Bacterial genome sequencing and its use in infectious diseases

被引:59
作者
Fournier, Pierre-Edouard [1 ]
Drancourt, Michel [1 ]
Raoult, Didier [1 ]
机构
[1] Univ Mediterranee, Fac Med, CNRS,UMR 6020,IFR 48, Unite Rickettsies, F-13385 Marseille 5, France
关键词
D O I
10.1016/S1473-3099(07)70260-8
中图分类号
R51 [传染病];
学科分类号
100401 ;
摘要
The availability of genome sequences is revolutionising the fields of bacteriology and infectious diseases. By mid-2007, 479 bacterial genomes from 352 distinct species have been sequenced, including representatives of all notable human pathogens. Additionally, the genomes of several strains from each of 55 species have been sequenced. This tremendous amount of genomic data has led to unprecedented advances in pathogen diagnosis, genotyping, detection of virulence, and detection of resistance to antibiotics. We review current achievements in these fields and potential developments in the future for the clinical microbiology laboratory.
引用
收藏
页码:711 / 723
页数:13
相关论文
共 176 条
[61]   Estimation of prokaryote genomic DNA G+C content by sequencing universally conserved genes [J].
Fournier, Pierre-Edouard ;
Suhre, Karsten ;
Fournous, Ghislain ;
Raoult, Didier .
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2006, 56 :1025-1029
[62]   Major structural differences and novel potential virulence mechanisms from the genomes of multiple Campylobacter species [J].
Fouts, DE ;
Mongodin, EF ;
Mandrell, RE ;
Miller, WG ;
Rasko, DA ;
Ravel, J ;
Brinkac, LM ;
DeBoy, RT ;
Parker, CT ;
Daugherty, SC ;
Dodson, RJ ;
Durkin, AS ;
Madupu, R ;
Sullivan, SA ;
Shetty, JU ;
Ayodeji, MA ;
Shvartsbeyn, A ;
Schatz, MC ;
Badger, JH ;
Fraser, CM ;
Nelson, KE .
PLOS BIOLOGY, 2005, 3 (01) :72-85
[63]   Application of microbial genomic science to advanced therapeutics [J].
Fraser, CM ;
Rappuoli, R .
ANNUAL REVIEW OF MEDICINE, 2005, 56 :459-+
[64]   Complete genome sequence of Treponema pallidum, the syphilis spirochete [J].
Fraser, CM ;
Norris, SJ ;
Weinstock, CM ;
White, O ;
Sutton, GG ;
Dodson, R ;
Gwinn, M ;
Hickey, EK ;
Clayton, R ;
Ketchum, KA ;
Sodergren, E ;
Hardham, JM ;
McLeod, MP ;
Salzberg, S ;
Peterson, J ;
Khalak, H ;
Richardson, D ;
Howell, JK ;
Chidambaram, M ;
Utterback, T ;
McDonald, L ;
Artiach, P ;
Bowman, C ;
Cotton, MD ;
Fujii, C ;
Garland, S ;
Hatch, B ;
Horst, K ;
Roberts, K ;
Sandusky, M ;
Weidman, J ;
Smith, HO ;
Venter, JC .
SCIENCE, 1998, 281 (5375) :375-388
[65]   Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain [J].
Gill, SR ;
Fouts, DE ;
Archer, GL ;
Mongodin, EF ;
DeBoy, RT ;
Ravel, J ;
Paulsen, IT ;
Kolonay, JF ;
Brinkac, L ;
Beanan, M ;
Dodson, RJ ;
Daugherty, SC ;
Madupu, R ;
Angiuoli, SV ;
Durkin, AS ;
Haft, DH ;
Vamathevan, J ;
Khouri, H ;
Utterback, T ;
Lee, C ;
Dimitrov, G ;
Jiang, LX ;
Qin, HY ;
Weidman, J ;
Tran, K ;
Kang, K ;
Hance, IR ;
Nelson, KE ;
Fraser, CM .
JOURNAL OF BACTERIOLOGY, 2005, 187 (07) :2426-2438
[66]   Metagenomic analysis of the human distal gut microbiome [J].
Gill, Steven R. ;
Pop, Mihai ;
DeBoy, Robert T. ;
Eckburg, Paul B. ;
Turnbaugh, Peter J. ;
Samuel, Buck S. ;
Gordon, Jeffrey I. ;
Relman, David A. ;
Fraser-Liggett, Claire M. ;
Nelson, Karen E. .
SCIENCE, 2006, 312 (5778) :1355-1359
[67]   Genome sequence of Streptococcus agalactiae, a pathogen causing invasive neonatal disease [J].
Glaser, P ;
Rusniok, C ;
Buchrieser, C ;
Chevalier, F ;
Frangeul, L ;
Msadek, T ;
Zouine, M ;
Couvé, E ;
Lalioui, L ;
Poyart, C ;
Trieu-Cuot, P ;
Kunst, F .
MOLECULAR MICROBIOLOGY, 2002, 45 (06) :1499-1513
[68]  
Glazunova O, 2005, EMERG INFECT DIS, V11, P1211
[69]   Multilocus sequence typing and evolutionary relationships among the causative agents of melioidosis and glanders, Burkholderia pseudomallei and Burkholderia mallei [J].
Godoy, D ;
Randle, G ;
Simpson, AJ ;
Aanensen, DM ;
Pitt, TL ;
Kinoshita, R ;
Spratt, BG .
JOURNAL OF CLINICAL MICROBIOLOGY, 2003, 41 (05) :2068-2079
[70]  
GOERING RV, 2004, MOL MICROBIOLOGY DIA, P185