메뉴 건너뛰기




Volumn 6, Issue , 2006, Pages

Tempo and mode of early gene loss in endosymbiotic bacteria from insects

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BLOCHMANNIA FLORIDANUS; BUCHNERA APHIDICOLA; CONTROLLED STUDY; ESCHERICHIA COLI; EVOLUTIONARY RATE; GAMMAPROTEOBACTERIA; GENE DELETION; GENE LOCUS; GENE LOSS; GENE SEQUENCE; GENETIC CONSERVATION; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOLOGY; PARSIMONY ANALYSIS; PHYLOGENETIC TREE; SERIAL ENDOSYMBIOTIC THEORY; SYMBIONT; SYMBIOSIS; WIGGLESWORTHIA GLOSSINIDIA; ANIMAL; BACTERIAL GENOME; GENETIC SELECTION; GENETICS; INSECT; MICROBIOLOGY; PHYLOGENY;

EID: 33747401945     PISSN: 14712148     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-6-56     Document Type: Article
Times cited : (21)

References (49)
  • 1
    • 0037007113 scopus 로고    scopus 로고
    • Extreme genome reduction in Buchnera spp.: Toward the minimal genome needed for symbiotic life
    • Gil R, Sabater-Munoz B, Latorre A, Silva FJ, Moya A: Extreme genome reduction in Buchnera spp.: Toward the minimal genome needed for symbiotic life. Proc Natl Acad Sci 2002, 99:4454-4458.
    • (2002) Proc Natl Acad Sci , vol.99 , pp. 4454-4458
    • Gil, R.1    Sabater-Munoz, B.2    Latorre, A.3    Silva, F.J.4    Moya, A.5
  • 3
    • 23744515783 scopus 로고    scopus 로고
    • Genome sequence of Blochmannia pennsylvanicus indicates parallel evolutionary trends among bacterial mutualists of insects
    • Degnan PH, Lazarus AB, Wernegreen JJ: Genome sequence of Blochmannia pennsylvanicus indicates parallel evolutionary trends among bacterial mutualists of insects. Genome Res 2005, 15:1023-1033.
    • (2005) Genome Res , vol.15 , pp. 1023-1033
    • Degnan, P.H.1    Lazarus, A.B.2    Wernegreen, J.J.3
  • 4
    • 19544374490 scopus 로고    scopus 로고
    • Genome rearrangement distances and gene order phylogeny in gamma-Proteobacteria
    • Belda E, Moya A, Silva FJ: Genome rearrangement distances and gene order phylogeny in gamma-Proteobacteria. Mol Biol Evol 2005, 22:1456-1467.
    • (2005) Mol Biol Evol , vol.22 , pp. 1456-1467
    • Belda, E.1    Moya, A.2    Silva, F.J.3
  • 5
    • 0034618559 scopus 로고    scopus 로고
    • Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS
    • Shigenobu S, Watanabe H, Hattori M, Sakaki Y, Ishikawa H: Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS. Nature 2000, 407:81-86.
    • (2000) Nature , vol.407 , pp. 81-86
    • Shigenobu, S.1    Watanabe, H.2    Hattori, M.3    Sakaki, Y.4    Ishikawa, H.5
  • 6
    • 0035749612 scopus 로고    scopus 로고
    • The process of genome shrinkage in the obligate symbiont Buchnera aphidicola
    • RESEARCH0054
    • Moran NA, Mira A: The process of genome shrinkage in the obligate symbiont Buchnera aphidicola. Genome Biol 2001, 2:RESEARCH0054.
    • (2001) Genome Biol , vol.2
    • Moran, N.A.1    Mira, A.2
  • 7
    • 0035500843 scopus 로고    scopus 로고
    • Genome size reduction through multiple events of gene disintegration in Buchnera APS
    • Silva FJ, Latorre A, Moya A: Genome size reduction through multiple events of gene disintegration in Buchnera APS. Trends Genet 2001, 17:615-618.
    • (2001) Trends Genet , vol.17 , pp. 615-618
    • Silva, F.J.1    Latorre, A.2    Moya, A.3
  • 10
    • 0036842986 scopus 로고    scopus 로고
    • Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia
    • Akman L, Yamashita A, Watanabe H, Oshima K, Shiba T, Hattori M, Aksoy S: Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia. Nature Genetics 2002, 32:402-407.
    • (2002) Nature Genetics , vol.32 , pp. 402-407
    • Akman, L.1    Yamashita, A.2    Watanabe, H.3    Oshima, K.4    Shiba, T.5    Hattori, M.6    Aksoy, S.7
  • 11
    • 0035843908 scopus 로고    scopus 로고
    • Genes lost and genes found: Evolution of bacterial pathogenesis and symbiosis
    • Ochman H, Moran NA: Genes lost and genes found: Evolution of bacterial pathogenesis and symbiosis. Science 2001, 292:1096-1098.
    • (2001) Science , vol.292 , pp. 1096-1098
    • Ochman, H.1    Moran, N.A.2
  • 12
    • 0029866448 scopus 로고    scopus 로고
    • Accelerated evolution and Muller's rachet in endosymbiotic bacteria
    • Moran NA: Accelerated evolution and Muller's rachet in endosymbiotic bacteria. Proc Natl Acad Sci 1996, 93:2873-2878.
    • (1996) Proc Natl Acad Sci , vol.93 , pp. 2873-2878
    • Moran, N.A.1
  • 13
    • 0032731436 scopus 로고    scopus 로고
    • Sequence evolution in bacterial endosymbionts having extreme base compositions
    • Clark MA, Moran NA, Baumann P: Sequence evolution in bacterial endosymbionts having extreme base compositions. Mol Biol Evol 1999, 16:1586-1598.
    • (1999) Mol Biol Evol , vol.16 , pp. 1586-1598
    • Clark, M.A.1    Moran, N.A.2    Baumann, P.3
  • 14
    • 0036606915 scopus 로고    scopus 로고
    • Base composition bias might result from competition for metabolic resources
    • Rocha EP, Danchin A: Base composition bias might result from competition for metabolic resources. Trends Genet 2002, 18:291-294.
    • (2002) Trends Genet , vol.18 , pp. 291-294
    • Rocha, E.P.1    Danchin, A.2
  • 15
    • 0347135951 scopus 로고    scopus 로고
    • Mutational and selective pressures on codon and amino acid usage in Buchnera, endosymbiotic bacteria of aphids
    • Rispe C, Delmotte F, van Ham RCHJ, Moya A: Mutational and selective pressures on codon and amino acid usage in Buchnera, endosymbiotic bacteria of aphids. Genome Res 2004, 14:44-53.
    • (2004) Genome Res , vol.14 , pp. 44-53
    • Rispe, C.1    Delmotte, F.2    Van Ham, R.C.H.J.3    Moya, A.4
  • 16
    • 0035107978 scopus 로고    scopus 로고
    • Intraspecific variation in symbiont genomes: Bottlenecks and the aphid-buchnera association
    • Funk DJ, Wernegreen JJ, Moran NA: Intraspecific variation in symbiont genomes: Bottlenecks and the aphid-buchnera association. Genetics 2001, 157:477-489.
    • (2001) Genetics , vol.157 , pp. 477-489
    • Funk, D.J.1    Wernegreen, J.J.2    Moran, N.A.3
  • 17
    • 0036899934 scopus 로고    scopus 로고
    • Extremely low levels of genetic polymorphism in endosymbionts (Buchnera) of aphids (Pemphigus)
    • Abbot P, Moran NA: Extremely low levels of genetic polymorphism in endosymbionts (Buchnera) of aphids (Pemphigus). Mol Ecol 2002, 11:2649-2660.
    • (2002) Mol Ecol , vol.11 , pp. 2649-2660
    • Abbot, P.1    Moran, N.A.2
  • 20
    • 0032777154 scopus 로고    scopus 로고
    • Insights into the evolutionary process of genome degradation
    • Andersson JO, Andersson SGE: Insights into the evolutionary process of genome degradation. Curr Opin Genet Dev 1999, 9:664-671.
    • (1999) Curr Opin Genet Dev , vol.9 , pp. 664-671
    • Andersson, J.O.1    Andersson, S.G.E.2
  • 21
    • 0035110592 scopus 로고    scopus 로고
    • The complexity of simplicity
    • COMMENT2002
    • Peterson SN, Fraser CM: The complexity of simplicity. Genome Biol 2001, 2:COMMENT2002.
    • (2001) Genome Biol , vol.2
    • Peterson, S.N.1    Fraser, C.M.2
  • 22
    • 0035479142 scopus 로고    scopus 로고
    • Deletional bias and the evolution of bacterial genomes
    • Mira A, Ochman H, Moran NA: Deletional bias and the evolution of bacterial genomes. Trends Genet 2001, 17:589-596.
    • (2001) Trends Genet , vol.17 , pp. 589-596
    • Mira, A.1    Ochman, H.2    Moran, N.A.3
  • 23
    • 0042073066 scopus 로고    scopus 로고
    • Loss of DNA recombinational repair enzymes in the initial stages of genome degeneration
    • Dale C, Wang B, Moran N, Ochman H: Loss of DNA recombinational repair enzymes in the initial stages of genome degeneration. Mol Biol Evol 2003, 20:1188-1194.
    • (2003) Mol Biol Evol , vol.20 , pp. 1188-1194
    • Dale, C.1    Wang, B.2    Moran, N.3    Ochman, H.4
  • 24
    • 28044436397 scopus 로고    scopus 로고
    • Accelerated evolution associated with genome reduction in a free-living prokaryote
    • Dufresne A, Garczarek L, Partensky F: Accelerated evolution associated with genome reduction in a free-living prokaryote. Genome Biol 2005, 6:.
    • (2005) Genome Biol , vol.6
    • Dufresne, A.1    Garczarek, L.2    Partensky, F.3
  • 25
    • 0037384544 scopus 로고    scopus 로고
    • Why are the genomes of endosymbiotic bacteria so stable?
    • Silva FJ, Latorre A, Moya A: Why are the genomes of endosymbiotic bacteria so stable? Trends Genet 2003, 19:176-180.
    • (2003) Trends Genet , vol.19 , pp. 176-180
    • Silva, F.J.1    Latorre, A.2    Moya, A.3
  • 27
    • 24744433514 scopus 로고    scopus 로고
    • Genomes on the shrink
    • Ochman H: Genomes on the shrink. Proc Natl Acad Sci 2005, 102:11959-11960.
    • (2005) Proc Natl Acad Sci , vol.102 , pp. 11959-11960
    • Ochman, H.1
  • 28
    • 0036847064 scopus 로고    scopus 로고
    • Genome evolution in bacterial endosymbionts of insects
    • Wernegreen JJ: Genome evolution in bacterial endosymbionts of insects. Nat Rev Genet 2002, 3:850-861.
    • (2002) Nat Rev Genet , vol.3 , pp. 850-861
    • Wernegreen, J.J.1
  • 30
    • 20144362746 scopus 로고    scopus 로고
    • Recognizing the pseudogenes in bacterial genomes
    • Lerat E, Ochman H: Recognizing the pseudogenes in bacterial genomes. Nucleic Acids Res 2005, 33:3125-3132.
    • (2005) Nucleic Acids Res , vol.33 , pp. 3125-3132
    • Lerat, E.1    Ochman, H.2
  • 34
    • 0347990454 scopus 로고    scopus 로고
    • Evolution of minimal-gene-sets in host-dependent bacteria
    • Klasson L, Andersson SGE: Evolution of minimal-gene-sets in host-dependent bacteria. Trends Microbiol 2004, 12:37-43.
    • (2004) Trends Microbiol , vol.12 , pp. 37-43
    • Klasson, L.1    Andersson, S.G.E.2
  • 35
    • 0142124263 scopus 로고    scopus 로고
    • Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution
    • Krylov DM, Wolf YI, Rogozin IB, Koonin EV: Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution. Genome Res 2003, 13:2229-2235.
    • (2003) Genome Res , vol.13 , pp. 2229-2235
    • Krylov, D.M.1    Wolf, Y.I.2    Rogozin, I.B.3    Koonin, E.V.4
  • 37
    • 1342271382 scopus 로고    scopus 로고
    • From gene trees to organismal phylogeny in prokaryotes: The case of the gamma-proteobacteria
    • Lerat E, Daubin V, Moran NA: From gene trees to organismal phylogeny in prokaryotes: The case of the gamma-proteobacteria. Plos Biol 2003, 1:101-109.
    • (2003) Plos Biol , vol.1 , pp. 101-109
    • Lerat, E.1    Daubin, V.2    Moran, N.A.3
  • 38
    • 2442667671 scopus 로고    scopus 로고
    • A phylogenomic study of endosymbiotic bacteria
    • Canback B, Tamas I, Andersson SG: A phylogenomic study of endosymbiotic bacteria. Mol Biol Evol 2004, 21:1110-1122.
    • (2004) Mol Biol Evol , vol.21 , pp. 1110-1122
    • Canback, B.1    Tamas, I.2    Andersson, S.G.3
  • 39
    • 14544293086 scopus 로고    scopus 로고
    • Nonhomogeneous model of sequence evolution indicates independent origins of primary endosymbionts within the enterobacteriales (gamma-Proteobacteria)
    • Herbeck JT, Degnan PH, Wernegreen JJ: Nonhomogeneous model of sequence evolution indicates independent origins of primary endosymbionts within the enterobacteriales (gamma-Proteobacteria). Mol Biol Evol 2005, 22:520-532.
    • (2005) Mol Biol Evol , vol.22 , pp. 520-532
    • Herbeck, J.T.1    Degnan, P.H.2    Wernegreen, J.J.3
  • 40
    • 20444395428 scopus 로고    scopus 로고
    • Gene expression levels influence amino acid usage and evolutionary rates in endosymbiotic bacteria
    • Schaber J, Rispe C, Wernegreen J, Buness A, Delmotte F, Silva FJ, Moya A: Gene expression levels influence amino acid usage and evolutionary rates in endosymbiotic bacteria. Gene 2005, 352:109-117.
    • (2005) Gene , vol.352 , pp. 109-117
    • Schaber, J.1    Rispe, C.2    Wernegreen, J.3    Buness, A.4    Delmotte, F.5    Silva, F.J.6    Moya, A.7
  • 41
    • 0034978556 scopus 로고    scopus 로고
    • Highly expressed genes in yeast evolve slowly
    • Pal C, Papp B, Hurst LD: Highly expressed genes in yeast evolve slowly. Genetics 2001, 158:927-931.
    • (2001) Genetics , vol.158 , pp. 927-931
    • Pal, C.1    Papp, B.2    Hurst, L.D.3
  • 42
    • 30744477003 scopus 로고    scopus 로고
    • The "domino theory' of gene death: Gradual and mass gene extinction events in three lineages of obligate symbiotic bacterial pathogens
    • Dagan T, Blekhman R, Graur D: The "domino theory' of gene death: Gradual and mass gene extinction events in three lineages of obligate symbiotic bacterial pathogens. Mol Biol Evol 2006, 23:310-316.
    • (2006) Mol Biol Evol , vol.23 , pp. 310-316
    • Dagan, T.1    Blekhman, R.2    Graur, D.3
  • 43
    • 0031829758 scopus 로고    scopus 로고
    • Inferring pattern and process: Maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis
    • Galtier N, Gouy M: Inferring pattern and process: Maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis. Mol Biol Evol 1998, 15:871-879.
    • (1998) Mol Biol Evol , vol.15 , pp. 871-879
    • Galtier, N.1    Gouy, M.2
  • 44
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • Castresana J: Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 2000, 17:540-552.
    • (2000) Mol Biol Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 45
    • 0042027842 scopus 로고    scopus 로고
    • Phylogenetics and the cohesion of bacterial genomes
    • Daubin V, Moran NA, Ochman H: Phylogenetics and the cohesion of bacterial genomes. Science 2003, 301:829-832.
    • (2003) Science , vol.301 , pp. 829-832
    • Daubin, V.1    Moran, N.A.2    Ochman, H.3
  • 46
    • 0023650543 scopus 로고
    • The codon Adaptation Index-a measure of directional synonymous codon usage bias, and its potential applications
    • Sharp PM, Li WH: The codon Adaptation Index-a measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res 1987, 15:1281-1295.
    • (1987) Nucleic Acids Res , vol.15 , pp. 1281-1295
    • Sharp, P.M.1    Li, W.H.2
  • 47
    • 0033816775 scopus 로고    scopus 로고
    • Predicted highly expressed genes of diverse prokaryotic genomes
    • Karlin S, Mrazek J: Predicted highly expressed genes of diverse prokaryotic genomes. J Bacteriol 2000, 182:5238-5250.
    • (2000) J Bacteriol , vol.182 , pp. 5238-5250
    • Karlin, S.1    Mrazek, J.2
  • 48
    • 33747407098 scopus 로고    scopus 로고
    • CodonW [http://sourceforge.net/projects/codonw/]
  • 49
    • 0027403961 scopus 로고
    • Unbiased estimation of the rates of synonymous and nonsynonymous substitution
    • Li WH: Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J Mol Evol 1993, 36:96-99.
    • (1993) J Mol Evol , vol.36 , pp. 96-99
    • Li, W.H.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.