Doyle, Ronan; Rubio, Marc; Dixon, Garth; Hartley, John; Klein, Nigel; Coll, Pere; Harris, Kathryn; (2019) Cross-transmission is not the source of new Mycobacterium abscessus infections in a multi-centre cohort of cystic fibrosis patients. DOI: https://doi.org/10.1101/582684

Fitzgerald, Felicity C; Lhomme, Edouard; Harris, Kathryn; Kenny, Julia; Doyle, Ronan; Kityo, Cissy; Shaw, Liam P; Abongomera, George; Musiime, Victor; Cook, Adrian; +116 more... Brown, Julianne R; Brooks, Anthony; Owen-Powell, Ellen; Gibb, Diana M; Prendergast, Andrew J; Walker, A Sarah; Thiebaut, Rodolphe; Klein, Nigel; Chintu, Chifumbe; Mulenga, Veronica; Kabamba, Desiree; Kavindele, Dorothy; Chabala, Chishala; Mwenechanya, Musaku; Kapasa, Monica; Zulu, Caroline C; Kalumbi, Mox; Chambula, Elias; Lungu, Joyce; Liusha, Marjory N; Zangata, Dorothy; Masuka, Dorica; Chambula, Elias; Chanshi, Shadreck; Chipoya, Terence; Zulu, Semy; Chola, Daniel; Chanda, Betty; Malama, Steven; Chama, Chama; Mulambo, Sylvia; Mwanza, Mpala; Asiimwe, R Alice; Tukei, J Vicent; Korutaro, Violet; Komunyena, Justine; Sebuliba, Isaac; Kisekka, Muzamil; Nansubuga, Carolyn; Mpanga, N Justine; Matovu, Moses; Okello, Charles; Kesande, Sharon; Namutebi, Gladys; Tumuheirirwe, E Glorius; Nagawa, Immaculate; Nakimera, Sarah; Onen, Geoffrey; Kabasita, Fatuma; Sunday, Fred; Isabirye, Dick; Mirembe, Grace; Kaudha, Elizabeth; Drasiku, Amos; Bainomuhwezi, Bernard; Wavamunno, Priscilla; Odongo, Florence; Lukowe, Constance; Namala, Winnie; Sseremba, Daniel; Balaba, Alison; Kwaga, Alice; Kayiwa, Joshua; Odera, Matthew; Oronon, Paul; Bagurukira, Edith; Mwesigwa, Phyllis; Apugulu, Philip; Mugarura, Lincoln; Williams, Eram David; Odoch, Denis; Nankya, Immaculate; Ndashimyeeva, Emmanuel; Nabulime, Eva; Abach, James; Odong, Willy Agings; Arach, Beatrice; Aciro, Irene Claren; Omongin, Joseph; Amone, Geoffrey; Okello, Peter; Aleti, Philliam; Otim, Edward; Kidega, Patrick; Achol, Emmanuel; Aloyo, Gladys; Alani, Robert; Akera, Alex; Odong, Ciprian; Siwingwa, Mpanji; Mwape, Innocent; Zulu, Joshua; Chipili, Gabriel; Chibesa, Linda; Thomason, Margaret J; Cook, Adrian; Owen-Powell, Ellen; Ferrier, Alex; Baptiste, David; Male, Charlotte; Murphy, Brendan; Spyer, Moira; Burger, David; Fillekes, Quirine; Colbers, Angela; McIlleron, Helen; Chomba, Elwyn; Ramos, Jose; Akol, Zainab; Elyanu, Peter; Nakimuli, Harriet; Peto, Tim EA; Tumwine, Margaret Siwale James; Lyall, Hermione; Kenny, Julia; Gibb, Diana M; (2019) Microbial Translocation Does Not Drive Immune Activation in Ugandan Children Infected With HIV. JOURNAL OF INFECTIOUS DISEASES, 219 (1). pp. 89-100. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiy495

Nimmo, Camus; Shaw, Liam P; Doyle, Rona; Williams, Rachel; Brien, Kayleen; Burgess, Carrie; Breuer, Judith; Balloux, Francois; Pym, Alexander S; (2019) Whole genome sequencing Mycobacterium tuberculosis directly from sputum identifies more genetic diversity than sequencing from culture. BMC Genomics, 20 (1). DOI: https://doi.org/10.1186/s12864-019-5782-2

Nimmo, Camus; Shaw, Liam P; Doyle, Ronan; Williams, Rachel; Brien, Kayleen; Burgess, Carrie; Breuer, Judith; Balloux, Francois; Pym, Alexander S; (2019) Correction to: Whole genome sequencing Mycobacterium tuberculosis directly from sputum identifies more genetic diversity than sequencing from culture. BMC genomics, 20 (1). p. 433. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-019-5841-8

Shaw, Liam P; Doyle, Ronan M; Kavaliunaite, Ema; Spencer, Helen; Balloux, Francois; Dixon, Garth; Harris, Kathryn A; (2019) Children with cystic fibrosis are infected with multiple subpopulations of Mycobacterium abscessus with different antimicrobial resistance profiles. Clinical infectious diseases. ISSN 1058-4838 DOI: https://doi.org/10.1093/cid/ciz069

Ashorn, Per; Hallamaa, Lotta; Allen, Lindsay H; Ashorn, Ulla; Chandrasiri, Upeksha; Deitchler, Megan; Doyle, Ronan; Harjunmaa, Ulla; Jorgensen, Josh M; Kamiza, Steve; +9 more... Klein, Nigel; Maleta, Kenneth; Nkhoma, Minyanga; Oaks, Brietta M; Poelman, Basho; Rogerson, Stephen J; Stewart, Christine P; Zeilani, Mamane; Dewey, Kathryn G; (2018) Co-causation of reduced newborn size by maternal undernutrition, infections, and inflammation. MATERNAL AND CHILD NUTRITION, 14 (3). ISSN 1740-8695 DOI: https://doi.org/10.1111/mcn.12585

Clark, Stephen A; Doyle, Ronan; Lucidarme, Jay; Borrow, Ray; Breuer, Judith; (2018) Targeted DNA enrichment and whole genome sequencing of Neisseria meningitidis directly from clinical specimens. INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY, 308 (2). pp. 256-262. ISSN 1438-4221 DOI: https://doi.org/10.1016/j.ijmm.2017.11.004

Doyle, Ronan M; Burgess, Carrie; Williams, Rachel; Gorton, Rebecca; Booth, Helen; Brown, James; Bryant, Josephine M; Chan, Jackie; Creer, Dean; Holdstock, Jolyon; +10 more... Kunst, Heinke; Lozewicz, Stefan; Platt, Gareth; Romero, Erika Yara; Speight, Graham; Tiberi, Simon; Abubakar, Ibrahim; Lipman, Marc; McHugh, Timothy D; Breuer, Judith; (2018) Direct Whole-Genome Sequencing of Sputum Accurately Identifies Drug-Resistant Mycobacterium tuberculosis Faster than MGIT Culture Sequencing. JOURNAL OF CLINICAL MICROBIOLOGY, 56 (8). ISSN 0095-1137 DOI: https://doi.org/10.1128/JCM.00666-18

Doyle, Ronan; Gondwe, Austridia; Fan, Yue-Mei; Maleta, Kenneth; Ashorn, Per; Klein, Nigel; Harris, Kathryn; (2018) A Lactobacillus-Deficient Vaginal Microbiota Dominates Postpartum Women in Rural Malawi. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 84 (6). ISSN 0099-2240 DOI: https://doi.org/10.1128/AEM.02150-17

Harjunmaa, U; Doyle, R; Jarnstedt, J; Kamiza, S; Jorgensen, JM; Stewart, CP; Shaw, L; Hallamaa, L; Ashorn, U; Klein, N; +3 more... Dewey, KG; Maleta, K; Ashorn, P; (2018) Periapical infection may affect birth outcomes via systemic inflammation. ORAL DISEASES, 24 (5). pp. 847-855. ISSN 1354-523X DOI: https://doi.org/10.1111/odi.12817

Nimmo, Camus; Shaw, Liam; Doyle, Ronan; Williams, Rachel; Brien, Kayleen; Burgess, Carrie; Breuer, Judith; Balloux, Francois; Pym, Alexander; (2018) Whole genome sequencing Mycobacterium tuberculosis directly from sputum identifies more genetic diversity than sequencing from culture. DOI: https://doi.org/10.1101/446849

Shaw, Liam; Doyle, Ronan; Kavaliunaite, Ema; Spencer, Helen; Balloux, Francois; Dixon, Garth; Harris, Kathryn; (2018) Children with cystic fibrosis are infected with multiple subpopulations of Mycobacterium abscessus with different antimicrobial resistance profiles. biorXiv. DOI: https://doi.org/10.1101/436261

Doyle, Ronan M; Harris, Kathryn; Kamiza, Steve; Harjunmaa, Ulla; Ashorn, Ulla; Nkhoma, Minyanga; Dewey, Kathryn G; Maleta, Kenneth; Ashorn, Per; Klein, Nigel; (2017) Bacterial communities found in placental tissues are associated with severe chorioamnionitis and adverse birth outcomes. PLOS ONE, 12 (7). ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0180167

Nimmo, Camus; Doyle, Ronan; Burgess, Carrie; Williams, Rachel; Gorton, Rebecca; McHugh, Timothy D; Brown, Mike; Morris-Jones, Stephen; Booth, Helen; Breuer, Judith; (2017) Rapid identification of a Mycobacterium tuberculosis full genetic drug resistance profile through whole genome sequencing directly from sputum. INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES, 62. pp. 44-46. ISSN 1201-9712 DOI: https://doi.org/10.1016/j.ijid.2017.07.007

Peters, Remco PH; Doyle, Ronan; Redelinghuys, Mathys J; McIntyre, James A; Verjans, Georges M; Breuer, Judith; Kock, Marleen M; (2017) Chlamydia trachomatis Biovar L2 Infection in Women in South Africa. EMERGING INFECTIOUS DISEASES, 23 (11). pp. 1913-1915. ISSN 1080-6040 DOI: https://doi.org/10.3201/eid2311.170758

Peters, Remco; Redelinghuys, Mathys; Mcintyre, James; Doyle, Ronan; Verjans, Georges; Breuer, Judith; Kock, Marleen; (2017) Presence of genital Chlamydia trachomatis serotype l2 infection in South African women. In: STI and HIV World Congress Abstracts, July 9–12 2017, Rio de Janeiro, Brazil. DOI: https://doi.org/10.1136/sextrans-2017-053264.213

Shaw, Liam; Harjunmaa, Ulla; Doyle, Ronan; Mulewa, Simeon; Charlie, Davie; Maleta, Ken; Callard, Robin; Walker, A Sarah; Balloux, Francois; Ashorn, Per; +1 more... Klein, Nigel; (2016) Distinguishing the Signals of Gingivitis and Periodontitis in Supragingival Plaque: a Cross-Sectional Cohort Study in Malawi. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 82 (19). pp. 6057-6067. ISSN 0099-2240 DOI: https://doi.org/10.1128/AEM.01756-16

Doyle, RM; Alber, DG; Jones, HE; Harris, K; Fitzgerald, F; Peebles, D; Klein, N; (2014) Term and preterm labour are associated with distinct microbial community structures in placental membranes which are independent of mode of delivery. PLACENTA, 35 (12). pp. 1099-1101. ISSN 0143-4004 DOI: https://doi.org/10.1016/j.placenta.2014.10.007

Rosser, EC; Oleinika, K; Doyle, R; Bosma, A; Carter, NA; Harris, KA; Jones, SA; Klein, N; Mauri, C; (2014) Regulatory B-cell differentiation is under the control of gut-microbiota induced IL-1 beta and IL-6. [Conference or Workshop Item] http://researchonline.lshtm.ac.uk/id/eprint/4652980 Item availability may be restricted.

Rosser, Elizabeth C; Oleinika, Kristine; Tonon, Silvia; Doyle, Ronan; Bosma, Anneleen; Carter, Natalie A; Harris, Kathryn A; Jones, Simon A; Klein, Nigel; Mauri, Claudia; (2014) Regulatory B cells are induced by gut microbiota-driven interleukin-1 beta and interleukin-6 production. NATURE MEDICINE, 20 (11). pp. 1334-1339. ISSN 1078-8956 DOI: https://doi.org/10.1038/nm.3680 Item availability may be restricted.

Fitzgerald, Felicity; Harris, Kathryn; Doyle, Ronan; Alber, Dagmar; Klein, Nigel; (2013) Short Communication: Evidence That Microbial Translocation Occurs in HIV-Infected Children in the United Kingdom. AIDS RESEARCH AND HUMAN RETROVIRUSES, 29 (12). pp. 1589-1593. ISSN 0889-2229 DOI: https://doi.org/10.1089/aid.2013.0097 Item availability may be restricted.