| Title : Stepwise pathogenic evolution of Mycobacterium abscessus - Bryant_2021_Science_372_ |
| Author(s) : Bryant JM , Brown KP , Burbaud S , Everall I , Belardinelli JM , Rodriguez-Rincon D , Grogono DM , Peterson CM , Verma D , Evans IE , Ruis C , Weimann A , Arora D , Malhotra S , Bannerman B , Passemar C , Templeton K , MacGregor G , Jiwa K , Fisher AJ , Blundell TL , Ordway DJ , Jackson M , Parkhill J , Floto RA |
| Ref : Science , 372 : , 2021 |
| Abstract : |
| PubMedSearch : Bryant_2021_Science_372_ |
| PubMedID: 33926925 |
| Title : Genome evolution and plasticity of Serratia marcescens, an important multidrug-resistant nosocomial pathogen - Iguchi_2014_Genome.Biol.Evol_6_2096 |
| Author(s) : 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 |
| Ref : Genome Biol Evol , 6 :2096 , 2014 |
| Abstract : |
| PubMedSearch : Iguchi_2014_Genome.Biol.Evol_6_2096 |
| PubMedID: 25070509 |
| Gene_locus related to this paper: serma-a0a031rry9 , serma-a0a0a5sc46 |
| Title : Parallel independent evolution of pathogenicity within the genus Yersinia - Reuter_2014_Proc.Natl.Acad.Sci.U.S.A_111_6768 |
| Author(s) : 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 , Falcao JP , Fukushima H , Scholz HC , Prentice MB , Wren BW , Parkhill J , Carniel E , Achtman M , McNally A , Thomson NR |
| Ref : Proc Natl Acad Sci U S A , 111 :6768 , 2014 |
| Abstract : |
| PubMedSearch : Reuter_2014_Proc.Natl.Acad.Sci.U.S.A_111_6768 |
| PubMedID: 24753568 |
| Gene_locus related to this paper: yeren-k1bwy7 |
| Title : Description and nomenclature of Neisseria meningitidis capsule locus - Harrison_2013_Emerg.Infect.Dis_19_566 |
| Author(s) : Harrison OB , Claus H , Jiang Y , Bennett JS , Bratcher HB , Jolley KA , Corton C , Care R , Poolman JT , Zollinger WD , Frasch CE , Stephens DS , Feavers I , Frosch M , Parkhill J , Vogel U , Quail MA , Bentley SD , Maiden MC |
| Ref : Emerg Infect Dis , 19 :566 , 2013 |
| Abstract : |
| PubMedSearch : Harrison_2013_Emerg.Infect.Dis_19_566 |
| PubMedID: 23628376 |
| Gene_locus related to this paper: neime-h6t5x5 |
| Title : A genomic portrait of the emergence, evolution, and global spread of a methicillin-resistant Staphylococcus aureus pandemic - Holden_2013_Genome.Res_23_653 |
| Author(s) : Holden MT , Hsu LY , Kurt K , Weinert LA , Mather AE , Harris SR , Strommenger B , Layer F , Witte W , de Lencastre H , Skov R , Westh H , Zemlickova H , Coombs G , Kearns AM , Hill RL , Edgeworth J , Gould I , Gant V , Cooke J , Edwards GF , McAdam PR , Templeton KE , McCann A , Zhou Z , Castillo-Ramirez S , Feil EJ , Hudson LO , Enright MC , Balloux F , Aanensen DM , Spratt BG , Fitzgerald JR , Parkhill J , Achtman M , Bentley SD , Nubel U |
| Ref : Genome Res , 23 :653 , 2013 |
| Abstract : |
| PubMedSearch : Holden_2013_Genome.Res_23_653 |
| PubMedID: 23299977 |
| Gene_locus related to this paper: staau-SA2240 |
| Title : Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis - Supply_2013_Nat.Genet_45_172 |
| Author(s) : Supply P , Marceau M , Mangenot S , Roche D , Rouanet C , Khanna V , Majlessi L , Criscuolo A , Tap J , Pawlik A , Fiette L , Orgeur M , Fabre M , Parmentier C , Frigui W , Simeone R , Boritsch EC , Debrie AS , Willery E , Walker D , Quail MA , Ma L , Bouchier C , Salvignol G , Sayes F , Cascioferro A , Seemann T , Barbe V , Locht C , Gutierrez MC , Leclerc C , Bentley SD , Stinear TP , Brisse S , Medigue C , Parkhill J , Cruveiller S , Brosch R |
| Ref : Nat Genet , 45 :172 , 2013 |
| Abstract : |
| PubMedSearch : Supply_2013_Nat.Genet_45_172 |
| PubMedID: 23291586 |
| Gene_locus related to this paper: mycmm-b2ht49 , myctu-cut3 , myctu-cutas1 , myctu-cutas2 , myctu-Rv1069c , myctu-RV1215C , myctu-RV1758 , myctu-Rv2045c , myctu-RV3452 , myctu-RV3724 , myctu-Rv3802c |
| Title : Distinguishable epidemics of multidrug-resistant Salmonella Typhimurium DT104 in different hosts - Mather_2013_Science_341_1514 |
| Author(s) : Mather AE , Reid SW , Maskell DJ , Parkhill J , Fookes MC , Harris SR , Brown DJ , Coia JE , Mulvey MR , Gilmour MW , Petrovska L , de Pinna E , Kuroda M , Akiba M , Izumiya H , Connor TR , Suchard MA , Lemey P , Mellor DJ , Haydon DT , Thomson NR |
| Ref : Science , 341 :1514 , 2013 |
| Abstract : |
| PubMedSearch : Mather_2013_Science_341_1514 |
| PubMedID: 24030491 |
| Title : A small predatory core genome in the divergent marine Bacteriovorax marinus SJ and the terrestrial Bdellovibrio bacteriovorus - Crossman_2013_ISME.J_7_148 |
| Author(s) : Crossman LC , Chen H , Cerdeno-Tarraga AM , Brooks K , Quail MA , Pineiro SA , Hobley L , Sockett RE , Bentley SD , Parkhill J , Williams HN , Stine OC |
| Ref : Isme J , 7 :148 , 2013 |
| Abstract : |
| PubMedSearch : Crossman_2013_ISME.J_7_148 |
| PubMedID: 22955231 |
| Gene_locus related to this paper: bacms-e1x4r0 , bacms-e1wxp3 |
| Title : Comparative genomics of Brachyspira pilosicoli strains: genome rearrangements, reductions and correlation of genetic compliment with phenotypic diversity - Mappley_2012_BMC.Genomics_13_454 |
| Author(s) : Mappley LJ , Black ML , AbuOun M , Darby AC , Woodward MJ , Parkhill J , Turner AK , Bellgard MI , La T , Phillips ND , La Ragione RM , Hampson DJ |
| Ref : BMC Genomics , 13 :454 , 2012 |
| Abstract : |
| PubMedSearch : Mappley_2012_BMC.Genomics_13_454 |
| PubMedID: 22947175 |
| Gene_locus related to this paper: brap9-d8ife9 |
| Title : The genome of Mycobacterium africanum West African 2 reveals a lineage-specific locus and genome erosion common to the M. tuberculosis complex - Bentley_2012_PLoS.Negl.Trop.Dis_6_e1552 |
| Author(s) : Bentley SD , Comas I , Bryant JM , Walker D , Smith NH , Harris SR , Thurston S , Gagneux S , Wood J , Antonio M , Quail MA , Gehre F , Adegbola RA , Parkhill J , de Jong BC |
| Ref : PLoS Negl Trop Dis , 6 :e1552 , 2012 |
| Abstract : |
| PubMedSearch : Bentley_2012_PLoS.Negl.Trop.Dis_6_e1552 |
| PubMedID: 22389744 |
| Gene_locus related to this paper: myctu-cut3 , myctu-cutas1 , myctu-cutas2 , myctu-Rv1069c , myctu-RV1215C , myctu-RV1758 , myctu-RV3452 , myctu-RV3724 , myctu-Rv3802c |
| Title : Lineage-specific virulence determinants of Haemophilus influenzae biogroup aegyptius - Strouts_2012_Emerg.Infect.Dis_18_449 |
| Author(s) : Strouts FR , Power P , Croucher NJ , Corton N , Van Tonder A , Quail MA , Langford PR , Hudson MJ , Parkhill J , Kroll JS , Bentley SD |
| Ref : Emerg Infect Dis , 18 :449 , 2012 |
| Abstract : |
| PubMedSearch : Strouts_2012_Emerg.Infect.Dis_18_449 |
| PubMedID: 22377449 |
| Gene_locus related to this paper: haein-pldb , neime-ESD |
| Title : Comparative genomics of the classical Bordetella subspecies: the evolution and exchange of virulence-associated diversity amongst closely related pathogens - Park_2012_BMC.Genomics_13_545 |
| Author(s) : Park J , Zhang Y , Buboltz AM , Zhang X , Schuster SC , Ahuja U , Liu M , Miller JF , Sebaihia M , Bentley SD , Parkhill J , Harvill ET |
| Ref : BMC Genomics , 13 :545 , 2012 |
| Abstract : |
| PubMedSearch : Park_2012_BMC.Genomics_13_545 |
| PubMedID: 23051057 |
| Gene_locus related to this paper: borbr-BB0273 |
| Title : Meticillin-resistant Staphylococcus aureus with a novel mecA homologue in human and bovine populations in the UK and Denmark: a descriptive study - Garcia-Alvarez_2011_Lancet.Infect.Dis_11_595 |
| Author(s) : Garcia-Alvarez L , Holden MT , Lindsay H , Webb CR , Brown DF , Curran MD , Walpole E , Brooks K , Pickard DJ , Teale C , Parkhill J , Bentley SD , Edwards GF , Girvan EK , Kearns AM , Pichon B , Hill RL , Larsen AR , Skov RL , Peacock SJ , Maskell DJ , Holmes MA |
| Ref : Lancet Infect Dis , 11 :595 , 2011 |
| Abstract : |
| PubMedSearch : Garcia-Alvarez_2011_Lancet.Infect.Dis_11_595 |
| PubMedID: 21641281 |
| Gene_locus related to this paper: staau-SA0897 , staau-SA2240 |
| Title : Genome sequence of Staphylococcus lugdunensis N920143 allows identification of putative colonization and virulence factors - Heilbronner_2011_FEMS.Microbiol.Lett_322_60 |
| Author(s) : Heilbronner S , Holden MT , Van Tonder A , Geoghegan JA , Foster TJ , Parkhill J , Bentley SD |
| Ref : FEMS Microbiology Letters , 322 :60 , 2011 |
| Abstract : |
| PubMedSearch : Heilbronner_2011_FEMS.Microbiol.Lett_322_60 |
| PubMedID: 21682763 |
| Gene_locus related to this paper: stalh-d3qdw5 , stalh-d3qhh5 , stalu-q0kkp0 |
| Title : A very early-branching Staphylococcus aureus lineage lacking the carotenoid pigment staphyloxanthin - Holt_2011_Genome.Biol.Evol_3_881 |
| Author(s) : Holt DC , Holden MT , Tong SY , Castillo-Ramirez S , Clarke L , Quail MA , Currie BJ , Parkhill J , Bentley SD , Feil EJ , Giffard PM |
| Ref : Genome Biol Evol , 3 :881 , 2011 |
| Abstract : |
| PubMedSearch : Holt_2011_Genome.Biol.Evol_3_881 |
| PubMedID: 21813488 |
| Gene_locus related to this paper: staau-SA0897 , staau-SA2240 |
| Title : Salmonella bongori provides insights into the evolution of the Salmonellae - Fookes_2011_PLoS.Pathog_7_e1002191 |
| Author(s) : Fookes M , Schroeder GN , Langridge GC , Blondel CJ , Mammina C , Connor TR , Seth-Smith H , Vernikos GS , Robinson KS , Sanders M , Petty NK , Kingsley RA , Baumler AJ , Nuccio SP , Contreras I , Santiviago CA , Maskell D , Barrow P , Humphrey T , Nastasi A , Roberts M , Frankel G , Parkhill J , Dougan G , Thomson NR |
| Ref : PLoS Pathog , 7 :e1002191 , 2011 |
| Abstract : |
| PubMedSearch : Fookes_2011_PLoS.Pathog_7_e1002191 |
| PubMedID: 21876672 |
| Gene_locus related to this paper: salbc-f8vhq9 |
| Title : A commensal gone bad: complete genome sequence of the prototypical enterotoxigenic Escherichia coli strain H10407 - Crossman_2010_J.Bacteriol_192_5822 |
| Author(s) : Crossman LC , Chaudhuri RR , Beatson SA , Wells TJ , Desvaux M , Cunningham AF , Petty NK , Mahon V , Brinkley C , Hobman JL , Savarino SJ , Turner SM , Pallen MJ , Penn CW , Parkhill J , Turner AK , Johnson TJ , Thomson NR , Smith SG , Henderson IR |
| Ref : Journal of Bacteriology , 192 :5822 , 2010 |
| Abstract : |
| PubMedSearch : Crossman_2010_J.Bacteriol_192_5822 |
| PubMedID: 20802035 |
| Gene_locus related to this paper: ecoli-rutD , ecoli-bioh , ecoli-entf , ecoli-fes , ecoli-mhpc , ecoli-yafa , ecoli-yaim , ecoli-ybff , ecoli-ycfp , ecoli-yeiG , ecoli-YFBB , ecoli-yiel , ecoli-yqia |
| Title : Comparative genomics and proteomics of Helicobacter mustelae, an ulcerogenic and carcinogenic gastric pathogen - O'Toole_2010_BMC.Genomics_11_164 |
| Author(s) : O'Toole PW , Snelling WJ , Canchaya C , Forde BM , Hardie KR , Josenhans C , Graham R , McMullan G , Parkhill J , Belda E , Bentley SD |
| Ref : BMC Genomics , 11 :164 , 2010 |
| Abstract : |
| PubMedSearch : O'Toole_2010_BMC.Genomics_11_164 |
| PubMedID: 20219135 |
| Gene_locus related to this paper: helm1-d3uha6 , helm1-d3uix4 |
| Title : Comparative genomics of prevaccination and modern Bordetella pertussis strains - Bart_2010_BMC.Genomics_11_627 |
| Author(s) : Bart MJ , van Gent M , van der Heide HG , Boekhorst J , Hermans P , Parkhill J , Mooi FR |
| Ref : BMC Genomics , 11 :627 , 2010 |
| Abstract : |
| PubMedSearch : Bart_2010_BMC.Genomics_11_627 |
| PubMedID: 21070624 |
| Title : Genome sequence of a recently emerged, highly transmissible, multi-antibiotic- and antiseptic-resistant variant of methicillin-resistant Staphylococcus aureus, sequence type 239 (TW) - Holden_2010_J.Bacteriol_192_888 |
| Author(s) : Holden MT , Lindsay JA , Corton C , Quail MA , Cockfield JD , Pathak S , Batra R , Parkhill J , Bentley SD , Edgeworth JD |
| Ref : Journal of Bacteriology , 192 :888 , 2010 |
| Abstract : |
| PubMedSearch : Holden_2010_J.Bacteriol_192_888 |
| PubMedID: 19948800 |
| Gene_locus related to this paper: staau-LIP , staau-MW0741 , staau-MW2456 , staau-q6gfm6 , staau-SA0569 , staau-SA0572 , staau-SA0897 , staau-SA1143 , staau-SA2240 , staau-SA2306 , staau-SA2422 , staau-SAV0321 , staau-SAV0446 , staau-SAV0457 , staau-SAV0655 , staau-SAV1014 , staau-SAV1765 , staau-SAV1793 , staau-SAV2188 , staau-SAV2350 , staau-SAV2594 |
| Title : Independent evolution of the core and accessory gene sets in the genus Neisseria: insights gained from the genome of Neisseria lactamica isolate 020-06 - Bennett_2010_BMC.Genomics_11_652 |
| Author(s) : Bennett JS , Bentley SD , Vernikos GS , Quail MA , Cherevach I , White B , Parkhill J , Maiden MC |
| Ref : BMC Genomics , 11 :652 , 2010 |
| Abstract : |
| PubMedSearch : Bennett_2010_BMC.Genomics_11_652 |
| PubMedID: 21092259 |
| Gene_locus related to this paper: neigo-pip , neil0-e4zan3 , neima-metx , neime-NMB0276 , neime-NMB1877 |
| Title : The Citrobacter rodentium genome sequence reveals convergent evolution with human pathogenic Escherichia coli - Petty_2010_J.Bacteriol_192_525 |
| Author(s) : Petty NK , Bulgin R , Crepin VF , Cerdeno-Tarraga AM , Schroeder GN , Quail MA , Lennard N , Corton C , Barron A , Clark L , Toribio AL , Parkhill J , Dougan G , Frankel G , Thomson NR |
| Ref : Journal of Bacteriology , 192 :525 , 2010 |
| Abstract : |
| PubMedSearch : Petty_2010_J.Bacteriol_192_525 |
| PubMedID: 19897651 |
| Gene_locus related to this paper: citk8-bioh , citk8-y1948 , citri-d2th08 , citri-d2tjf8 , citri-d2tjy8 , citri-d2tk80 , citri-d2tmm5 , citri-d2tmq5 , citri-d2tri3 , citri-d2trm8 |
| Title : Complete genome sequence of the plant pathogen Erwinia amylovora strain ATCC 49946 - Sebaihia_2010_J.Bacteriol_192_2020 |
| Author(s) : Sebaihia M , Bocsanczy AM , Biehl BS , Quail MA , Perna NT , Glasner JD , DeClerck GA , Cartinhour S , Schneider DJ , Bentley SD , Parkhill J , Beer SV |
| Ref : Journal of Bacteriology , 192 :2020 , 2010 |
| Abstract : |
| PubMedSearch : Sebaihia_2010_J.Bacteriol_192_2020 |
| PubMedID: 20118253 |
| Gene_locus related to this paper: erwac-d4hwt0 , erwac-d4hxs4 , erwac-d4i2q5 , erwac-d4i3s4 , erwac-d4i259 , erwae-d4idw0 , erwpe-d0fwy1 , erwse-e3dex4 |
| Title : Complete genome sequence and comparative metabolic profiling of the prototypical enteroaggregative Escherichia coli strain 042 - Chaudhuri_2010_PLoS.One_5_e8801 |
| Author(s) : Chaudhuri RR , Sebaihia M , Hobman JL , Webber MA , Leyton DL , Goldberg MD , Cunningham AF , Scott-Tucker A , Ferguson PR , Thomas CM , Frankel G , Tang CM , Dudley EG , Roberts IS , Rasko DA , Pallen MJ , Parkhill J , Nataro JP , Thomson NR , Henderson IR |
| Ref : PLoS ONE , 5 :e8801 , 2010 |
| Abstract : |
| PubMedSearch : Chaudhuri_2010_PLoS.One_5_e8801 |
| PubMedID: 20098708 |
| Gene_locus related to this paper: ecoli-Aes , ecoli-rutD , ecoli-bioh , ecoli-C0410 , ecoli-C2429 , ecoli-dlhh , ecoli-entf , ecoli-fes , ecoli-MCMK , ecoli-mhpc , ecoli-pldb , ecoli-ptrb , ecoli-yafa , ecoli-yaim , ecoli-ybff , ecoli-ycfp , ecoli-ycjy , ecoli-yeiG , ecoli-YFBB , ecoli-yhet , ecoli-yjfp , ecoli-YNBC , ecoli-ypfh , ecoli-yqia , ecoli-Z0347 , ecoli-YfhR , yerpe-YBTT |
| Title : Complete genome sequence and comparative genome analysis of enteropathogenic Escherichia coli O127:H6 strain E2348\/69 - Iguchi_2009_J.Bacteriol_191_347 |
| Author(s) : Iguchi A , Thomson NR , Ogura Y , Saunders D , Ooka T , Henderson IR , Harris D , Asadulghani M , Kurokawa K , Dean P , Kenny B , Quail MA , Thurston S , Dougan G , Hayashi T , Parkhill J , Frankel G |
| Ref : Journal of Bacteriology , 191 :347 , 2009 |
| Abstract : |
| PubMedSearch : Iguchi_2009_J.Bacteriol_191_347 |
| PubMedID: 18952797 |
| Gene_locus related to this paper: ecoli-Aes , ecoli-rutD , ecoli-bioh , ecoli-C0410 , ecoli-C4836 , ecoli-dlhh , ecoli-entf , ecoli-fes , ecoli-pldb , ecoli-ptrb , ecoli-yafa , ecoli-yaim , ecoli-ybff , ecoli-ycfp , ecoli-ycjy , ecoli-yeiG , ecoli-YFBB , ecoli-yghX , ecoli-yhet , ecoli-yiel , ecoli-yjfp , ecoli-ypfh , ecoli-ypt1 , ecoli-yqia , ecoli-YfhR |
| Title : Role of conjugative elements in the evolution of the multidrug-resistant pandemic clone Streptococcus pneumoniaeSpain23F ST81 - Croucher_2009_J.Bacteriol_191_1480 |
| Author(s) : Croucher NJ , Walker D , Romero P , Lennard N , Paterson GK , Bason NC , Mitchell AM , Quail MA , Andrew PW , Parkhill J , Bentley SD , Mitchell TJ |
| Ref : Journal of Bacteriology , 191 :1480 , 2009 |
| Abstract : |
| PubMedSearch : Croucher_2009_J.Bacteriol_191_1480 |
| PubMedID: 19114491 |
| Gene_locus related to this paper: strpi-pepx , strpj-b8zns7 , strpn-AXE1 , strpn-b2dz20 , strpn-SP0614 , strpn-SP1343 |
| Title : Genomic evidence for the evolution of Streptococcus equi: host restriction, increased virulence, and genetic exchange with human pathogens - Holden_2009_PLoS.Pathog_5_e1000346 |
| Author(s) : Holden MT , Heather Z , Paillot R , Steward KF , Webb K , Ainslie F , Jourdan T , Bason NC , Holroyd NE , Mungall K , Quail MA , Sanders M , Simmonds M , Willey D , Brooks K , Aanensen DM , Spratt BG , Jolley KA , Maiden MC , Kehoe M , Chanter N , Bentley SD , Robinson C , Maskell DJ , Parkhill J , Waller AS |
| Ref : PLoS Pathog , 5 :e1000346 , 2009 |
| Abstract : |
| PubMedSearch : Holden_2009_PLoS.Pathog_5_e1000346 |
| PubMedID: 19325880 |
| Gene_locus related to this paper: stre4-c0mbg3 , stre4-pepx , strem-b4u0u4 , strem-b4u3j8 , strs7-pepx |
| Title : Pseudogene accumulation in the evolutionary histories of Salmonella enterica serovars Paratyphi A and Typhi - Holt_2009_BMC.Genomics_10_36 |
| Author(s) : Holt KE , Thomson NR , Wain J , Langridge GC , Hasan R , Bhutta ZA , Quail MA , Norbertczak H , Walker D , Simmonds M , White B , Bason N , Mungall K , Dougan G , Parkhill J |
| Ref : BMC Genomics , 10 :36 , 2009 |
| Abstract : |
| PubMedSearch : Holt_2009_BMC.Genomics_10_36 |
| PubMedID: 19159446 |
| Title : Co-evolution of genomes and plasmids within Chlamydia trachomatis and the emergence in Sweden of a new variant strain - Seth-Smith_2009_BMC.Genomics_10_239 |
| Author(s) : Seth-Smith HM , Harris SR , Persson K , Marsh P , Barron A , Bignell A , Bjartling C , Clark L , Cutcliffe LT , Lambden PR , Lennard N , Lockey SJ , Quail MA , Salim O , Skilton RJ , Wang Y , Holland MJ , Parkhill J , Thomson NR , Clarke IN |
| Ref : BMC Genomics , 10 :239 , 2009 |
| Abstract : |
| PubMedSearch : Seth-Smith_2009_BMC.Genomics_10_239 |
| PubMedID: 19460133 |
| Gene_locus related to this paper: chltr-CT073 , chltr-CT136 |
| Title : Comparative genomics of the emerging human pathogen Photorhabdus asymbiotica with the insect pathogen Photorhabdus luminescens - Wilkinson_2009_BMC.Genomics_10_302 |
| Author(s) : Wilkinson P , Waterfield NR , Crossman L , Corton C , Sanchez-Contreras M , Vlisidou I , Barron A , Bignell A , Clark L , Ormond D , Mayho M , Bason N , Smith F , Simmonds M , Churcher C , Harris D , Thompson NR , Quail M , Parkhill J , ffrench-Constant RH |
| Ref : BMC Genomics , 10 :302 , 2009 |
| Abstract : |
| PubMedSearch : Wilkinson_2009_BMC.Genomics_10_302 |
| PubMedID: 19583835 |
| Gene_locus related to this paper: phoaa-b6vks1 , phoaa-b6vmd3 , phoaa-c7bgr2 , phoaa-c7bhw5 , phoaa-c7bjq6 , phoaa-c7bk59 , phoaa-c7bnd9 , pholu-lxd2 , pholu-PLU2437 , phoaa-c7bh14 , phoaa-c7bkb9 |
| Title : Epidemic multiple drug resistant Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype - Kingsley_2009_Genome.Res_19_2279 |
| Author(s) : Kingsley RA , Msefula CL , Thomson NR , Kariuki S , Holt KE , Gordon MA , Harris D , Clarke L , Whitehead S , Sangal V , Marsh K , Achtman M , Molyneux ME , Cormican M , Parkhill J , MacLennan CA , Heyderman RS , Dougan G |
| Ref : Genome Res , 19 :2279 , 2009 |
| Abstract : |
| PubMedSearch : Kingsley_2009_Genome.Res_19_2279 |
| PubMedID: 19901036 |
| Gene_locus related to this paper: salen-OPDB , salti-q8z717 , salty-AES , salty-BIOH , salty-DLHH , salty-ENTF , salty-FES , salty-IROD , salty-IROE , salty-P74847 , salty-PLDB , salty-STM0332 , salty-STM4506 , salty-STY1441 , salty-STY2428 , salty-STY3846 , salty-yafa , salty-YBFF , salty-ycfp , salty-YFBB , salty-YHET , salty-YQIA |
| Title : Rapid evolution of virulence and drug resistance in the emerging zoonotic pathogen Streptococcus suis - Holden_2009_PLoS.One_4_e6072 |
| Author(s) : Holden MT , Hauser H , Sanders M , Ngo TH , Cherevach I , Cronin A , Goodhead I , Mungall K , Quail MA , Price C , Rabbinowitsch E , Sharp S , Croucher NJ , Chieu TB , Mai NT , Diep TS , Chinh NT , Kehoe M , Leigh JA , Ward PN , Dowson CG , Whatmore AM , Chanter N , Iversen P , Gottschalk M , Slater JD , Smith HE , Spratt BG , Xu J , Ye C , Bentley S , Barrell BG , Schultsz C , Maskell DJ , Parkhill J |
| Ref : PLoS ONE , 4 :e6072 , 2009 |
| Abstract : |
| PubMedSearch : Holden_2009_PLoS.One_4_e6072 |
| PubMedID: 19603075 |
| Gene_locus related to this paper: strsu-q302y4 , strsy-a4vus4 , strsy-a4vwf6 |
| Title : The genome of Burkholderia cenocepacia J2315, an epidemic pathogen of cystic fibrosis patients - Holden_2009_J.Bacteriol_191_261 |
| Author(s) : Holden MT , Seth-Smith HM , Crossman LC , Sebaihia M , Bentley SD , Cerdeno-Tarraga AM , Thomson NR , Bason N , Quail MA , Sharp S , Cherevach I , Churcher C , Goodhead I , Hauser H , Holroyd N , Mungall K , Scott P , Walker D , White B , Rose H , Iversen P , Mil-Homens D , Rocha EP , Fialho AM , Baldwin A , Dowson C , Barrell BG , Govan JR , Vandamme P , Hart CA , Mahenthiralingam E , Parkhill J |
| Ref : Journal of Bacteriology , 191 :261 , 2009 |
| Abstract : |
| PubMedSearch : Holden_2009_J.Bacteriol_191_261 |
| PubMedID: 18931103 |
| Gene_locus related to this paper: burcj-b4e794 , 9burk-a0u8m3 , burcj-b4ek59 , burcj-b4ehl7 , burca-q1bk56 , burce-a0a088tsj6 , burcj-b4ecv6 |
| Title : Evidence for niche adaptation in the genome of the bovine pathogen Streptococcus uberis - Ward_2009_BMC.Genomics_10_54 |
| Author(s) : Ward PN , Holden MT , Leigh JA , Lennard N , Bignell A , Barron A , Clark L , Quail MA , Woodward J , Barrell BG , Egan SA , Field TR , Maskell D , Kehoe M , Dowson CG , Chanter N , Whatmore AM , Bentley SD , Parkhill J |
| Ref : BMC Genomics , 10 :54 , 2009 |
| Abstract : |
| PubMedSearch : Ward_2009_BMC.Genomics_10_54 |
| PubMedID: 19175920 |
| Gene_locus related to this paper: stru0-b9drp1 , stru0-b9dsd7 , stru0-b9dum0 , stru0-b9dvu1 , stru0-pepx |
| Title : Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium - Stabler_2009_Genome.Biol_10_R102 |
| Author(s) : Stabler RA , He M , Dawson L , Martin M , Valiente E , Corton C , Lawley TD , Sebaihia M , Quail MA , Rose G , Gerding DN , Gibert M , Popoff MR , Parkhill J , Dougan G , Wren BW |
| Ref : Genome Biol , 10 :R102 , 2009 |
| Abstract : |
| PubMedSearch : Stabler_2009_Genome.Biol_10_R102 |
| PubMedID: 19781061 |
| Gene_locus related to this paper: pepdi-t4eki5 , clod6-q183v0 , clodr-c9ynf2 , pepd6-pip |
| Title : Genome evolution of Wolbachia strain wPip from the Culex pipiens group - Klasson_2008_Mol.Biol.Evol_25_1877 |
| Author(s) : Klasson L , Walker T , Sebaihia M , Sanders MJ , Quail MA , Lord A , Sanders S , Earl J , O'Neill SL , Thomson N , Sinkins SP , Parkhill J |
| Ref : Molecular Biology Evolution , 25 :1877 , 2008 |
| Abstract : |
| PubMedSearch : Klasson_2008_Mol.Biol.Evol_25_1877 |
| PubMedID: 18550617 |
| Title : Evolution of the Rhodococcus equi vap pathogenicity island seen through comparison of host-associated vapA and vapB virulence plasmids - Letek_2008_J.Bacteriol_190_5797 |
| Author(s) : Letek M , Ocampo-Sosa AA , Sanders M , Fogarty U , Buckley T , Leadon DP , Gonzalez P , Scortti M , Meijer WG , Parkhill J , Bentley S , Vazquez-Boland JA |
| Ref : Journal of Bacteriology , 190 :5797 , 2008 |
| Abstract : |
| PubMedSearch : Letek_2008_J.Bacteriol_190_5797 |
| PubMedID: 18606735 |
| Gene_locus related to this paper: coreq-e9sxw6 , coreq-e9t5k8 , coreq-e9t5k9 , coreq-e9t7v9 , coreq-d9i5p0 |
| Title : Genome of the actinomycete plant pathogen Clavibacter michiganensis subsp. sepedonicus suggests recent niche adaptation - Bentley_2008_J.Bacteriol_190_2150 |
| Author(s) : Bentley SD , Corton C , Brown SE , Barron A , Clark L , Doggett J , Harris B , Ormond D , Quail MA , May G , Francis D , Knudson D , Parkhill J , Ishimaru CA |
| Ref : Journal of Bacteriology , 190 :2150 , 2008 |
| Abstract : |
| PubMedSearch : Bentley_2008_J.Bacteriol_190_2150 |
| PubMedID: 18192393 |
| Gene_locus related to this paper: clam3-a5cqb1 , clam3-a5crq6 , clam3-a5csc5 , clam3-a5css8 , clams-b0rcr0 , clams-b0rdd6 , clams-b0rdd7 , clams-b0rde2 , clams-b0rde3 , clams-b0rer7 , clams-b0rga8 , clams-b0riv5 , clam3-a5cp43 , clam3-a5cp56 |
| Title : Complete genome sequence of uropathogenic Proteus mirabilis, a master of both adherence and motility - Pearson_2008_J.Bacteriol_190_4027 |
| Author(s) : Pearson MM , Sebaihia M , Churcher C , Quail MA , Seshasayee AS , Luscombe NM , Abdellah Z , Arrosmith C , Atkin B , Chillingworth T , Hauser H , Jagels K , Moule S , Mungall K , Norbertczak H , Rabbinowitsch E , Walker D , Whithead S , Thomson NR , Rather PN , Parkhill J , Mobley HL |
| Ref : Journal of Bacteriology , 190 :4027 , 2008 |
| Abstract : |
| PubMedSearch : Pearson_2008_J.Bacteriol_190_4027 |
| PubMedID: 18375554 |
| Gene_locus related to this paper: promh-b4euu8 , promh-b4ev30 , promh-b4evj5 , promh-b4f0a1 , promh-bioh , promi-c2lhp6 , promi-c2lla8 , promi-NRPS , promi-NRPT , promi-k1gzm2 , promh-b4eve8 |
| Title : The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay - Hjerde_2008_BMC.Genomics_9_616 |
| Author(s) : Hjerde E , Lorentzen MS , Holden MT , Seeger K , Paulsen S , Bason N , Churcher C , Harris D , Norbertczak H , Quail MA , Sanders S , Thurston S , Parkhill J , Willassen NP , Thomson NR |
| Ref : BMC Genomics , 9 :616 , 2008 |
| Abstract : |
| PubMedSearch : Hjerde_2008_BMC.Genomics_9_616 |
| PubMedID: 19099551 |
| Gene_locus related to this paper: alisl-b6elz2 , alisl-b6ek45 |
| Title : Chlamydia trachomatis: genome sequence analysis of lymphogranuloma venereum isolates - Thomson_2008_Genome.Res_18_161 |
| Author(s) : Thomson NR , Holden MT , Carder C , Lennard N , Lockey SJ , Marsh P , Skipp P , O'Connor CD , Goodhead I , Norbertzcak H , Harris B , Ormond D , Rance R , Quail MA , Parkhill J , Stephens RS , Clarke IN |
| Ref : Genome Res , 18 :161 , 2008 |
| Abstract : |
| PubMedSearch : Thomson_2008_Genome.Res_18_161 |
| PubMedID: 18032721 |
| Gene_locus related to this paper: chltr-CT073 , chltr-CT136 |
| Title : Rapid Virulence Annotation (RVA): identification of virulence factors using a bacterial genome library and multiple invertebrate hosts - Waterfield_2008_Proc.Natl.Acad.Sci.U.S.A_105_15967 |
| Author(s) : Waterfield NR , Sanchez-Contreras M , Eleftherianos I , Dowling A , Yang G , Wilkinson P , Parkhill J , Thomson N , Reynolds SE , Bode HB , Dorus S , ffrench-Constant RH |
| Ref : Proc Natl Acad Sci U S A , 105 :15967 , 2008 |
| Abstract : |
| PubMedSearch : Waterfield_2008_Proc.Natl.Acad.Sci.U.S.A_105_15967 |
| PubMedID: 18838673 |
| Gene_locus related to this paper: phoaa-b6vks1 , phoaa-b6vmd3 |
| Title : Comparative genomic analyses of seventeen Streptococcus pneumoniae strains: insights into the pneumococcal supragenome - Hiller_2007_J.Bacteriol_189_8186 |
| Author(s) : Hiller NL , Janto B , Hogg JS , Boissy R , Yu S , Powell E , Keefe R , Ehrlich NE , Shen K , Hayes J , Barbadora K , Klimke W , Dernovoy D , Tatusova T , Parkhill J , Bentley SD , Post JC , Ehrlich GD , Hu FZ |
| Ref : Journal of Bacteriology , 189 :8186 , 2007 |
| Abstract : |
| PubMedSearch : Hiller_2007_J.Bacteriol_189_8186 |
| PubMedID: 17675389 |
| Gene_locus related to this paper: strpn-AXE1 , strpn-pepx , strpn-SP1343 |
| Title : Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes - Sebaihia_2007_Genome.Res_17_1082 |
| Author(s) : Sebaihia M , Peck MW , Minton NP , Thomson NR , Holden MT , Mitchell WJ , Carter AT , Bentley SD , Mason DR , Crossman L , Paul CJ , Ivens A , Wells-Bennik MH , Davis IJ , Cerdeno-Tarraga AM , Churcher C , Quail MA , Chillingworth T , Feltwell T , Fraser A , Goodhead I , Hance Z , Jagels K , Larke N , Maddison M , Moule S , Mungall K , Norbertczak H , Rabbinowitsch E , Sanders M , Simmonds M , White B , Whithead S , Parkhill J |
| Ref : Genome Res , 17 :1082 , 2007 |
| Abstract : |
| PubMedSearch : Sebaihia_2007_Genome.Res_17_1082 |
| PubMedID: 17519437 |
| Gene_locus related to this paper: clobh-A5I3I2 , clobh-A51055 , clob1-a7fqm2 , clob1-a7fv94 , clobl-a7gbn0 , clobh-pip , clobh-a5i3m0 |
| Title : Complete genome of acute rheumatic fever-associated serotype M5 Streptococcus pyogenes strain manfredo - Holden_2007_J.Bacteriol_189_1473 |
| Author(s) : Holden MT , Scott A , Cherevach I , Chillingworth T , Churcher C , Cronin A , Dowd L , Feltwell T , Hamlin N , Holroyd S , Jagels K , Moule S , Mungall K , Quail MA , Price C , Rabbinowitsch E , Sharp S , Skelton J , Whitehead S , Barrell BG , Kehoe M , Parkhill J |
| Ref : Journal of Bacteriology , 189 :1473 , 2007 |
| Abstract : |
| PubMedSearch : Holden_2007_J.Bacteriol_189_1473 |
| PubMedID: 17012393 |
| Gene_locus related to this paper: strpy-ESTA , strpy-PEPXP , strpy-SPY1308 , strpy-SPYM18.1727 |
| Title : Meningococcal genetic variation mechanisms viewed through comparative analysis of serogroup C strain FAM18 - Bentley_2007_PLoS.Genet_3_e23 |
| Author(s) : Bentley SD , Vernikos GS , Snyder LA , Churcher C , Arrowsmith C , Chillingworth T , Cronin A , Davis PH , Holroyd NE , Jagels K , Maddison M , Moule S , Rabbinowitsch E , Sharp S , Unwin L , Whitehead S , Quail MA , Achtman M , Barrell B , Saunders NJ , Parkhill J |
| Ref : PLoS Genet , 3 :e23 , 2007 |
| Abstract : |
| PubMedSearch : Bentley_2007_PLoS.Genet_3_e23 |
| PubMedID: 17305430 |
| Gene_locus related to this paper: neigo-pip , neima-metx , neimb-q9k0t9 , neime-ESD , neime-NMA2216 , neime-NMB0276 , neime-NMB1828 , neime-NMB1877 , neimf-a1kta9 |
| Title : The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081 - Thomson_2006_PLoS.Genet_2_e206 |
| Author(s) : Thomson NR , Howard S , Wren BW , Holden MT , Crossman L , Challis GL , Churcher C , Mungall K , Brooks K , Chillingworth T , Feltwell T , Abdellah Z , Hauser H , Jagels K , Maddison M , Moule S , Sanders M , Whitehead S , Quail MA , Dougan G , Parkhill J , Prentice MB |
| Ref : PLoS Genet , 2 :e206 , 2006 |
| Abstract : |
| PubMedSearch : Thomson_2006_PLoS.Genet_2_e206 |
| PubMedID: 17173484 |
| Gene_locus related to this paper: yere8-a1jik0 , yere8-a1jmx1 , yere8-a1jrp7 , yere8-bioh , yere8-menh , yere8-y3204 , yeren-fes , yeren-YPLA , yeren-YqiA , yermo-c4sfz7 , yerpe-y1616 , yerpe-YPO1501 , yerbe-c4rym7 |
| Title : Multireplicon genome architecture of Lactobacillus salivarius - Claesson_2006_Proc.Natl.Acad.Sci.U.S.A_103_6718 |
| Author(s) : Claesson MJ , Li Y , Leahy S , Canchaya C , van Pijkeren JP , Cerdeno-Tarraga AM , Parkhill J , Flynn S , O'Sullivan GC , Collins JK , Higgins D , Shanahan F , Fitzgerald GF , van Sinderen D , O'Toole PW |
| Ref : Proc Natl Acad Sci U S A , 103 :6718 , 2006 |
| Abstract : |
| PubMedSearch : Claesson_2006_Proc.Natl.Acad.Sci.U.S.A_103_6718 |
| PubMedID: 16617113 |
| Gene_locus related to this paper: lacs1-PEPX , lacs1-q1wrt6 , lacs1-q1ws61 , lacs1-q1wtn9 , lacs1-q1wv71 |
| Title : The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome - Sebaihia_2006_Nat.Genet_38_779 |
| Author(s) : Sebaihia M , Wren BW , Mullany P , Fairweather NF , Minton N , Stabler R , Thomson NR , Roberts AP , Cerdeno-Tarraga AM , Wang H , Holden MT , Wright A , Churcher C , Quail MA , Baker S , Bason N , Brooks K , Chillingworth T , Cronin A , Davis P , Dowd L , Fraser A , Feltwell T , Hance Z , Holroyd S , Jagels K , Moule S , Mungall K , Price C , Rabbinowitsch E , Sharp S , Simmonds M , Stevens K , Unwin L , Whithead S , Dupuy B , Dougan G , Barrell B , Parkhill J |
| Ref : Nat Genet , 38 :779 , 2006 |
| Abstract : |
| PubMedSearch : Sebaihia_2006_Nat.Genet_38_779 |
| PubMedID: 16804543 |
| Gene_locus related to this paper: pepdi-t4eki5 , clod6-q18a60 , clod6-q183v0 , clodi-HYDD , clodr-c9ynf2 , pepd6-pip , pepdi-g6brr4 |
| Title : Extensive DNA inversions in the B. fragilis genome control variable gene expression - Cerdeno-Tarraga_2005_Science_307_1463 |
| Author(s) : Cerdeno-Tarraga AM , Patrick S , Crossman LC , Blakely G , Abratt V , Lennard N , Poxton I , Duerden B , Harris B , Quail MA , Barron A , Clark L , Corton C , Doggett J , Holden MT , Larke N , Line A , Lord A , Norbertczak H , Ormond D , Price C , Rabbinowitsch E , Woodward J , Barrell B , Parkhill J |
| Ref : Science , 307 :1463 , 2005 |
| Abstract : |
| PubMedSearch : Cerdeno-Tarraga_2005_Science_307_1463 |
| PubMedID: 15746427 |
| Gene_locus related to this paper: bacfn-q5l8p8 , bacfn-q5lef1 , bacfn-q5lh43 , bacfn-q5lhv2 , bacfr-q64mh3 , bacfr-q64n33 , bacfr-q64qs3 , bacfr-q64t24 , bacfr-q64uj8 , bacfr-q64vx6 , bacfr-q64wh2 , bacfr-q64xp9 , bacfr-q650j0 |
| Title : Complete genome sequence and lytic phase transcription profile of a Coccolithovirus - Wilson_2005_Science_309_1090 |
| Author(s) : Wilson WH , Schroeder DC , Allen MJ , Holden MT , Parkhill J , Barrell BG , Churcher C , Hamlin N , Mungall K , Norbertczak H , Quail MA , Price C , Rabbinowitsch E , Walker D , Craigon M , Roy D , Ghazal P |
| Ref : Science , 309 :1090 , 2005 |
| Abstract : |
| PubMedSearch : Wilson_2005_Science_309_1090 |
| PubMedID: 16099989 |
| Gene_locus related to this paper: 9phyc-q4a2b6 , 9phyc-q4a3c9 , ehv86-q4a332 |
| Title : The Chlamydophila abortus genome sequence reveals an array of variable proteins that contribute to interspecies variation - Thomson_2005_Genome.Res_15_629 |
| Author(s) : Thomson NR , Yeats C , Bell K , Holden MT , Bentley SD , Livingstone M , Cerdeno-Tarraga AM , Harris B , Doggett J , Ormond D , Mungall K , Clarke K , Feltwell T , Hance Z , Sanders M , Quail MA , Price C , Barrell BG , Parkhill J , Longbottom D |
| Ref : Genome Res , 15 :629 , 2005 |
| Abstract : |
| PubMedSearch : Thomson_2005_Genome.Res_15_629 |
| PubMedID: 15837807 |
| Gene_locus related to this paper: chlab-q5l5y2 , chlab-q5l6t6 |
| Title : Sequencing and analysis of the genome of the Whipple's disease bacterium Tropheryma whipplei - Bentley_2003_Lancet_361_637 |
| Author(s) : Bentley SD , Maiwald M , Murphy LD , Pallen MJ , Yeats CA , Dover LG , Norbertczak HT , Besra GS , Quail MA , Harris DE , von Herbay A , Goble A , Rutter S , Squares R , Squares S , Barrell BG , Parkhill J , Relman DA |
| Ref : Lancet , 361 :637 , 2003 |
| Abstract : |
| PubMedSearch : Bentley_2003_Lancet_361_637 |
| PubMedID: 12606174 |
| Gene_locus related to this paper: trowh-TW083.1 , trowh-TW083.2 , trowh-TWT693 |
| Title : The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences - Parkhill_2000_Nature_403_665 |
| Author(s) : Parkhill J , Wren BW , Mungall K , Ketley JM , Churcher C , Basham D , Chillingworth T , Davies RM , Feltwell T , Holroyd S , Jagels K , Karlyshev AV , Moule S , Pallen MJ , Penn CW , Quail MA , Rajandream MA , Rutherford KM , van Vliet AH , Whitehead S , Barrell BG |
| Ref : Nature , 403 :665 , 2000 |
| Abstract : |
| PubMedSearch : Parkhill_2000_Nature_403_665 |
| PubMedID: 10688204 |
| Gene_locus related to this paper: camco-e0qbj3 , camco-q4hhu5 , camje-a3zji1 , camje-CJ0796C , camjr-q5ht69 , camju-a3yll6 , camju-Q9ZF63 |
| Title : Complete DNA sequence of a serogroup A strain of Neisseria meningitidis Z2491 - Parkhill_2000_Nature_404_502 |
| Author(s) : Parkhill J , Achtman M , James KD , Bentley SD , Churcher C , Klee SR , Morelli G , Basham D , Brown D , Chillingworth T , Davies RM , Davis P , Devlin K , Feltwell T , Hamlin N , Holroyd S , Jagels K , Leather S , Moule S , Mungall K , Quail MA , Rajandream MA , Rutherford KM , Simmonds M , Skelton J , Whitehead S , Spratt BG , Barrell BG |
| Ref : Nature , 404 :502 , 2000 |
| Abstract : |
| PubMedSearch : Parkhill_2000_Nature_404_502 |
| PubMedID: 10761919 |
| Gene_locus related to this paper: neima-metx , neimb-q9k0t9 , neime-ESD , neime-NMA2216 , neime-NMB0276 , neime-NMB1877 , neimf-a1kta9 , neime-r0tza2 |