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Results: 1 to 20 of 348

1.

Defining the estimated core genome of bacterial populations using a bayesian decision model.

van Tonder AJ, Mistry S, Bray JE, Hill DM, Cody AJ, Farmer CL, Klugman KP, von Gottberg A, Bentley SD, Parkhill J, Jolley KA, Maiden MC, Brueggemann AB.

PLoS Comput Biol. 2014 Aug 21;10(8):e1003788. doi: 10.1371/journal.pcbi.1003788. eCollection 2014 Aug.

PMID:
25144616
[PubMed - in process]
Free PMC Article
2.

Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis.

Bos KI, Harkins KM, Herbig A, Coscolla M, Weber N, Comas I, Forrest SA, Bryant JM, Harris SR, Schuenemann VJ, Campbell TJ, Majander K, Wilbur AK, Guichon RA, Wolfe Steadman DL, Cook DC, Niemann S, Behr MA, Zumarraga M, Bastida R, Huson D, Nieselt K, Young D, Parkhill J, Buikstra JE, Gagneux S, Stone AC, Krause J.

Nature. 2014 Aug 20. doi: 10.1038/nature13591. [Epub ahead of print]

PMID:
25141181
[PubMed - as supplied by publisher]
3.

Comprehensive Identification of Single Nucleotide Polymorphisms Associated with Beta-lactam Resistance within Pneumococcal Mosaic Genes.

Chewapreecha C, Marttinen P, Croucher NJ, Salter SJ, Harris SR, Mather AE, Hanage WP, Goldblatt D, Nosten FH, Turner C, Turner P, Bentley SD, Parkhill J.

PLoS Genet. 2014 Aug 7;10(8):e1004547. doi: 10.1371/journal.pgen.1004547. eCollection 2014 Aug.

PMID:
25101644
[PubMed - in process]
Free PMC Article
4.

Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains.

Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Göker M, Parker CT, Amann R, Beck BJ, Chain PS, Chun J, Colwell RR, Danchin A, Dawyndt P, Dedeurwaerdere T, DeLong EF, Detter JC, De Vos P, Donohue TJ, Dong XZ, Ehrlich DS, Fraser C, Gibbs R, Gilbert J, Gilna P, Glöckner FO, Jansson JK, Keasling JD, Knight R, Labeda D, Lapidus A, Lee JS, Li WJ, Ma J, Markowitz V, Moore ER, Morrison M, Meyer F, Nelson KE, Ohkuma M, Ouzounis CA, Pace N, Parkhill J, Qin N, Rossello-Mora R, Sikorski J, Smith D, Sogin M, Stevens R, Stingl U, Suzuki K, Taylor D, Tiedje JM, Tindall B, Wagner M, Weinstock G, Weissenbach J, White O, Wang J, Zhang L, Zhou YG, Field D, Whitman WB, Garrity GM, Klenk HP.

PLoS Biol. 2014 Aug 5;12(8):e1001920. doi: 10.1371/journal.pbio.1001920. eCollection 2014 Aug.

PMID:
25093819
[PubMed - in process]
Free PMC Article
5.

Streptococcus agalactiae clones infecting humans were selected and fixed through the extensive use of tetracycline.

Da Cunha V, Davies MR, Douarre PE, Rosinski-Chupin I, Margarit I, Spinali S, Perkins T, Lechat P, Dmytruk N, Sauvage E, Ma L, Romi B, Tichit M, Lopez-Sanchez MJ, Descorps-Declere S, Souche E, Buchrieser C, Trieu-Cuot P, Moszer I, Clermont D, Maione D, Bouchier C, McMillan DJ, Parkhill J, Telford JL, Dougan G, Walker MJ; DEVANI Consortium, Holden MT, Poyart C, Glaser P.

Nat Commun. 2014 Aug 4;5:4544. doi: 10.1038/ncomms5544.

PMID:
25088811
[PubMed - in process]
6.

Genome Evolution and Plasticity of Serratia marcescens, an Important Multidrug-Resistant Nosocomial Pathogen.

Iguchi A, Nagaya Y, Pradel E, Ooka T, Ogura Y, Katsura K, Kurokawa K, Oshima K, Hattori M, Parkhill J, Sebaihia M, Coulthurst SJ, Gotoh N, Thomson NR, Ewbank JJ, Hayashi T.

Genome Biol Evol. 2014 Aug;6(8):2096-110. doi: 10.1093/gbe/evu160.

PMID:
25070509
[PubMed - in process]
Free Article
7.

Whole-genome sequencing reveals clonal expansion of multiresistant Staphylococcus haemolyticus in European hospitals.

Cavanagh JP, Hjerde E, Holden MT, Kahlke T, Klingenberg C, Flægstad T, Parkhill J, Bentley SD, Sollid JU.

J Antimicrob Chemother. 2014 Jul 17. pii: dku271. [Epub ahead of print]

PMID:
25038069
[PubMed - as supplied by publisher]
Free Article
8.

Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition.

Pop M, Walker AW, Paulson J, Lindsay B, Antonio M, Hossain MA, Oundo J, Tamboura B, Mai V, Astrovskaya I, Corrada Bravo H, Rance R, Stares M, Levine MM, Panchalingam S, Kotloff K, Ikumapayi UN, Ebruke C, Adeyemi M, Ahmed D, Ahmed F, Alam MT, Amin R, Siddiqui S, Ochieng JB, Ouma E, Juma J, Mailu E, Omore R, Morris JG, Breiman RF, Saha D, Parkhill J, Nataro JP, Stine OC.

Genome Biol. 2014 Jun 27;15(6):R76. doi: 10.1186/gb-2014-15-6-r76.

PMID:
24995464
[PubMed - in process]
Free PMC Article
9.

Microevolution of Burkholderia pseudomallei during an Acute Infection.

Limmathurotsakul D, Holden MT, Coupland P, Price EP, Chantratita N, Wuthiekanun V, Amornchai P, Parkhill J, Peacock SJ.

J Clin Microbiol. 2014 Sep;52(9):3418-21. doi: 10.1128/JCM.01219-14. Epub 2014 Jun 25.

PMID:
24966357
[PubMed - in process]
Free Article
10.

Variable recombination dynamics during the emergence, transmission and 'disarming' of a multidrug-resistant pneumococcal clone.

Croucher NJ, Hanage WP, Harris SR, McGee L, van der Linden M, de Lencastre H, Sá-Leão R, Song JH, Ko KS, Beall B, Klugman KP, Parkhill J, Tomasz A, Kristinsson KG, Bentley SD.

BMC Biol. 2014 Jun 23;12:49. doi: 10.1186/1741-7007-12-49.

PMID:
24957517
[PubMed - in process]
Free PMC Article
11.

Time between collection and storage significantly influences bacterial sequence composition in sputum samples from cystic fibrosis respiratory infections.

Cuthbertson L, Rogers GB, Walker AW, Oliver A, Hafiz T, Hoffman LR, Carroll MP, Parkhill J, Bruce KD, van der Gast CJ.

J Clin Microbiol. 2014 Aug;52(8):3011-6. doi: 10.1128/JCM.00764-14. Epub 2014 Jun 11.

PMID:
24920767
[PubMed - in process]
Free PMC Article
12.

Evidence for soft selective sweeps in the evolution of pneumococcal multidrug resistance and vaccine escape.

Croucher NJ, Chewapreecha C, Hanage WP, Harris SR, McGee L, van der Linden M, Song JH, Ko KS, de Lencastre H, Turner C, Yang F, Sá-Leão R, Beall B, Klugman KP, Parkhill J, Turner P, Bentley SD.

Genome Biol Evol. 2014 Jun 10;6(7):1589-602. doi: 10.1093/gbe/evu120.

PMID:
24916661
[PubMed - in process]
Free PMC Article
13.

A shared population of epidemic methicillin-resistant Staphylococcus aureus 15 circulates in humans and companion animals.

Harrison EM, Weinert LA, Holden MT, Welch JJ, Wilson K, Morgan FJ, Harris SR, Loeffler A, Boag AK, Peacock SJ, Paterson GK, Waller AS, Parkhill J, Holmes MA.

MBio. 2014 May 13;5(3):e00985-13. doi: 10.1128/mBio.00985-13.

PMID:
24825010
[PubMed - in process]
Free PMC Article
14.

Zero tolerance for healthcare-associated MRSA bacteraemia: is it realistic?

Török ME, Harris SR, Cartwright EJ, Raven KE, Brown NM, Allison ME, Greaves D, Quail MA, Limmathurotsakul D, Holden MT, Parkhill J, Peacock SJ.

J Antimicrob Chemother. 2014 Aug;69(8):2238-45. doi: 10.1093/jac/dku128. Epub 2014 Apr 30.

PMID:
24788657
[PubMed - in process]
Free PMC Article
15.

Global population structure and evolution of Bordetella pertussis and their relationship with vaccination.

Bart MJ, Harris SR, Advani A, Arakawa Y, Bottero D, Bouchez V, Cassiday PK, Chiang CS, Dalby T, Fry NK, Gaillard ME, van Gent M, Guiso N, Hallander HO, Harvill ET, He Q, van der Heide HG, Heuvelman K, Hozbor DF, Kamachi K, Karataev GI, Lan R, Lutyłska A, Maharjan RP, Mertsola J, Miyamura T, Octavia S, Preston A, Quail MA, Sintchenko V, Stefanelli P, Tondella ML, Tsang RS, Xu Y, Yao SM, Zhang S, Parkhill J, Mooi FR.

MBio. 2014 Apr 22;5(2):e01074. doi: 10.1128/mBio.01074-14.

PMID:
24757216
[PubMed - in process]
Free PMC Article
16.

Molecular tracing of the emergence, diversification, and transmission of S. aureus sequence type 8 in a New York community.

Uhlemann AC, Dordel J, Knox JR, Raven KE, Parkhill J, Holden MT, Peacock SJ, Lowy FD.

Proc Natl Acad Sci U S A. 2014 May 6;111(18):6738-43. doi: 10.1073/pnas.1401006111. Epub 2014 Apr 21.

PMID:
24753569
[PubMed - indexed for MEDLINE]
17.

Parallel independent evolution of pathogenicity within the genus Yersinia.

Reuter S, Connor TR, Barquist L, Walker D, Feltwell T, Harris SR, Fookes M, Hall ME, Petty NK, Fuchs TM, Corander J, Dufour M, Ringwood T, Savin C, Bouchier C, Martin L, Miettinen M, Shubin M, Riehm JM, Laukkanen-Ninios R, Sihvonen LM, Siitonen A, Skurnik M, Falcão JP, Fukushima H, Scholz HC, Prentice MB, Wren BW, Parkhill J, Carniel E, Achtman M, McNally A, Thomson NR.

Proc Natl Acad Sci U S A. 2014 May 6;111(18):6768-73. doi: 10.1073/pnas.1317161111. Epub 2014 Apr 21.

PMID:
24753568
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Comment on: characterization of the embB gene in Mycobacterium tuberculosis isolates from Barcelona and rapid detection of main mutations related to ethambutol resistance using a low-density DNA array.

Köser CU, Bryant JM, Comas I, Feuerriegel S, Niemann S, Gagneux S, Parkhill J, Peacock SJ.

J Antimicrob Chemother. 2014 Aug;69(8):2298-9. doi: 10.1093/jac/dku101. Epub 2014 Apr 20. No abstract available.

PMID:
24752956
[PubMed - in process]
Free PMC Article
19.

Novel determinants of antibiotic resistance: identification of mutated loci in highly methicillin-resistant subpopulations of methicillin-resistant Staphylococcus aureus.

Dordel J, Kim C, Chung M, Pardos de la Gándara M, Holden MT, Parkhill J, de Lencastre H, Bentley SD, Tomasz A.

MBio. 2014 Apr 8;5(2):e01000. doi: 10.1128/mBio.01000-13.

PMID:
24713324
[PubMed - in process]
Free PMC Article
20.

Cryptic ecology among host generalist Campylobacter jejuni in domestic animals.

Sheppard SK, Cheng L, Méric G, de Haan CP, Llarena AK, Marttinen P, Vidal A, Ridley A, Clifton-Hadley F, Connor TR, Strachan NJ, Forbes K, Colles FM, Jolley KA, Bentley SD, Maiden MC, Hänninen ML, Parkhill J, Hanage WP, Corander J.

Mol Ecol. 2014 May;23(10):2442-51. doi: 10.1111/mec.12742. Epub 2014 Apr 25.

PMID:
24689900
[PubMed - indexed for MEDLINE]

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