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Items: 33

1.

Dissecting the molecular evolution of fluoroquinolone-resistant Shigella sonnei.

Chung The H, Boinett C, Pham Thanh D, Jenkins C, Weill FX, Howden BP, Valcanis M, De Lappe N, Cormican M, Wangchuk S, Bodhidatta L, Mason CJ, Nguyen TNT, Ha Thanh T, Voong VP, Duong VT, Nguyen PHL, Turner P, Wick R, Ceyssens PJ, Thwaites G, Holt KE, Thomson NR, Rabaa MA, Baker S.

Nat Commun. 2019 Oct 23;10(1):4828. doi: 10.1038/s41467-019-12823-0.

2.

Genome-wide mutational biases fuel transcriptional diversity in the Mycobacterium tuberculosis complex.

Chiner-Oms Á, Berney M, Boinett C, González-Candelas F, Young DB, Gagneux S, Jacobs WR Jr, Parkhill J, Cortes T, Comas I.

Nat Commun. 2019 Sep 5;10(1):3994. doi: 10.1038/s41467-019-11948-6.

3.

Contrasting patterns of longitudinal population dynamics and antimicrobial resistance mechanisms in two priority bacterial pathogens over 7 years in a single center.

Ellington MJ, Heinz E, Wailan AM, Dorman MJ, de Goffau M, Cain AK, Henson SP, Gleadall N, Boinett CJ, Dougan G, Brown NM, Woodford N, Parkhill J, Török ME, Peacock SJ, Thomson NR.

Genome Biol. 2019 Sep 2;20(1):184. doi: 10.1186/s13059-019-1785-1.

4.

Clinical and laboratory-induced colistin-resistance mechanisms in Acinetobacter baumannii.

Boinett CJ, Cain AK, Hawkey J, Do Hoang NT, Khanh NNT, Thanh DP, Dordel J, Campbell JI, Lan NPH, Mayho M, Langridge GC, Hadfield J, Chau NVV, Thwaites GE, Parkhill J, Thomson NR, Holt KE, Baker S.

Microb Genom. 2019 Feb;5(2). doi: 10.1099/mgen.0.000246. Epub 2019 Feb 5.

5.

The phylogeography and incidence of multi-drug resistant typhoid fever in sub-Saharan Africa.

Park SE, Pham DT, Boinett C, Wong VK, Pak GD, Panzner U, Espinoza LMC, von Kalckreuth V, Im J, Schütt-Gerowitt H, Crump JA, Breiman RF, Adu-Sarkodie Y, Owusu-Dabo E, Rakotozandrindrainy R, Soura AB, Aseffa A, Gasmelseed N, Keddy KH, May J, Sow AG, Aaby P, Biggs HM, Hertz JT, Montgomery JM, Cosmas L, Olack B, Fields B, Sarpong N, Razafindrabe TJL, Raminosoa TM, Kabore LP, Sampo E, Teferi M, Yeshitela B, El Tayeb MA, Sooka A, Meyer CG, Krumkamp R, Dekker DM, Jaeger A, Poppert S, Tall A, Niang A, Bjerregaard-Andersen M, Løfberg SV, Seo HJ, Jeon HJ, Deerin JF, Park J, Konings F, Ali M, Clemens JD, Hughes P, Sendagala JN, Vudriko T, Downing R, Ikumapayi UN, Mackenzie GA, Obaro S, Argimon S, Aanensen DM, Page A, Keane JA, Duchene S, Dyson Z, Holt KE, Dougan G, Marks F, Baker S.

Nat Commun. 2018 Nov 30;9(1):5094. doi: 10.1038/s41467-018-07370-z.

6.

O-Antigen-Dependent Colicin Insensitivity of Uropathogenic Escherichia coli.

Sharp C, Boinett C, Cain A, Housden NG, Kumar S, Turner K, Parkhill J, Kleanthous C.

J Bacteriol. 2019 Jan 28;201(4). pii: e00545-18. doi: 10.1128/JB.00545-18. Print 2019 Feb 15.

7.

A global genomic approach uncovers novel components for twitching motility-mediated biofilm expansion in Pseudomonas aeruginosa.

Nolan LM, Whitchurch CB, Barquist L, Katrib M, Boinett CJ, Mayho M, Goulding D, Charles IG, Filloux A, Parkhill J, Cain AK.

Microb Genom. 2018 Nov;4(11). doi: 10.1099/mgen.0.000229. Epub 2018 Nov 1.

8.

Changing Antimicrobial Resistance Trends in Kathmandu, Nepal: A 23-Year Retrospective Analysis of Bacteraemia.

Zellweger RM, Basnyat B, Shrestha P, Prajapati KG, Dongol S, Sharma PK, Koirala S, Darton TC, Boinett C, Thompson CN, Thwaites GE, Baker S, Karkey A.

Front Med (Lausanne). 2018 Sep 19;5:262. doi: 10.3389/fmed.2018.00262. eCollection 2018.

9.

Outbreaks of Serratia marcescens and Serratia rubidaea bacteremia in a central Kathmandu hospital following the 2015 earthquakes.

Karkey A, Joshi N, Chalise S, Joshi S, Shrestha S, Thi Nguyen TN, Dongol S, Basnyat B, Baker S, Boinett CJ.

Trans R Soc Trop Med Hyg. 2018 Oct 1;112(10):467-472. doi: 10.1093/trstmh/try077.

10.

Investigating the Campylobacter jejuni Transcriptional Response to Host Intestinal Extracts Reveals the Involvement of a Widely Conserved Iron Uptake System.

Liu MM, Boinett CJ, Chan ACK, Parkhill J, Murphy MEP, Gaynor EC.

MBio. 2018 Aug 7;9(4). pii: e01347-18. doi: 10.1128/mBio.01347-18.

11.

Transposon Insertion Sequencing Elucidates Novel Gene Involvement in Susceptibility and Resistance to Phages T4 and T7 in Escherichia coli O157.

Cowley LA, Low AS, Pickard D, Boinett CJ, Dallman TJ, Day M, Perry N, Gally DL, Parkhill J, Jenkins C, Cain AK.

MBio. 2018 Jul 24;9(4). pii: e00705-18. doi: 10.1128/mBio.00705-18.

12.

Morphological, genomic and transcriptomic responses of Klebsiella pneumoniae to the last-line antibiotic colistin.

Cain AK, Boinett CJ, Barquist L, Dordel J, Fookes M, Mayho M, Ellington MJ, Goulding D, Pickard D, Wick RR, Holt KE, Parkhill J, Thomson NR.

Sci Rep. 2018 Jun 29;8(1):9868. doi: 10.1038/s41598-018-28199-y.

13.

Clinical features, antimicrobial susceptibility patterns and genomics of bacteria causing neonatal sepsis in a children's hospital in Vietnam: protocol for a prospective observational study.

Toan ND, Darton TC, Boinett CJ, Campbell JI, Karkey A, Kestelyn E, Thinh LQ, Mau NK, Thanh Tam PT, Nhan LNT, Quang Minh NN, Phuong CN, Hung NT, Xuan NM, Thuong TC, Baker S.

BMJ Open. 2018 Jan 24;8(1):e019611. doi: 10.1136/bmjopen-2017-019611.

14.

Phenotypic and genotypic characteristics of ESBL and AmpC producing organisms associated with bacteraemia in Ho Chi Minh City, Vietnam.

Lan NPH, Hien NH, Le Thi Phuong T, Thanh DP, Thieu NTV, Ngoc DTT, Tuyen HT, Vinh PV, Ellington MJ, Thwaites GE, Van Vinh Chau N, Baker S, Boinett CJ.

Antimicrob Resist Infect Control. 2017 Oct 16;6:105. doi: 10.1186/s13756-017-0265-1. eCollection 2017.

15.

Molecular epidemiology of Klebsiella pneumoniae invasive infections over a decade at Kilifi County Hospital in Kenya.

Henson SP, Boinett CJ, Ellington MJ, Kagia N, Mwarumba S, Nyongesa S, Mturi N, Kariuki S, Scott JAG, Thomson NR, Morpeth SC.

Int J Med Microbiol. 2017 Oct;307(7):422-429. doi: 10.1016/j.ijmm.2017.07.006. Epub 2017 Jul 22.

16.

The essential genomic landscape of the commensal Bifidobacterium breve UCC2003.

Ruiz L, Bottacini F, Boinett CJ, Cain AK, O'Connell-Motherway M, Lawley TD, van Sinderen D.

Sci Rep. 2017 Jul 17;7(1):5648. doi: 10.1038/s41598-017-05795-y.

17.

The secondary resistome of multidrug-resistant Klebsiella pneumoniae.

Jana B, Cain AK, Doerrler WT, Boinett CJ, Fookes MC, Parkhill J, Guardabassi L.

Sci Rep. 2017 Feb 15;7:42483. doi: 10.1038/srep42483.

18.

Fluorescence-Based Flow Sorting in Parallel with Transposon Insertion Site Sequencing Identifies Multidrug Efflux Systems in Acinetobacter baumannii.

Hassan KA, Cain AK, Huang T, Liu Q, Elbourne LD, Boinett CJ, Brzoska AJ, Li L, Ostrowski M, Nhu NT, Nhu Tdo H, Baker S, Parkhill J, Paulsen IT.

MBio. 2016 Sep 6;7(5). pii: e01200-16. doi: 10.1128/mBio.01200-16.

19.

Recent independent emergence of multiple multidrug-resistant Serratia marcescens clones within the United Kingdom and Ireland.

Moradigaravand D, Boinett CJ, Martin V, Peacock SJ, Parkhill J.

Genome Res. 2016 Aug;26(8):1101-9. doi: 10.1101/gr.205245.116. Epub 2016 Jul 18.

20.

Complete Genome Sequence of the First KPC-Type Carbapenemase-Positive Proteus mirabilis Strain from a Bloodstream Infection.

Di Pilato V, Chiarelli A, Boinett CJ, Riccobono E, Harris SR, D'Andrea MM, Thomson NR, Rossolini GM, Giani T.

Genome Announc. 2016 Jun 23;4(3). pii: e00607-16. doi: 10.1128/genomeA.00607-16.

21.

EPEC: a cocktail of virulence.

Kallonen T, Boinett CJ.

Nat Rev Microbiol. 2016 Apr;14(4):196. doi: 10.1038/nrmicro.2016.33. Epub 2016 Mar 7.

PMID:
26949047
22.

The TraDIS toolkit: sequencing and analysis for dense transposon mutant libraries.

Barquist L, Mayho M, Cummins C, Cain AK, Boinett CJ, Page AJ, Langridge GC, Quail MA, Keane JA, Parkhill J.

Bioinformatics. 2016 Apr 1;32(7):1109-11. doi: 10.1093/bioinformatics/btw022. Epub 2016 Jan 21.

23.

The Murray collection of pre-antibiotic era Enterobacteriacae: a unique research resource.

Baker KS, Burnett E, McGregor H, Deheer-Graham A, Boinett C, Langridge GC, Wailan AM, Cain AK, Thomson NR, Russell JE, Parkhill J.

Genome Med. 2015 Sep 28;7:97. doi: 10.1186/s13073-015-0222-7.

24.

A putative, novel coli surface antigen 8B (CS8B) of enterotoxigenic Escherichia coli.

Njoroge SM, Boinett CJ, Madé LF, Ouko TT, Fèvre EM, Thomson NR, Kariuki S.

Pathog Dis. 2015 Oct;73(7). pii: ftv047. doi: 10.1093/femspd/ftv047. Epub 2015 Jul 17.

25.

Erratum for Boinett et al., Complete Genome Sequence of Bordetella pertussis D420.

Boinett CJ, Harris SR, Langridge GC, Trainor EA, Merkel TJ, Parkhill J.

Genome Announc. 2015 Jul 16;3(4). pii: e00842-15. doi: 10.1128/genomeA.00842-15. No abstract available.

26.

Complete Genome Sequence of Bordetella pertussis D420.

Boinett CJ, Harris SR, Langridge GC, Trainor EA, Merkel TJ, Parkhill J.

Genome Announc. 2015 Jun 11;3(3). pii: e00657-15. doi: 10.1128/genomeA.00657-15. Erratum in: Genome Announc. 2015;3(4). pii: e00842-15. doi: 10.1128/genomeA.00842-15.

27.

High-throughput analysis of gene essentiality and sporulation in Clostridium difficile.

Dembek M, Barquist L, Boinett CJ, Cain AK, Mayho M, Lawley TD, Fairweather NF, Fagan RP.

MBio. 2015 Feb 24;6(2):e02383. doi: 10.1128/mBio.02383-14.

28.

A high-resolution genomic analysis of multidrug-resistant hospital outbreaks of Klebsiella pneumoniae.

Chung The H, Karkey A, Pham Thanh D, Boinett CJ, Cain AK, Ellington M, Baker KS, Dongol S, Thompson C, Harris SR, Jombart T, Le Thi Phuong T, Tran Do Hoang N, Ha Thanh T, Shretha S, Joshi S, Basnyat B, Thwaites G, Thomson NR, Rabaa MA, Baker S.

EMBO Mol Med. 2015 Mar;7(3):227-39. doi: 10.15252/emmm.201404767.

29.

Recombination: genomic mix 'n' match.

Boinett CJ, Cain AK.

Nat Rev Microbiol. 2014 Dec;12(12):795. doi: 10.1038/nrmicro3388. Epub 2014 Nov 10. No abstract available.

PMID:
25383603
30.

Approaches to querying bacterial genomes with transposon-insertion sequencing.

Barquist L, Boinett CJ, Cain AK.

RNA Biol. 2013 Jul;10(7):1161-9. doi: 10.4161/rna.24765. Epub 2013 Apr 23. Review.

31.

A CRISPR view of genome sequences.

Cain AK, Boinett CJ.

Nat Rev Microbiol. 2013 Apr;11(4):226. doi: 10.1038/nrmicro2997. Epub 2013 Mar 11. No abstract available.

PMID:
23474684
32.

Gag determinants of fitness and drug susceptibility in protease inhibitor-resistant human immunodeficiency virus type 1.

Parry CM, Kohli A, Boinett CJ, Towers GJ, McCormick AL, Pillay D.

J Virol. 2009 Sep;83(18):9094-101. doi: 10.1128/JVI.02356-08. Epub 2009 Jul 8.

33.

Pasteurella multocida septicaemia in a patient on haemodialysis.

Boinett C, Gonzalez A.

BMJ Case Rep. 2009;2009. pii: bcr01.2009.1492. doi: 10.1136/bcr.01.2009.1492. Epub 2009 Apr 7.

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