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Whole genome sequence of Treponema pallidum ssp. pallidum, strain Mexico A, suggests recombination between yaws and syphilis strains.
Pětrošová H, Zobaníková M, Čejková D, Mikalová L, Pospíšilová P, Strouhal M, Chen L, Qin X, Muzny DM, Weinstock GM, Šmajs D. Pětrošová H, et al. Among authors: chen l. PLoS Negl Trop Dis. 2012;6(9):e1832. doi: 10.1371/journal.pntd.0001832. Epub 2012 Sep 20. PLoS Negl Trop Dis. 2012. PMID: 23029591 Free PMC article.
The complete genome of an individual by massively parallel DNA sequencing.
Wheeler DA, Srinivasan M, Egholm M, Shen Y, Chen L, McGuire A, He W, Chen YJ, Makhijani V, Roth GT, Gomes X, Tartaro K, Niazi F, Turcotte CL, Irzyk GP, Lupski JR, Chinault C, Song XZ, Liu Y, Yuan Y, Nazareth L, Qin X, Muzny DM, Margulies M, Weinstock GM, Gibbs RA, Rothberg JM. Wheeler DA, et al. Among authors: chen yj, chen l. Nature. 2008 Apr 17;452(7189):872-6. doi: 10.1038/nature06884. Nature. 2008. PMID: 18421352
Large scale variation in Enterococcus faecalis illustrated by the genome analysis of strain OG1RF.
Bourgogne A, Garsin DA, Qin X, Singh KV, Sillanpaa J, Yerrapragada S, Ding Y, Dugan-Rocha S, Buhay C, Shen H, Chen G, Williams G, Muzny D, Maadani A, Fox KA, Gioia J, Chen L, Shang Y, Arias CA, Nallapareddy SR, Zhao M, Prakash VP, Chowdhury S, Jiang H, Gibbs RA, Murray BE, Highlander SK, Weinstock GM. Bourgogne A, et al. Among authors: chen l, chen g. Genome Biol. 2008;9(7):R110. doi: 10.1186/gb-2008-9-7-r110. Epub 2008 Jul 8. Genome Biol. 2008. PMID: 18611278 Free PMC article.
A catalog of reference genomes from the human microbiome.
Human Microbiome Jumpstart Reference Strains Consortium; Nelson KE, Weinstock GM, Highlander SK, Worley KC, Creasy HH, Wortman JR, Rusch DB, Mitreva M, Sodergren E, Chinwalla AT, Feldgarden M, Gevers D, Haas BJ, Madupu R, Ward DV, Birren BW, Gibbs RA, Methe B, Petrosino JF, Strausberg RL, Sutton GG, White OR, Wilson RK, Durkin S, Giglio MG, Gujja S, Howarth C, Kodira CD, Kyrpides N, Mehta T, Muzny DM, Pearson M, Pepin K, Pati A, Qin X, Yandava C, Zeng Q, Zhang L, Berlin AM, Chen L, Hepburn TA, Johnson J, McCorrison J, Miller J, Minx P, Nusbaum C, Russ C, Sykes SM, Tomlinson CM, Young S, Warren WC, Badger J, Crabtree J, Markowitz VM, Orvis J, Cree A, Ferriera S, Fulton LL, Fulton RS, Gillis M, Hemphill LD, Joshi V, Kovar C, Torralba M, Wetterstrand KA, Abouellleil A, Wollam AM, Buhay CJ, Ding Y, Dugan S, FitzGerald MG, Holder M, Hostetler J, Clifton SW, Allen-Vercoe E, Earl AM, Farmer CN, Liolios K, Surette MG, Xu Q, Pohl C, Wilczek-Boney K, Zhu D. Human Microbiome Jumpstart Reference Strains Consortium, et al. Among authors: chen l. Science. 2010 May 21;328(5981):994-9. doi: 10.1126/science.1183605. Science. 2010. PMID: 20489017 Free PMC article.
Complete genome sequence of Treponema paraluiscuniculi, strain Cuniculi A: the loss of infectivity to humans is associated with genome decay.
Šmajs D, Zobaníková M, Strouhal M, Čejková D, Dugan-Rocha S, Pospíšilová P, Norris SJ, Albert T, Qin X, Hallsworth-Pepin K, Buhay C, Muzny DM, Chen L, Gibbs RA, Weinstock GM. Šmajs D, et al. Among authors: chen l. PLoS One. 2011;6(5):e20415. doi: 10.1371/journal.pone.0020415. Epub 2011 May 31. PLoS One. 2011. PMID: 21655244 Free PMC article.
Whole genome sequences of three Treponema pallidum ssp. pertenue strains: yaws and syphilis treponemes differ in less than 0.2% of the genome sequence.
Cejková D, Zobaníková M, Chen L, Pospíšilová P, Strouhal M, Qin X, Mikalová L, Norris SJ, Muzny DM, Gibbs RA, Fulton LL, Sodergren E, Weinstock GM, Smajs D. Cejková D, et al. Among authors: chen l. PLoS Negl Trop Dis. 2012 Jan;6(1):e1471. doi: 10.1371/journal.pntd.0001471. Epub 2012 Jan 24. PLoS Negl Trop Dis. 2012. PMID: 22292095 Free PMC article.
Complete genome sequence of Treponema pallidum strain DAL-1.
Zobaníková M, Mikolka P, Cejková D, Pospíšilová P, Chen L, Strouhal M, Qin X, Weinstock GM, Smajs D. Zobaníková M, et al. Among authors: chen l. Stand Genomic Sci. 2012 Oct 10;7(1):12-21. doi: 10.4056/sigs.2615838. Epub 2012 Sep 24. Stand Genomic Sci. 2012. PMID: 23449808 Free PMC article.
Whole genome sequence of the Treponema Fribourg-Blanc: unspecified simian isolate is highly similar to the yaws subspecies.
Zobaníková M, Strouhal M, Mikalová L, Cejková D, Ambrožová L, Pospíšilová P, Fulton LL, Chen L, Sodergren E, Weinstock GM, Smajs D. Zobaníková M, et al. Among authors: chen l. PLoS Negl Trop Dis. 2013 Apr 18;7(4):e2172. doi: 10.1371/journal.pntd.0002172. Print 2013. PLoS Negl Trop Dis. 2013. PMID: 23638193 Free PMC article.
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