DOI: https://doi.org/10.1128/MRA.00971-19
Hawkey, Jane;
Le Hello, Simon;
Doublet, Benoît;
Granier, Sophie A;
Hendriksen, Rene S;
Fricke, W Florian;
Ceyssens, Pieter-Jan;
Gomart, Camille;
Billman-Jacobe, Helen;
Holt, Kathryn E;
+1 more...
Weill, François-Xavier;
(2019)
Global phylogenomics of multidrug-resistant Salmonella enterica serotype Kentucky ST198.
Microbial genomics, 5 (7).
DOI: https://doi.org/10.1099/mgen.0.000269
Holt, Kathryn E;
Lassalle, Florent;
Wyres, Kelly L;
Wick, Ryan;
Mostowy, Rafal J;
(2019)
Diversity and evolution of surface polysaccharide synthesis loci in Enterobacteriales.
BioRxiv.
DOI: https://doi.org/10.1101/709832
Ingle, Danielle J;
Easton, Marion;
Valcanis, Mary;
Seemann, Torsten;
Kwong, Jason C;
Stephens, Nicola;
Carter, Glen P;
Gonçalves da Silva, Anders;
Adamopoulos, James;
Baines, Sarah L;
+7 more...
Holt, Kathryn E;
Chow, Eric PF;
Fairley, Christopher K;
Chen, Marcus Y;
Kirk, Martyn D;
Howden, Benjamin P;
Williamson, Deborah A;
(2019)
Co-circulation of Multidrug-resistant Shigella Among Men Who Have Sex With Men in Australia.
Clinical Infectious Diseases, 69 (9).
pp. 1535-1544.
ISSN 1058-4838
DOI: https://doi.org/10.1093/cid/ciz005
Ingle, Danielle J;
Nair, Satheesh;
Hartman, Hassan;
Ashton, Philip M;
Dyson, Zoe A;
Day, Martin;
Freedman, Joanne;
Chattaway, Marie A;
Holt, Kathryn E;
Dallman, Timothy J;
(2019)
Informal genomic surveillance of regional distribution of Salmonella Typhi genotypes and antimicrobial resistance via returning travellers.
PLoS neglected tropical diseases, 13 (9).
e0007620-.
ISSN 1935-2727
DOI: https://doi.org/10.1371/journal.pntd.0007620
Karmakar, Malancha;
Rodrigues, Carlos HM;
Holt, Kathryn E;
Dunstan, Sarah J;
Denholm, Justin;
Ascher, David B;
(2019)
Empirical ways to identify novel Bedaquiline resistance mutations in AtpE.
PloS one, 14 (5).
e0217169-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0217169
Lam, Margaret MC;
Wyres, Kelly L;
Wick, Ryan R;
Judd, Louise M;
Fostervold, Aasmund;
Holt, Kathryn E;
Löhr, Iren Høyland;
(2019)
Convergence of virulence and MDR in a single plasmid vector in MDR Klebsiella pneumoniae ST15.
The Journal of antimicrobial chemotherapy, 74 (5).
pp. 1218-1222.
ISSN 0305-7453
DOI: https://doi.org/10.1093/jac/dkz028
Méric, Guillaume;
Wick, Ryan R;
Watts, Stephen C;
Holt, Kathryn E;
Inouye, Michael;
(2019)
Correcting index databases improves metagenomic studies.
bioRxiv.
DOI: https://doi.org/10.1101/712166
Watts, Stephen C;
Holt, Kathryn E;
(2019)
hicap: In Silico Serotyping of the Haemophilus influenzae Capsule Locus.
Journal of clinical microbiology, 57 (6).
ISSN 0095-1137
DOI: https://doi.org/10.1128/JCM.00190-19
Wick, Ryan R;
Holt, Kathryn E;
(2019)
Benchmarking of long-read assemblers for prokaryote whole genome sequencing.
F1000Research, 8.
2138-.
ISSN 2046-1402
DOI: https://doi.org/10.12688/f1000research.21782.4
Wick, Ryan R;
Judd, Louise M;
Holt, Kathryn E;
(2019)
Performance of neural network basecalling tools for Oxford Nanopore sequencing.
GENOME BIOLOGY, 20 (1).
129-.
ISSN 1474-760X
DOI: https://doi.org/10.1186/s13059-019-1727-y
Wyres, Kelly L;
Wick, Ryan R;
Judd, Louise M;
Froumine, Roni;
Tokolyi, Alex;
Gorrie, Claire L;
Lam, Margaret MC;
Duchêne, Sebastián;
Jenney, Adam;
Holt, Kathryn E;
(2019)
Distinct evolutionary dynamics of horizontal gene transfer in drug resistant and virulent clones of Klebsiella pneumoniae.
PLoS genetics, 15 (4).
e1008114-.
ISSN 1553-7390
DOI: https://doi.org/10.1371/journal.pgen.1008114
Wyrsch, Ethan R;
Hawkey, Jane;
Judd, Louise M;
Haites, Ruth;
Holt, Kathryn E;
Djordjevic, Steven P;
Billman-Jacobe, Helen;
(2019)
Z/I1 Hybrid Virulence Plasmids Carrying Antimicrobial Resistance genes in S. Typhimurium from Australian Food Animal Production.
MICROORGANISMS, 7 (9).
p. 299.
ISSN 2076-2607
DOI: https://doi.org/10.3390/microorganisms7090299
2018
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
Britto, Carl D;
Dyson, Zoe A;
Duchene, Sebastian;
Carter, Michael J;
Gurung, Meeru;
Kelly, Dominic F;
Murdoch, David R;
Ansari, Imran;
Thorson, Stephen;
Shrestha, Shrijana;
+4 more...
Adhikari, Neelam;
Dougan, Gordon;
Holt, Kathryn E;
Pollard, Andrew J;
(2018)
Laboratory and molecular surveillance of paediatric typhoidal Salmonella in Nepal: Antimicrobial resistance and implications for vaccine policy.
PLOS NEGLECTED TROPICAL DISEASES, 12 (4).
e0006408-.
ISSN 1935-2735
DOI: https://doi.org/10.1371/journal.pntd.0006408
Brynildsrud, Ola B;
Pepperell, Caitlin S;
Suffys, Philip;
Grandjean, Louis;
Monteserin, Johana;
Debech, Nadia;
Bohlin, Jon;
Alfsnes, Kristian;
Pettersson, John O-H;
Kirkeleite, Ingerid;
+20 more...
Fandinho, Fatima;
da Silva, Marcia Aparecida;
Perdigao, Joao;
Portugal, Isabel;
Viveiros, Miguel;
Clark, Taane;
Caws, Maxine;
Dunstan, Sarah;
Thai, Phan Vuong Khac;
Lopez, Beatriz;
Ritacco, Viviana;
Kitchen, Andrew;
Brown, Tyler S;
van Soolingen, Dick;
O'Neill, Mary B;
Holt, Kathryn E;
Feil, Edward J;
Mathema, Barun;
Balloux, Francois;
Eldholm, Vegard;
(2018)
Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation.
SCIENCE ADVANCES, 4 (10).
eaat5869-.
ISSN 2375-2548
DOI: https://doi.org/10.1126/sciadv.aat5869
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
Duchene, Sebastian;
Duchene, David A;
Geoghegan, Jemma L;
Dyson, Zoe A;
Hawkey, Jane;
Holt, Kathryn E;
(2018)
Inferring demographic parameters in bacterial genomic data using Bayesian and hybrid phylogenetic methods.
BMC EVOLUTIONARY BIOLOGY, 18 (1).
95-.
ISSN 1471-2148
DOI: https://doi.org/10.1186/s12862-018-1210-5
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
Hawkey, Jane;
Ascher, David B;
Judd, Louise M;
Wick, Ryan R;
Kostoulias, Xenia;
Cleland, Heather;
Spelman, Denis W;
Padiglione, Alex;
Peleg, Anton Y;
Holt, Kathryn E;
(2018)
Evolution of carbapenem resistance in Acinetobacter baumannii during a prolonged infection.
MICROBIAL GENOMICS, 4 (3).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000165
Holt, Kathryn E;
McAdam, Paul;
Thai, Phan Vuong Khac;
Thuong, Nguyen Thuy Thuong;
Ha, Dang Thi Minh;
Lan, Nguyen Ngoc;
Lan, Nguyen Huu;
Nhu, Nguyen Thi Quynh;
Hai, Hoang Thanh;
Ha, Vu Thi Ngoc;
+11 more...
Thwaites, Guy;
Edwards, David J;
Nath, Artika P;
Pham, Kym;
Ascher, David B;
Farrar, Jeremy;
Khor, Chiea Chuen;
Teo, Yik Ying;
Inouye, Michael;
Caws, Maxine;
Dunstan, Sarah J;
(2018)
Frequent transmission of the Mycobacterium tuberculosis Beijing lineage and positive selection for the EsxW Beijing variant in Vietnam.
NATURE GENETICS, 50 (6).
pp. 849-856.
ISSN 1061-4036
DOI: https://doi.org/10.1038/s41588-018-0117-9
Ingle, Danielle J;
Levine, Myron M;
Kotloff, Karen L;
Holt, Kathryn E;
Robins-Browne, Roy M;
(2018)
Dynamics of antimicrobial resistance in intestinal Escherichia coli from children in community settings in South Asia and sub-Saharan Africa.
Nature microbiology, 3 (9).
pp. 1063-1073.
ISSN 2058-5276
DOI: https://doi.org/10.1038/s41564-018-0217-4
Lam, Margaret MC;
Wick, Ryan R;
Wyres, Kelly L;
Gorrie, Claire L;
Judd, Louise M;
Jenney, Adam WJ;
Brisse, Sylvain;
Holt, Kathryn E;
(2018)
Genetic diversity, mobilisation and spread of the yersiniabactin-encoding mobile element ICEKp in Klebsiella pneumoniae populations.
MICROBIAL GENOMICS, 4 (9).
ISSN 2057-5858
DOI: https://doi.org/10.1099/mgen.0.000196
Lam, Margaret MC;
Wyres, Kelly L;
Duchêne, Sebastian;
Wick, Ryan R;
Judd, Louise M;
Gan, Yunn-Hwen;
Hoh, Chu-Han;
Archuleta, Sophia;
Molton, James S;
Kalimuddin, Shirin;
+4 more...
Koh, Tse Hsien;
Passet, Virginie;
Brisse, Sylvain;
Holt, Kathryn E;
(2018)
Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination.
Nature communications, 9 (1).
2703-.
ISSN 2041-1723
DOI: https://doi.org/10.1038/s41467-018-05114-7
Lam, Margaret MC;
Wyres, Kelly L;
Judd, Louise M;
Wick, Ryan R;
Jenney, Adam;
Brisse, Sylvain;
Holt, Kathryn E;
(2018)
Tracking key virulence loci encoding aerobactin and salmochelin siderophore synthesis in Klebsiella pneumoniae.
Genome medicine, 10 (1).
77-.
ISSN 1756-994X
DOI: https://doi.org/10.1186/s13073-018-0587-5
Manna, S;
Ortika, BD;
Dunne, EM;
Holt, KE;
Kama, M;
Russell, FM;
Hinds, J;
Satzke, C;
(2018)
A novel genetic variant of Streptococcus pneumoniae serotype 11A discovered in Fiji.
CLINICAL MICROBIOLOGY AND INFECTION, 24 (4).
428.e1-428.e7.
ISSN 1198-743X
DOI: https://doi.org/10.1016/j.cmi.2017.06.031
Mostowy, Rafał J;
Holt, Kathryn E;
(2018)
Diversity-Generating Machines: Genetics of Bacterial Sugar-Coating.
Trends in microbiology, 26 (12).
pp. 1008-1021.
ISSN 0966-842X
DOI: https://doi.org/10.1016/j.tim.2018.06.006
Nigro, Steven J;
Wick, Ryan;
Holt, Kathryn E;
Hall, Ruth M;
(2018)
Complete Genome Sequence of WM99c, an Antibiotic-Resistant Acinetobacter baumannii Global Clone 2 (GC2) Strain Representing an Australian GC2 Lineage.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS, 7 (22).
ISSN 2576-098X
DOI: https://doi.org/10.1128/MRA.01199-18
Park, Se Eun;
Pham, Duy Thanh;
Boinett, Christine;
Wong, Vanessa K;
Pak, Gi Deok;
Panzner, Ursula;
Espinoza, Ligia Maria Cruz;
von Kalckreuth, Vera;
Im, Justin;
Schütt-Gerowitt, Heidi;
+60 more...
Crump, John A;
Breiman, Robert F;
Adu-Sarkodie, Yaw;
Owusu-Dabo, Ellis;
Rakotozandrindrainy, Raphaël;
Soura, Abdramane Bassiahi;
Aseffa, Abraham;
Gasmelseed, Nagla;
Keddy, Karen H;
May, Jürgen;
Sow, Amy Gassama;
Aaby, Peter;
Biggs, Holly M;
Hertz, Julian T;
Montgomery, Joel M;
Cosmas, Leonard;
Olack, Beatrice;
Fields, Barry;
Sarpong, Nimako;
Razafindrabe, Tsiriniaina Jean Luco;
Raminosoa, Tiana Mirana;
Kabore, Leon Parfait;
Sampo, Emmanuel;
Teferi, Mekonnen;
Yeshitela, Biruk;
El Tayeb, Muna Ahmed;
Sooka, Arvinda;
Meyer, Christian G;
Krumkamp, Ralf;
Dekker, Denise Myriam;
Jaeger, Anna;
Poppert, Sven;
Tall, Adama;
Niang, Aissatou;
Bjerregaard-Andersen, Morten;
Løfberg, Sandra Valborg;
Seo, Hye Jin;
Jeon, Hyon Jin;
Deerin, Jessica Fung;
Park, Jinkyung;
Konings, Frank;
Ali, Mohammad;
Clemens, John D;
Hughes, Peter;
Sendagala, Juliet Nsimire;
Vudriko, Tobias;
Downing, Robert;
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Dyson, Zoe A;
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Wyres, Kelly L;
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Convergent adaptation in the dominant global hospital clone ST239 of methicillin-resistant Staphylococcus aureus.
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Multidrug-resistant Salmonella enterica serotype Typhi, Gulf of Guinea Region, Africa.
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Genome Sequence of Acinetobacter baumannii Strain D36, an Antibiotic-Resistant Isolate from Lineage 2 of Global Clone 1.
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Genome Sequence of Acinetobacter baumannii Strain A1, an Early Example of Antibiotic-Resistant Global Clone 1.
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Carbapenem and amikacin resistance on a large conjugative Acinetobacter baumannii plasmid.
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Fluxman, Jonathan;
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Lawrence, David;
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Ormerod, Julian;
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Singh, Surinder;
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Torabi, Payam;
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Act now against new NHS competition regulations: an open letter to the BMA and the Academy of Medical Royal Colleges calls on them to make a joint public statement of opposition to the amended section 75 regulations.
BMJ (Clinical research ed), 346 (mar20 ).
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Hogg, Geoff;
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Draft Genome Sequences for Ten Salmonella enterica Serovar Typhimurium Phage Type 135 Variants.
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Vu Tra, My Phan;
Campbell, James I;
Hoang, Nguyen Van Minh;
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Minh, Pham Van;
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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;
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Parkhill, Julian;
Dougan, Gordon;
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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).
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Howden, Benjamin P;
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Lam, Margaret MC;
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Genomic insights to control the emergence of vancomycin-resistant enterococci.
MBIO, 4 (4).
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Kingsley, Robert A;
Kay, Sally;
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Barquist, Lars;
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Holt, Kathryn E;
Sivaraman, Karthi;
Wileman, Thomas;
Goulding, David;
Clare, Simon;
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Hale, Christine;
Seshasayee, Aswin;
Harris, Simon;
Thomson, Nicholas R;
Gardner, Paul;
Rabsch, Wolfgang;
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Humphrey, Tom;
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Genome and transcriptome adaptation accompanying emergence of the definitive type 2 host-restricted Salmonella enterica serovar Typhimurium pathovar.
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Pham Thanh, Duy;
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Lodén, Martin;
Tuin, Kiki;
Campbell, James I;
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Farrar, Jeremy J;
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Dougan, Gordon;
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Identification of Salmonella enterica serovar Typhi genotypes by use of rapid multiplex ligation-dependent probe amplification.
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Wong, Vanessa K;
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Sivaraman, Karthikeyan;
Page, Andrew J;
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Holt, Kathryn E;
Kane, Leanne;
Mottram, Lynda F;
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Ellison, Louise;
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Characterization of the yehUT two-component regulatory system of Salmonella enterica Serovar Typhi and Typhimurium.
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Teasdale, Rohan D;
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A bioinformatic strategy for the detection, classification and analysis of bacterial autotransporters.
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Doig, Kenneth D;
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On the origin of Mycobacterium ulcerans, the causative agent of Buruli ulcer.
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Holt, Kathryn E;
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Holmes, Edward C;
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Choi, Seon Young;
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da Silveira, Wanderley D;
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Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe.
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Inouye, Michael;
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Short read sequence typing (SRST): multi-locus sequence types from short reads.
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Baker, Stephen;
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Holt, Kathryn E;
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Hoang, Nguyen Van Minh;
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2010
Baker, Stephen;
Hanage, William P;
Holt, Kathryn E;
(2010)
Navigating the future of bacterial molecular epidemiology.
Current opinion in microbiology, 13 (5).
pp. 640-645.
ISSN 1369-5274
DOI: https://doi.org/10.1016/j.mib.2010.08.002
He, Miao;
Sebaihia, Mohammed;
Lawley, Trevor D;
Stabler, Richard A;
Dawson, Lisa F;
Martin, Melissa J;
Holt, Kathryn E;
Seth-Smith, Helena MB;
Quail, Michael A;
Rance, Richard;
+15 more...
Brooks, Karen;
Churcher, Carol;
Harris, David;
Bentley, Stephen D;
Burrows, Christine;
Clark, Louise;
Corton, Craig;
Murray, Vicky;
Rose, Graham;
Thurston, Scott;
van Tonder, Andries;
Walker, Danielle;
Wren, Brendan W;
Dougan, Gordon;
Parkhill, Julian;
(2010)
Evolutionary dynamics of Clostridium difficile over short and long time scales.
Proceedings of the National Academy of Sciences of the United States of America, 107 (16).
pp. 7527-7532.
ISSN 0027-8424
DOI: https://doi.org/10.1073/pnas.0914322107
Full text not available from this repository.
Karkey, Abhilasha;
Arjyal, Amit;
Anders, Katherine L;
Boni, Maciej F;
Dongol, Sabina;
Koirala, Samir;
My, Phan Vu Tra;
Nga, Tran Vu Thieu;
Clements, Archie CA;
Holt, Kathryn E;
+8 more...
Duy, Pham Thanh;
Day, Jeremy N;
Campbell, James I;
Dougan, Gordon;
Dolecek, Christiane;
Farrar, Jeremy;
Basnyat, Buddha;
Baker, Stephen;
(2010)
The burden and characteristics of enteric fever at a healthcare facility in a densely populated area of Kathmandu.
PLOS ONE, 5 (11).
e13988-.
ISSN 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0013988
Nga, Tran Vu Thieu;
Karkey, Abhilasha;
Dongol, Sabina;
Thuy, Hang Nguyen;
Dunstan, Sarah;
Holt, Kathryn;
Tu, Le Thi Phuong;
Campbell, James I;
Chau, Tran Thuy;
Chau, Nguyen Van Vinh;
+6 more...
Arjyal, Amit;
Koirala, Samir;
Basnyat, Buddha;
Dolecek, Christiane;
Farrar, Jeremy;
Baker, Stephen;
(2010)
The sensitivity of real-time PCR amplification targeting invasive Salmonella serovars in biological specimens.
BMC INFECTIOUS DISEASES, 10 (1).
125-.
ISSN 1471-2334
DOI: https://doi.org/10.1186/1471-2334-10-125
Song, Yajun;
Roumagnac, Philippe;
Weill, François-Xavier;
Wain, John;
Dolecek, Christiane;
Mazzoni, Camila J;
Holt, Kathryn E;
Achtman, Mark;
(2010)
A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 65 (8).
pp. 1631-1641.
ISSN 0305-7453
DOI: https://doi.org/10.1093/jac/dkq175
2009
Holt, Kathryn E;
Teo, Yik Y;
Li, Heng;
Nair, Satheesh;
Dougan, Gordon;
Wain, John;
Parkhill, Julian;
(2009)
Detecting SNPs and estimating allele frequencies in clonal bacterial populations by sequencing pooled DNA.
BIOINFORMATICS, 25 (16).
pp. 2074-2075.
ISSN 1367-4803
DOI: https://doi.org/10.1093/bioinformatics/btp344
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
2008
Holt, Kathryn E;
Parkhill, Julian;
Mazzoni, Camila J;
Roumagnac, Philippe;
Weill, François-Xavier;
Goodhead, Ian;
Rance, Richard;
Baker, Stephen;
Maskell, Duncan J;
Wain, John;
+3 more...
Dolecek, Christiane;
Achtman, Mark;
Dougan, Gordon;
(2008)
High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi.
Nature genetics, 40 (8).
pp. 987-993.
ISSN 1061-4036
DOI: https://doi.org/10.1038/ng.195
Full text not available from this repository.
2007
Baker, Stephen;
Holt, Kathryn;
Whitehead, Sally;
Goodhead, Ian;
Perkins, Tim;
Stocker, Bruce;
Hardy, Jonathan;
Dougan, Gordon;
(2007)
A linear plasmid truncation induces unidirectional flagellar phase change in H:z66 positive Salmonella Typhi.
MOLECULAR MICROBIOLOGY, 66 (5).
pp. 1207-1218.
ISSN 0950-382X
DOI: https://doi.org/10.1111/j.1365-2958.2007.05995.x
2006
Holt, Kathryn E;
Millar, A Harvey;
Whelan, James;
(2006)
ModuleFinder and CoReg: alternative tools for linking gene expression modules with promoter sequences motifs to uncover gene regulation mechanisms in plants.
PLANT METHODS, 2 (1).
8-.
ISSN 1746-4811
DOI: https://doi.org/10.1186/1746-4811-2-8