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The genome of Mycobacterium africanum West African 2 reveals a lineage-specific locus and genome erosion common to the M. tuberculosis complex
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A systematically improved high quality genome and transcriptome of the human blood fluke Schistosoma mansoni
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Comparative genomics of the apicomplexan parasites Toxoplasma gondii and Neospora caninum: Coccidia differing in host range and transmission strategy
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Insights into hominid evolution from the gorilla genome sequence
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Lineage-specific virulence determinants of Haemophilus influenzae biogroup aegyptius
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Independent evolution of the core and accessory gene sets in the genus Neisseria: insights gained from the genome of Neisseria lactamica isolate 020-06
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Genome sequence of a recently emerged, highly transmissible, multi-antibiotic- and antiseptic-resistant variant of methicillin-resistant Staphylococcus aureus, sequence type 239 (TW)
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The genome sequence of Trypanosoma brucei gambiense, causative agent of chronic human african trypanosomiasis
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The genome of a pathogenic rhodococcus: cooptive virulence underpinned by key gene acquisitions
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The Citrobacter rodentium genome sequence reveals convergent evolution with human pathogenic Escherichia coli
Journal of Bacteriology 192: 525
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Complete genome sequence of the plant pathogen Erwinia amylovora strain ATCC 49946
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The genome of the blood fluke Schistosoma mansoni
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Evolution of pathogenicity and sexual reproduction in eight Candida genomes
Nature 459: 657
Calderon-Copete SP, Wigger G, Wunderlin C, Schmidheini T, Frey J, Quail MA, Falquet L (2009)
The Mycoplasma conjunctivae genome sequencing, annotation and analysis
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Croucher NJ, Walker D, Romero P, Lennard N, Paterson GK, Bason NC, Mitchell AM, Quail MA, Andrew PW, Parkhill J, Bentley SD, Mitchell TJ (2009)
Role of conjugative elements in the evolution of the multidrug-resistant pandemic clone Streptococcus pneumoniaeSpain23F ST81
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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 (2009)
Genomic evidence for the evolution of Streptococcus equi: host restriction, increased virulence, and genetic exchange with human pathogens
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The genome of Burkholderia cenocepacia J2315, an epidemic pathogen of cystic fibrosis patients
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Rapid evolution of virulence and drug resistance in the emerging zoonotic pathogen Streptococcus suis
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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 (2009)
Pseudogene accumulation in the evolutionary histories of Salmonella enterica serovars Paratyphi A and Typhi
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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 (2009)
Complete genome sequence and comparative genome analysis of enteropathogenic Escherichia coli O127:H6 strain E2348/69
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Comparative genomics of the fungal pathogens Candida dubliniensis and Candida albicans
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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 (2009)
Co-evolution of genomes and plasmids within Chlamydia trachomatis and the emergence in Sweden of a new variant strain
BMC Genomics 10: 239
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Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens
Genome Biol 10: R51
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 (2009)
Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium
Genome Biol 10: R102
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 (2009)
Evidence for niche adaptation in the genome of the bovine pathogen Streptococcus uberis
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Winstanley C, Langille MG, Fothergill JL, Kukavica-Ibrulj I, Paradis-Bleau C, Sanschagrin F, Thomson NR, Winsor GL, Quail MA, Lennard N, Bignell A, Clarke L, Seeger K, Saunders D, Harris D, Parkhill J, Hancock RE, Brinkman FS, Levesque RC (2009)
Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa
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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 (2008)
Genome of the actinomycete plant pathogen Clavibacter michiganensis subsp. sepedonicus suggests recent niche adaptation
Journal of Bacteriology 190: 2150
Crossman LC, Gould VC, Dow JM, Vernikos GS, Okazaki A, Sebaihia M, Saunders D, Arrowsmith C, Carver T, Peters N, Adlem E, Kerhornou A, Lord A, Murphy L, Seeger K, Squares R, Rutter S, Quail MA, Rajandream MA, Harris D, Churcher C, Bentley SD, Parkhill J, Thomson NR, Avison MB (2008)
The complete genome, comparative and functional analysis of Stenotrophomonas maltophilia reveals an organism heavily shielded by drug resistance determinants
Genome Biol 9: R74
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 (2008)
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay
BMC Genomics 9: 616
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 (2008)
Genome evolution of Wolbachia strain wPip from the Culex pipiens group
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The genome of the simian and human malaria parasite Plasmodium knowlesi
Nature 455: 799
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 (2008)
Complete genome sequence of uropathogenic Proteus mirabilis, a master of both adherence and motility
Journal of Bacteriology 190: 4027
Stinear TP, Seemann T, Harrison PF, Jenkin GA, Davies JK, Johnson PD, Abdellah Z, Arrowsmith C, Chillingworth T, Churcher C, Clarke K, Cronin A, Davis P, Goodhead I, Holroyd N, Jagels K, Lord A, Moule S, Mungall K, Norbertczak H, Quail MA, Rabbinowitsch E, Walker D, White B, Whitehead S, Small PL, Brosch R, Ramakrishnan L, Fischbach MA, Parkhill J, Cole ST (2008)
Insights from the complete genome sequence of Mycobacterium marinum on the evolution of Mycobacterium tuberculosis
Genome Res 18: 729
Thomson NR, Clayton DJ, Windhorst D, Vernikos G, Davidson S, Churcher C, Quail MA, Stevens M, Jones MA, Watson M, Barron A, Layton A, Pickard D, Kingsley RA, Bignell A, Clark L, Harris B, Ormond D, Abdellah Z, Brooks K, Cherevach I, Chillingworth T, Woodward J, Norberczak H, Lord A, Arrowsmith C, Jagels K, Moule S, Mungall K, Sanders M, Whitehead S, Chabalgoity JA, Maskell D, Humphrey T, Roberts M, Barrow PA, Dougan G, Parkhill J (2008)
Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways
Genome Res 18: 1624
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 (2008)
Chlamydia trachomatis: genome sequence analysis of lymphogranuloma venereum isolates
Genome Res 18: 161
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Meningococcal genetic variation mechanisms viewed through comparative analysis of serogroup C strain FAM18
PLoS Genet 3: e23
Brosch R, Gordon SV, Garnier T, Eiglmeier K, Frigui W, Valenti P, Dos Santos S, Duthoy S, Lacroix C, Garcia-Pelayo C, Inwald JK, Golby P, Garcia JN, Hewinson RG, Behr MA, Quail MA, Churcher C, Barrell BG, Parkhill J, Cole ST (2007)
Genome plasticity of BCG and impact on vaccine efficacy
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Complete genome of acute rheumatic fever-associated serotype M5 Streptococcus pyogenes strain manfredo
Journal of Bacteriology 189: 1473
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Comparative genomic analysis of three Leishmania species that cause diverse human disease
Nat Genet 39: 839
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 (2007)
Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes
Genome Res 17: 1082
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Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii
Genome Res 16: 1119
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Comparison of the genome sequence of the poultry pathogen Bordetella avium with those of B. bronchiseptica, B. pertussis, and B. parapertussis reveals extensive diversity in surface structures associated with host interaction
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The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome
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The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081
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The genome of Rhizobium leguminosarum has recognizable core and accessory components
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The genome of the African trypanosome Trypanosoma brucei
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Extensive DNA inversions in the B. fragilis genome control variable gene expression
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The genome of the social amoeba Dictyostelium discoideum
Nature 435: 43
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A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses
Science 307: 82
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The genome of the kinetoplastid parasite, Leishmania major
Science 309: 436
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The genome of the protist parasite Entamoeba histolytica
Nature 433: 865
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Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
Nature 438: 1151
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Genome of the host-cell transforming parasite Theileria annulata compared with T. parva
Science 309: 131
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The Chlamydophila abortus genome sequence reveals an array of variable proteins that contribute to interspecies variation
Genome Res 15: 629
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Complete genome sequence and lytic phase transcription profile of a Coccolithovirus
Science 309: 1090
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Genome sequence of the enterobacterial phytopathogen Erwinia carotovora subsp. atroseptica and characterization of virulence factors
Proc Natl Acad Sci U S A 101: 11105
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Complete genomes of two clinical Staphylococcus aureus strains: evidence for the rapid evolution of virulence and drug resistance
Proc Natl Acad Sci U S A 101: 9786
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Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei
Proc Natl Acad Sci U S A 101: 14240
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Insight into the genome of Aspergillus fumigatus: analysis of a 922 kb region encompassing the nitrate assimilation gene cluster
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Sequencing and analysis of the genome of the Whipple's disease bacterium Tropheryma whipplei
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The complete genome sequence and analysis of Corynebacterium diphtheriae NCTC13129
Nucleic Acids Research 31: 6516
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The DNA sequence of chromosome I of an African trypanosome: gene content, chromosome organisation, recombination and polymorphism
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Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica
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Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2)
Nature 417: 141
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Sequence and analysis of chromosome 2 of Dictyostelium discoideum
Nature 418: 79
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Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13
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The genome sequence of Schizosaccharomyces pombe
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Massive gene decay in the leprosy bacillus
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Complete DNA sequence of a serogroup A strain of Neisseria meningitidis Z2491
Nature 404: 502
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The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences
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The complete nucleotide sequence of chromosome 3 of Plasmodium falciparum
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Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
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