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Items: 1 to 50 of 600

1.

Staphylococcus pseudoxylosus sp. nov., isolated from bovine mastitis.

MacFadyen AC, Leroy S, Harrison EM, Parkhill J, Holmes MA, Paterson GK.

Int J Syst Evol Microbiol. 2019 Jun 21. doi: 10.1099/ijsem.0.003416. [Epub ahead of print]

PMID:
31225789
2.

Complete Whole-Genome Sequence of Haemophilus haemolyticus NCTC 10839.

Fazal MA, Alexander S, Grayson NE, Deheer-Graham A, Oliver K, Holroyd N, Parkhill J, Russell JE.

Microbiol Resour Announc. 2019 Jun 20;8(25). pii: e00232-19. doi: 10.1128/MRA.00232-19.

3.

Multi-Compartment Profiling of Bacterial and Host Metabolites Identifies Intestinal Dysbiosis and Its Functional Consequences in the Critically Ill Child.

Wijeyesekera A, Wagner J, De Goffau M, Thurston S, Rodrigues Sabino A, Zaher S, White D, Ridout J, Peters MJ, Ramnarayan P, Branco RG, Torok ME, Valla F, Meyer R, Klein N, Frost G, Parkhill J, Holmes E, Pathan N.

Crit Care Med. 2019 Jun 4. doi: 10.1097/CCM.0000000000003841. [Epub ahead of print]

PMID:
31169619
4.

Atlas of group A streptococcal vaccine candidates compiled using large-scale comparative genomics.

Davies MR, McIntyre L, Mutreja A, Lacey JA, Lees JA, Towers RJ, Duchêne S, Smeesters PR, Frost HR, Price DJ, Holden MTG, David S, Giffard PM, Worthing KA, Seale AC, Berkley JA, Harris SR, Rivera-Hernandez T, Berking O, Cork AJ, Torres RSLA, Lithgow T, Strugnell RA, Bergmann R, Nitsche-Schmitz P, Chhatwal GS, Bentley SD, Fraser JD, Moreland NJ, Carapetis JR, Steer AC, Parkhill J, Saul A, Williamson DA, Currie BJ, Tong SYC, Dougan G, Walker MJ.

Nat Genet. 2019 Jun;51(6):1035-1043. doi: 10.1038/s41588-019-0417-8. Epub 2019 May 27.

PMID:
31133745
5.

Genomic surveillance of Escherichia coli in municipal wastewater treatment plants as an indicator of clinically relevant pathogens and their resistance genes.

Raven KE, Ludden C, Gouliouris T, Blane B, Naydenova P, Brown NM, Parkhill J, Peacock SJ.

Microb Genom. 2019 May;5(5). doi: 10.1099/mgen.0.000267. Epub 2019 May 20.

6.

Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis.

Lees JA, Ferwerda B, Kremer PHC, Wheeler NE, Serón MV, Croucher NJ, Gladstone RA, Bootsma HJ, Rots NY, Wijmega-Monsuur AJ, Sanders EAM, Trzciński K, Wyllie AL, Zwinderman AH, van den Berg LH, van Rheenen W, Veldink JH, Harboe ZB, Lundbo LF, de Groot LCPGM, van Schoor NM, van der Velde N, Ängquist LH, Sørensen TIA, Nohr EA, Mentzer AJ, Mills TC, Knight JC, du Plessis M, Nzenze S, Weiser JN, Parkhill J, Madhi S, Benfield T, von Gottberg A, van der Ende A, Brouwer MC, Barrett JC, Bentley SD, van de Beek D.

Nat Commun. 2019 May 15;10(1):2176. doi: 10.1038/s41467-019-09976-3.

7.

Complete Assembly of Escherichia coli Sequence Type 131 Genomes Using Long Reads Demonstrates Antibiotic Resistance Gene Variation within Diverse Plasmid and Chromosomal Contexts.

Decano AG, Ludden C, Feltwell T, Judge K, Parkhill J, Downing T.

mSphere. 2019 May 8;4(3). pii: e00130-19. doi: 10.1128/mSphere.00130-19.

8.

Rapid sequencing of MRSA direct from clinical plates in a routine microbiology laboratory.

Blane B, Raven KE, Leek D, Brown N, Parkhill J, Peacock SJ.

J Antimicrob Chemother. 2019 Apr 30. pii: dkz170. doi: 10.1093/jac/dkz170. [Epub ahead of print]

PMID:
31039248
9.

Diversification of Colonization Factors in a Multidrug-Resistant Escherichia coli Lineage Evolving under Negative Frequency-Dependent Selection.

McNally A, Kallonen T, Connor C, Abudahab K, Aanensen DM, Horner C, Peacock SJ, Parkhill J, Croucher NJ, Corander J.

MBio. 2019 Apr 23;10(2). pii: e00644-19. doi: 10.1128/mBio.00644-19.

10.

Detection of vancomycin-resistant Enterococcus faecium hospital-adapted lineages in municipal wastewater treatment plants indicates widespread distribution and release into the environment.

Gouliouris T, Raven KE, Moradigaravand D, Ludden C, Coll F, Blane B, Naydenova P, Horner C, Brown NM, Corander J, Limmathurotsakul D, Parkhill J, Peacock SJ.

Genome Res. 2019 Apr;29(4):626-634. doi: 10.1101/gr.232629.117. Epub 2019 Mar 21.

11.

Methodology for Whole-Genome Sequencing of Methicillin-Resistant Staphylococcus aureus Isolates in a Routine Hospital Microbiology Laboratory.

Raven KE, Blane B, Leek D, Churcher C, Kokko-Gonzales P, Pugazhendhi D, Fraser L, Betley J, Parkhill J, Peacock SJ.

J Clin Microbiol. 2019 May 24;57(6). pii: e00180-19. doi: 10.1128/JCM.00180-19. Print 2019 Jun.

12.

A One Health study of the genetic relatedness of Klebsiella pneumoniae and their mobile elements in the East of England.

Ludden C, Moradigaravand D, Jamrozy D, Gouliouris T, Blane B, Naydenova P, Hernandez-Garcia J, Wood P, Hadjirin N, Radakovic M, Crawley C, Brown NM, Holmes M, Parkhill J, Peacock SJ.

Clin Infect Dis. 2019 Mar 7. pii: ciz174. doi: 10.1093/cid/ciz174. [Epub ahead of print]

PMID:
30840764
13.

Genome mining identifies cepacin as a plant-protective metabolite of the biopesticidal bacterium Burkholderia ambifaria.

Mullins AJ, Murray JAH, Bull MJ, Jenner M, Jones C, Webster G, Green AE, Neill DR, Connor TR, Parkhill J, Challis GL, Mahenthiralingam E.

Nat Microbiol. 2019 Jun;4(6):996-1005. doi: 10.1038/s41564-019-0383-z. Epub 2019 Mar 4.

PMID:
30833726
14.

Molecular epidemiology and whole genome sequencing analysis of clinical Mycobacterium bovis from Ghana.

Otchere ID, van Tonder AJ, Asante-Poku A, Sánchez-Busó L, Coscollá M, Osei-Wusu S, Asare P, Aboagye SY, Ekuban SA, Yahayah AI, Forson A, Baddoo A, Laryea C, Parkhill J, Harris SR, Gagneux S, Yeboah-Manu D.

PLoS One. 2019 Mar 4;14(3):e0209395. doi: 10.1371/journal.pone.0209395. eCollection 2019.

15.

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.

16.

'Candidatus Ornithobacterium hominis': insights gained from draft genomes obtained from nasopharyngeal swabs.

Salter SJ, Scott P, Page AJ, Tracey A, de Goffau MC, Cormie C, Ochoa-Montaño B, Ling CL, Tangmanakit J, Turner P, Parkhill J.

Microb Genom. 2019 Feb;5(2). doi: 10.1099/mgen.0.000247. Epub 2019 Feb 5.

17.

Prospective genomic surveillance of methicillin-resistant Staphylococcus aureus (MRSA) associated with bloodstream infection, England, 1 October 2012 to 30 September 2013.

Toleman MS, Reuter S, Jamrozy D, Wilson HJ, Blane B, Harrison EM, Coll F, Hope RJ, Kearns A, Parkhill J, Peacock SJ, Török ME.

Euro Surveill. 2019 Jan;24(4). doi: 10.2807/1560-7917.ES.2019.24.4.1800215.

18.

One Health Genomic Surveillance of Escherichia coli Demonstrates Distinct Lineages and Mobile Genetic Elements in Isolates from Humans versus Livestock.

Ludden C, Raven KE, Jamrozy D, Gouliouris T, Blane B, Coll F, de Goffau M, Naydenova P, Horner C, Hernandez-Garcia J, Wood P, Hadjirin N, Radakovic M, Brown NM, Holmes M, Parkhill J, Peacock SJ.

MBio. 2019 Jan 22;10(1). pii: e02693-18. doi: 10.1128/mBio.02693-18.

19.

Separating Bacteria by Capsule Amount Using a Discontinuous Density Gradient.

Feltwell T, Dorman MJ, Goulding DA, Parkhill J, Short FL.

J Vis Exp. 2019 Jan 7;(143). doi: 10.3791/58679.

PMID:
30663644
20.

Molecular epidemiology and expression of capsular polysaccharides in Staphylococcus aureus clinical isolates in the United States.

Mohamed N, Timofeyeva Y, Jamrozy D, Rojas E, Hao L, Silmon de Monerri NC, Hawkins J, Singh G, Cai B, Liberator P, Sebastian S, Donald RGK, Scully IL, Jones CH, Creech CB, Thomsen I, Parkhill J, Peacock SJ, Jansen KU, Holden MTG, Anderson AS.

PLoS One. 2019 Jan 14;14(1):e0208356. doi: 10.1371/journal.pone.0208356. eCollection 2019.

21.

Limited contribution of non-intensive chicken farming to ESBL-producing Escherichia coli colonization in humans in Vietnam: an epidemiological and genomic analysis.

Nguyen VT, Jamrozy D, Matamoros S, Carrique-Mas JJ, Ho HM, Thai QH, Nguyen TNM, Wagenaar JA, Thwaites G, Parkhill J, Schultsz C, Ngo TH.

J Antimicrob Chemother. 2019 Mar 1;74(3):561-570. doi: 10.1093/jac/dky506.

22.

On the border between localization and delocalization: tris(iminoxolene)titanium(iv).

Marshall-Roth T, Yao K, Parkhill JA, Brown SN.

Dalton Trans. 2019 Jan 22;48(4):1427-1435. doi: 10.1039/c8dt04528c.

PMID:
30628607
23.

A mecC allotype, mecC3, in the CoNS Staphylococcus caeli, encoded within a variant SCCmecC.

MacFadyen AC, Harrison EM, Drigo I, Parkhill J, Holmes MA, Paterson GK.

J Antimicrob Chemother. 2019 Mar 1;74(3):547-552. doi: 10.1093/jac/dky502.

PMID:
30590583
24.

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.

25.

The Capsule Regulatory Network of Klebsiella pneumoniae Defined by density-TraDISort.

Dorman MJ, Feltwell T, Goulding DA, Parkhill J, Short FL.

MBio. 2018 Nov 20;9(6). pii: e01863-18. doi: 10.1128/mBio.01863-18.

26.

Staphylococcus caeli sp. nov., isolated from air sampling in an industrial rabbit holding.

MacFadyen AC, Drigo I, Harrison EM, Parkhill J, Holmes MA, Paterson GK.

Int J Syst Evol Microbiol. 2019 Jan;69(1):82-86. doi: 10.1099/ijsem.0.003098. Epub 2018 Nov 14.

PMID:
30427304
27.

Whole Genome Sequencing for Determining the Source of Mycobacterium bovis Infections in Livestock Herds and Wildlife in New Zealand.

Price-Carter M, Brauning R, de Lisle GW, Livingstone P, Neill M, Sinclair J, Paterson B, Atkinson G, Knowles G, Crews K, Crispell J, Kao R, Robbe-Austerman S, Stuber T, Parkhill J, Wood J, Harris S, Collins DM.

Front Vet Sci. 2018 Oct 30;5:272. doi: 10.3389/fvets.2018.00272. eCollection 2018.

28.

Nasal carriage of Staphylococcus pseudintermedius in patients with granulomatosis with polyangiitis.

Kronbichler A, Blane B, Holmes MA, Wagner J, Parkhill J, Peacock SJ, Jayne DRW, Harrison EM.

Rheumatology (Oxford). 2019 Mar 1;58(3):548-550. doi: 10.1093/rheumatology/key317. No abstract available.

29.

Genomic Surveillance of Enterococcus faecium Reveals Limited Sharing of Strains and Resistance Genes between Livestock and Humans in the United Kingdom.

Gouliouris T, Raven KE, Ludden C, Blane B, Corander J, Horner CS, Hernandez-Garcia J, Wood P, Hadjirin NF, Radakovic M, Holmes MA, de Goffau M, Brown NM, Parkhill J, Peacock SJ.

MBio. 2018 Nov 6;9(6). pii: e01780-18. doi: 10.1128/mBio.01780-18.

30.

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.

31.

Correction to: Detecting eukaryotic microbiota with single-cell sensitivity in human tissue.

Lager S, de Goffau MC, Sovio U, Peacock SJ, Parkhill J, Stephen Charnock-Jones D, Smith GCS.

Microbiome. 2018 Oct 20;6(1):188. doi: 10.1186/s40168-018-0576-3.

32.

Mutations in the MAB_2299c TetR Regulator Confer Cross-Resistance to Clofazimine and Bedaquiline in Mycobacterium abscessus.

Richard M, Gutiérrez AV, Viljoen A, Rodriguez-Rincon D, Roquet-Baneres F, Blaise M, Everall I, Parkhill J, Floto RA, Kremer L.

Antimicrob Agents Chemother. 2018 Dec 21;63(1). pii: e01316-18. doi: 10.1128/AAC.01316-18. Print 2019 Jan.

33.

Spatial structuring of a Legionella pneumophila population within the water system of a large occupational building.

David S, Mentasti M, Lai S, Vaghji L, Ready D, Chalker VJ, Parkhill J.

Microb Genom. 2018 Oct;4(10). doi: 10.1099/mgen.0.000226. Epub 2018 Oct 12.

34.

Streptococcus suis contains multiple phase-variable methyltransferases that show a discrete lineage distribution.

Atack JM, Weinert LA, Tucker AW, Husna AU, Wileman TM, F Hadjirin N, Hoa NT, Parkhill J, Maskell DJ, Blackall PJ, Jennings MP.

Nucleic Acids Res. 2018 Nov 30;46(21):11466-11476. doi: 10.1093/nar/gky913.

35.

Impact of carbohydrate substrate complexity on the diversity of the human colonic microbiota.

Chung WSF, Walker AW, Vermeiren J, Sheridan PO, Bosscher D, Garcia-Campayo V, Parkhill J, Flint HJ, Duncan SH.

FEMS Microbiol Ecol. 2019 Jan 1;95(1). doi: 10.1093/femsec/fiy201.

PMID:
30304332
36.

Comparative genomics of Czech vaccine strains of Bordetella pertussis.

Dienstbier A, Pouchnik D, Wildung M, Amman F, Hofacker IL, Parkhill J, Holubova J, Sebo P, Vecerek B.

Pathog Dis. 2018 Oct 1;76(7). doi: 10.1093/femspd/fty071.

PMID:
30184175
37.

New Variant of Multidrug-Resistant Salmonella enterica Serovar Typhimurium Associated with Invasive Disease in Immunocompromised Patients in Vietnam.

Mather AE, Phuong TLT, Gao Y, Clare S, Mukhopadhyay S, Goulding DA, Hoang NTD, Tuyen HT, Lan NPH, Thompson CN, Trang NHT, Carrique-Mas J, Tue NT, Campbell JI, Rabaa MA, Thanh DP, Harcourt K, Hoa NT, Trung NV, Schultsz C, Perron GG, Coia JE, Brown DJ, Okoro C, Parkhill J, Thomson NR, Chau NVV, Thwaites GE, Maskell DJ, Dougan G, Kenney LJ, Baker S.

MBio. 2018 Sep 4;9(5). pii: e01056-18. doi: 10.1128/mBio.01056-18.

38.

Detecting eukaryotic microbiota with single-cell sensitivity in human tissue.

Lager S, de Goffau MC, Sovio U, Peacock SJ, Parkhill J, Charnock-Jones DS, Smith GCS.

Microbiome. 2018 Sep 1;6(1):151. doi: 10.1186/s40168-018-0529-x. Erratum in: Microbiome. 2018 Oct 20;6(1):188.

39.

A highly conserved mecC-encoding SCCmec type XI in a bovine isolate of methicillin-resistant Staphylococcus xylosus.

MacFadyen AC, Harrison EM, Ellington MJ, Parkhill J, Holmes MA, Paterson GK.

J Antimicrob Chemother. 2018 Dec 1;73(12):3516-3518. doi: 10.1093/jac/dky333. No abstract available.

PMID:
30165441
40.

Arginine-deprivation-induced oxidative damage sterilizes Mycobacterium tuberculosis.

Tiwari S, van Tonder AJ, Vilchèze C, Mendes V, Thomas SE, Malek A, Chen B, Chen M, Kim J, Blundell TL, Parkhill J, Weinrick B, Berney M, Jacobs WR Jr.

Proc Natl Acad Sci U S A. 2018 Sep 25;115(39):9779-9784. doi: 10.1073/pnas.1808874115. Epub 2018 Aug 24.

41.

Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data.

Sobkowiak B, Glynn JR, Houben RMGJ, Mallard K, Phelan JE, Guerra-Assunção JA, Banda L, Mzembe T, Viveiros M, McNerney R, Parkhill J, Crampin AC, Clark TG.

BMC Genomics. 2018 Aug 14;19(1):613. doi: 10.1186/s12864-018-4988-z.

42.

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.

43.

Evidence for Host-Bacterial Co-evolution via Genome Sequence Analysis of 480 Thai Mycobacterium tuberculosis Lineage 1 Isolates.

Palittapongarnpim P, Ajawatanawong P, Viratyosin W, Smittipat N, Disratthakit A, Mahasirimongkol S, Yanai H, Yamada N, Nedsuwan S, Imasanguan W, Kantipong P, Chaiyasirinroje B, Wongyai J, Toyo-Oka L, Phelan J, Parkhill J, Clark TG, Hibberd ML, Ruengchai W, Palittapongarnpim P, Juthayothin T, Tongsima S, Tokunaga K.

Sci Rep. 2018 Aug 2;8(1):11597. doi: 10.1038/s41598-018-29986-3.

44.

Loss of Genomic Diversity in a Neisseria meningitidis Clone Through a Colonization Bottleneck.

Lamelas A, Hamid AM, Dangy JP, Hauser J, Jud M, Röltgen K, Hodgson A, Junghanss T, Harris SR, Parkhill J, Bentley SD, Pluschke G.

Genome Biol Evol. 2018 Aug 1;10(8):2102-2109. doi: 10.1093/gbe/evy152.

45.

Reply to Dookie et al., "Whole-Genome Sequencing To Guide the Selection of Treatment for Drug-Resistant Tuberculosis".

Köser CU, Heyckendorf J, Andres S, Olaru ID, Schön T, Sturegård E, Beckert P, Schleusener V, Kohl TA, Hillemann D, Moradigaravand D, Parkhill J, Peacock SJ, Niemann S, Lange C, Merker M.

Antimicrob Agents Chemother. 2018 Jul 27;62(8). pii: e00616-18. doi: 10.1128/AAC.00616-18. Print 2018 Aug. No abstract available.

46.

Changing the paradigm for hospital outbreak detection by leading with genomic surveillance of nosocomial pathogens.

Peacock SJ, Parkhill J, Brown NM.

Microbiology. 2018 Oct;164(10):1213-1219. doi: 10.1099/mic.0.000700. Epub 2018 Jul 27.

47.

Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests distinct ecological niches.

Otchere ID, Coscollá M, Sánchez-Busó L, Asante-Poku A, Brites D, Loiseau C, Meehan C, Osei-Wusu S, Forson A, Laryea C, Yahayah AI, Baddoo A, Ansa GA, Aboagye SY, Asare P, Borrell S, Gehre F, Beckert P, Kohl TA, N'dira S, Beisel C, Antonio M, Niemann S, de Jong BC, Parkhill J, Harris SR, Gagneux S, Yeboah-Manu D.

Sci Rep. 2018 Jul 26;8(1):11269. doi: 10.1038/s41598-018-29620-2.

48.

Recognizing the reagent microbiome.

de Goffau MC, Lager S, Salter SJ, Wagner J, Kronbichler A, Charnock-Jones DS, Peacock SJ, Smith GCS, Parkhill J.

Nat Microbiol. 2018 Aug;3(8):851-853. doi: 10.1038/s41564-018-0202-y. No abstract available.

PMID:
30046175
49.

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.

50.

Global Scale Dissemination of ST93: A Divergent Staphylococcus aureus Epidemic Lineage That Has Recently Emerged From Remote Northern Australia.

van Hal SJ, Steinig EJ, Andersson P, Holden MTG, Harris SR, Nimmo GR, Williamson DA, Heffernan H, Ritchie SR, Kearns AM, Ellington MJ, Dickson E, de Lencastre H, Coombs GW, Bentley SD, Parkhill J, Holt DC, Giffard PM, Tong SYC.

Front Microbiol. 2018 Jul 9;9:1453. doi: 10.3389/fmicb.2018.01453. eCollection 2018.

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