The nature and dynamics of bacterial genomes

被引:176
作者
Ochman, H [1 ]
Davalos, LM [1 ]
机构
[1] Univ Arizona, Dept Biochem & Mol Biophys, Tucson, AZ 85721 USA
关键词
D O I
10.1126/science.1119966
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Though generally small and gene rich, bacterial. genomes are constantly subjected to both mutational and population-level. processes that operate to increase amounts of functionless DNA As a result, the coding potential of bacterial genomes can be substantially lower than originally predicted. Whereas only a single pseudogene was included in the original annotation of the bacterium Escherichia coli, we estimate that this genome harbors hundreds of inactivated and otherwise functionless genes. Such regions Will never yield a detectable phenotype, but their identification is vital to efforts to elucidate the biological role of all the proteins within the cell.
引用
收藏
页码:1730 / 1733
页数:4
相关论文
共 48 条
[1]   Muller's ratchet decreases fitness of a DNA-based microbe [J].
Andersson, DI ;
Hughes, D .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (02) :906-907
[2]   Insights into the evolutionary process of genome degradation [J].
Andersson, JO ;
Andersson, SGE .
CURRENT OPINION IN GENETICS & DEVELOPMENT, 1999, 9 (06) :664-671
[3]   Pseudogenes, junk DNA, and the dynamics of Rickettsia genomes [J].
Andersson, JO ;
Andersson, SGE .
MOLECULAR BIOLOGY AND EVOLUTION, 2001, 18 (05) :829-839
[4]   The genome sequence of Rickettsia prowazekii and the origin of mitochondria [J].
Andersson, SGE ;
Zomorodipour, A ;
Andersson, JO ;
Sicheritz-Pontén, T ;
Alsmark, UCM ;
Podowski, RM ;
Näslund, AK ;
Eriksson, AS ;
Winkler, HH ;
Kurland, CG .
NATURE, 1998, 396 (6707) :133-140
[5]   Inhibiting cell division in Escherichia coli has little if any effect on gene expression [J].
Arends, SJR ;
Weiss, DS .
JOURNAL OF BACTERIOLOGY, 2004, 186 (03) :880-884
[6]   Novel small RNA-encoding genes in the intergenic regions of Escherichia coli [J].
Argaman, L ;
Hershberg, R ;
Vogel, J ;
Bejerano, G ;
Wagner, EGH ;
Margalit, H ;
Altuvia, S .
CURRENT BIOLOGY, 2001, 11 (12) :941-950
[7]   Distribution of chromosome length variation in natural isolates of Escherichia coli [J].
Bergthorsson, U ;
Ochman, H .
MOLECULAR BIOLOGY AND EVOLUTION, 1998, 15 (01) :6-16
[8]   The complete genome sequence of Escherichia coli K-12 [J].
Blattner, FR ;
Plunkett, G ;
Bloch, CA ;
Perna, NT ;
Burland, V ;
Riley, M ;
ColladoVides, J ;
Glasner, JD ;
Rode, CK ;
Mayhew, GF ;
Gregor, J ;
Davis, NW ;
Kirkpatrick, HA ;
Goeden, MA ;
Rose, DJ ;
Mau, B ;
Shao, Y .
SCIENCE, 1997, 277 (5331) :1453-+
[9]   Re-annotation of genome microbial CoDing-Sequences:: finding new genes and inaccurately annotated genes -: art. no. 5 [J].
Bocs, S ;
Danchin, A ;
Médigue, C .
BMC BIOINFORMATICS, 2002, 3 (1)
[10]   Powers and pitfalls in sequence analysis: The 70% hurdle [J].
Bork, P .
GENOME RESEARCH, 2000, 10 (04) :398-400