메뉴 건너뛰기




Volumn 12, Issue 12, 2014, Pages 841-850

Reductive genome evolution at both ends of the bacterial population size spectrum

Author keywords

[No Author keywords available]

Indexed keywords

DNA; PROTEIN;

EID: 84911807786     PISSN: 17401526     EISSN: 17401534     Source Type: Journal    
DOI: 10.1038/nrmicro3331     Document Type: Review
Times cited : (117)

References (101)
  • 1
    • 0346432464 scopus 로고    scopus 로고
    • Genome diversity in microbial eukaryotes
    • McGrath, C. L. & Katz, L. A. Genome diversity in microbial eukaryotes. Trends Ecol. Evol. 19, 32-38 (2004).
    • (2004) Trends Ecol. Evol. , vol.19 , pp. 32-38
    • McGrath, C.L.1    Katz, L.A.2
  • 3
    • 84875847924 scopus 로고    scopus 로고
    • Is junk DNA bunk? A critique of ENCODE
    • Doolittle, W. F. Is junk DNA bunk? A critique of ENCODE. Proc. Natl Acad. Sci. USA 110, 5294-5300 (2013).
    • (2013) Proc. Natl Acad. Sci. USA , vol.110 , pp. 5294-5300
    • Doolittle, W.F.1
  • 4
    • 23844446418 scopus 로고    scopus 로고
    • Genome streamlining in a cosmopolitan oceanic bacterium
    • Giovannoni, S. J., et al. Genome streamlining in a cosmopolitan oceanic bacterium. Science 309, 1242-1245 (2005).
    • (2005) Science , vol.309 , pp. 1242-1245
    • Giovannoni, S.J.1
  • 5
    • 58449125407 scopus 로고    scopus 로고
    • Genomics and evolution of heritable bacterial symbionts
    • Moran, N. A., McCutcheon, J. P. & Nakabachi, A. Genomics and evolution of heritable bacterial symbionts. Annu. Rev. Genet. 42, 165-190 (2008).
    • (2008) Annu. Rev. Genet. , vol.42 , pp. 165-190
    • Moran, N.A.1    McCutcheon, J.P.2    Nakabachi, A.3
  • 6
    • 0037457901 scopus 로고    scopus 로고
    • Reductive genome evolution in Buchnera aphidicola
    • Van Ham, R. C., et al. Reductive genome evolution in Buchnera aphidicola. Proc. Natl Acad. Sci. USA 100, 581-586 (2003).
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 581-586
    • Van Ham, R.C.1
  • 7
    • 60349093708 scopus 로고    scopus 로고
    • Effective population size and patterns of molecular evolution and variation
    • Charlesworth, B. Effective population size and patterns of molecular evolution and variation. Nature Rev. Genet. 10, 195-205 (2009).
    • (2009) Nature Rev. Genet. , vol.10 , pp. 195-205
    • Charlesworth, B.1
  • 8
    • 0345306751 scopus 로고    scopus 로고
    • The origins of genome complexity
    • Lynch, M. & Conery, J. S. The origins of genome complexity. Science 302, 1401-1404 (2003).
    • (2003) Science , vol.302 , pp. 1401-1404
    • Lynch, M.1    Conery, J.S.2
  • 9
    • 30744475434 scopus 로고    scopus 로고
    • The origins of eukaryotic gene structure
    • Lynch, M. The origins of eukaryotic gene structure. Mol. Biol. Evol. 23, 450-468 (2006).
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 450-468
    • Lynch, M.1
  • 10
    • 79959819623 scopus 로고    scopus 로고
    • Statistical inference on the mechanisms of genome evolution
    • Lynch, M. Statistical inference on the mechanisms of genome evolution. PLoS Genet. 7, e1001389 (2011).
    • (2011) PLoS Genet. , vol.7 , pp. e1001389
    • Lynch, M.1
  • 11
    • 84862839039 scopus 로고    scopus 로고
    • The evolution of multimeric protein assemblages
    • Lynch, M. The evolution of multimeric protein assemblages. Mol. Biol. Evol. 29, 1353-1366 (2012).
    • (2012) Mol. Biol. Evol. , vol.29 , pp. 1353-1366
    • Lynch, M.1
  • 12
    • 77952860119 scopus 로고    scopus 로고
    • The rate of establishment of complex adaptations
    • Lynch, M. & Abegg, A. The rate of establishment of complex adaptations. Mol. Biol. Evol. 27, 1404-1414 (2010).
    • (2010) Mol. Biol. Evol. , vol.27 , pp. 1404-1414
    • Lynch, M.1    Abegg, A.2
  • 13
    • 4344685561 scopus 로고    scopus 로고
    • A non-adaptationist perspective on evolution of genomic complexity or the continued dethroning of man
    • Koonin, E. V. A non-adaptationist perspective on evolution of genomic complexity or the continued dethroning of man. Cell Cycle 3, 280-285 (2004).
    • (2004) Cell Cycle , vol.3 , pp. 280-285
    • Koonin, E.V.1
  • 15
    • 77957326306 scopus 로고    scopus 로고
    • Did genetic drift drive increases in genome complexity?
    • Whitney, K. D. & Garland, T. Did genetic drift drive increases in genome complexity? PLoS Genet. 6, e1001080 (2010).
    • (2010) PLoS Genet. , vol.6 , pp. e1001080
    • Whitney, K.D.1    Garland, T.2
  • 16
    • 80052268544 scopus 로고    scopus 로고
    • Nonadaptive evolution of mitochondrial genome size
    • Boussau, B., Brown, J. M. & Fujita, M. K. Nonadaptive evolution of mitochondrial genome size. Evolution 65, 2706-2711 (2011).
    • (2011) Evolution , vol.65 , pp. 2706-2711
    • Boussau, B.1    Brown, J.M.2    Fujita, M.K.3
  • 17
    • 16544369474 scopus 로고    scopus 로고
    • Comment on the origins of genome complexity
    • Daubin, V. & Moran, N. A. Comment on The origins of genome complexity. Science 306, 978-978 (2004).
    • (2004) Science , vol.306 , pp. 978-978
    • Daubin, V.1    Moran, N.A.2
  • 18
    • 0036690426 scopus 로고    scopus 로고
    • Estimating population size and transmission bottlenecks in maternally transmitted endosymbiotic bacteria
    • Mira, A. & Moran, N. A. Estimating population size and transmission bottlenecks in maternally transmitted endosymbiotic bacteria. Microb. Ecol. 44, 137-143 (2002).
    • (2002) Microb. Ecol. , vol.44 , pp. 137-143
    • Mira, A.1    Moran, N.A.2
  • 19
    • 77953809752 scopus 로고    scopus 로고
    • Evolutionary microbial genomics: Insights into bacterial host adaptation
    • Toft, C. & Andersson, S. G. E. Evolutionary microbial genomics: insights into bacterial host adaptation. Nature Rev. Genet. 11, 465-475 (2010).
    • (2010) Nature Rev. Genet. , vol.11 , pp. 465-475
    • Toft, C.1    Andersson, S.G.E.2
  • 20
    • 0032127258 scopus 로고    scopus 로고
    • Reductive evolution of resident genomes
    • Andersson, S. G. & Kurland, C. G. Reductive evolution of resident genomes. Trends Microbiol. 6, 263-268 (1998).
    • (1998) Trends Microbiol. , vol.6 , pp. 263-268
    • Andersson, S.G.1    Kurland, C.G.2
  • 21
    • 83855165692 scopus 로고    scopus 로고
    • Extreme genome reduction in symbiotic bacteria
    • McCutcheon, J. P. & Moran, N. A. Extreme genome reduction in symbiotic bacteria. Nature Rev. Microbiol. 10, 13-26 (2012).
    • (2012) Nature Rev. Microbiol. , vol.10 , pp. 13-26
    • McCutcheon, J.P.1    Moran, N.A.2
  • 22
    • 0032840799 scopus 로고    scopus 로고
    • Genome degradation is an ongoing process in Rickettsia
    • Andersson, J. O. & Andersson, S. G. Genome degradation is an ongoing process in Rickettsia. Mol. Biol. Evol. 16, 1178-1191 (1999).
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1178-1191
    • Andersson, J.O.1    Andersson, S.G.2
  • 24
    • 33645214213 scopus 로고    scopus 로고
    • Mutation pressure and the evolution of organelle genomic architecture
    • Lynch, M., Koskella, B. & Schaack, S. Mutation pressure and the evolution of organelle genomic architecture. Science 311, 1727-1730 (2006).
    • (2006) Science , vol.311 , pp. 1727-1730
    • Lynch, M.1    Koskella, B.2    Schaack, S.3
  • 25
    • 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 407, 81-86 (2000).
    • (2000) Nature , vol.407 , pp. 81-86
    • Shigenobu, S.1    Watanabe, H.2    Hattori, M.3    Sakaki, Y.4    Ishikawa, H.5
  • 26
    • 68149175229 scopus 로고    scopus 로고
    • The consequences of genetic drift for bacterial genome complexity
    • Kuo, C.-H., Moran, N. A. & Ochman, H. The consequences of genetic drift for bacterial genome complexity. Genome Res. 19, 1450-1454 (2009).
    • (2009) Genome Res. , vol.19 , pp. 1450-1454
    • Kuo, C.-H.1    Moran, N.A.2    Ochman, H.3
  • 27
    • 84885934108 scopus 로고    scopus 로고
    • Genomic taxonomy of the genus Prochlorococcus
    • Thompson, C. C., et al. Genomic taxonomy of the genus Prochlorococcus. Microb. Ecol. 66, 752-762 (2013).
    • (2013) Microb. Ecol. , vol.66 , pp. 752-762
    • Thompson, C.C.1
  • 28
    • 84862195254 scopus 로고    scopus 로고
    • Prochlorococcus: Advantages and limits of minimalism
    • Partensky, F. & Garczarek, L. Prochlorococcus: advantages and limits of minimalism. Annu. Rev. Mar. Sci. 2, 305-331 (2010).
    • (2010) Annu. Rev. Mar. Sci. , vol.2 , pp. 305-331
    • Partensky, F.1    Garczarek, L.2
  • 29
    • 84904997234 scopus 로고    scopus 로고
    • Implications of streamlining theory for microbial ecology
    • Giovannoni, S. J., Cameron Thrash, J. & Temperton, B. Implications of streamlining theory for microbial ecology. ISME J. 8, 1553-1565 (2014).
    • (2014) ISME J. , vol.8 , pp. 1553-1565
    • Giovannoni, S.J.1    Cameron Thrash, J.2    Temperton, B.3
  • 30
    • 58449126084 scopus 로고    scopus 로고
    • The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria
    • Moran, N. A., McLaughlin, H. J. & Sorek, R. The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria. Science 323, 379-382 (2009).
    • (2009) Science , vol.323 , pp. 379-382
    • Moran, N.A.1    McLaughlin, H.J.2    Sorek, R.3
  • 31
    • 0029866448 scopus 로고    scopus 로고
    • Accelerated evolution and Mullers rachet in endosymbiotic bacteria
    • Moran, N. A. Accelerated evolution and Mullers rachet in endosymbiotic bacteria. Proc. Natl Acad. Sci. USA 93, 2873-2878 (1996).
    • (1996) Proc. Natl Acad. Sci. USA , vol.93 , pp. 2873-2878
    • Moran, N.A.1
  • 32
    • 33645232361 scopus 로고    scopus 로고
    • Genomic islands and the ecology and evolution of Prochlorococcus
    • Coleman, M. L., et al. Genomic islands and the ecology and evolution of Prochlorococcus. Science 311, 1768-1770 (2006).
    • (2006) Science , vol.311 , pp. 1768-1770
    • Coleman, M.L.1
  • 33
    • 0035479142 scopus 로고    scopus 로고
    • Deletional bias and the evolution of bacterial genomes
    • Mira, A., Ochman, H. & Moran, N. A. Deletional bias and the evolution of bacterial genomes. Trends Genet. 17, 589-596 (2001).
    • (2001) Trends Genet. , vol.17 , pp. 589-596
    • Mira, A.1    Ochman, H.2    Moran, N.A.3
  • 34
    • 70849114722 scopus 로고    scopus 로고
    • Deletional bias across the three domains of life
    • Kuo, C.-H. & Ochman, H. Deletional bias across the three domains of life. Genome Biol. Evol. 1, 145-152 (2009).
    • (2009) Genome Biol. Evol. , vol.1 , pp. 145-152
    • Kuo, C.-H.1    Ochman, H.2
  • 35
    • 33750009568 scopus 로고    scopus 로고
    • A small microbial genome: The end of a long symbiotic relationship?
    • Perez-Brocal, V., et al. A small microbial genome: the end of a long symbiotic relationship? Science 314, 312-313 (2006).
    • (2006) Science , vol.314 , pp. 312-313
    • Perez-Brocal, V.1
  • 36
    • 0036847064 scopus 로고    scopus 로고
    • Genome evolution in bacterial endosymbionts of insects
    • Wernegreen, J. J. Genome evolution in bacterial endosymbionts of insects. Nature Rev. Genet. 3, 850-861 (2002).
    • (2002) Nature Rev. Genet. , vol.3 , pp. 850-861
    • Wernegreen, J.J.1
  • 37
    • 0037189373 scopus 로고    scopus 로고
    • 50 million years of genomic stasis in endosymbiotic bacteria
    • Tamas, I., et al. 50 million years of genomic stasis in endosymbiotic bacteria. Science 296, 2376-2379 (2002).
    • (2002) Science , vol.296 , pp. 2376-2379
    • Tamas, I.1
  • 38
    • 0041386044 scopus 로고    scopus 로고
    • Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome
    • Dufresne, A., et al. Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc. Natl Acad. Sci. USA 100, 10020-10025 (2003).
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 10020-10025
    • Dufresne, A.1
  • 39
    • 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. 6, 1-10 (2005).
    • (2005) Genome Biol. , vol.6 , pp. 1-10
    • Dufresne, A.1    Garczarek, L.2    Partensky, F.3
  • 40
    • 0042878464 scopus 로고    scopus 로고
    • Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation
    • Rocap, G., et al. Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424, 1042-1047 (2003).
    • (2003) Nature , vol.424 , pp. 1042-1047
    • Rocap, G.1
  • 41
    • 77949441084 scopus 로고    scopus 로고
    • Distinct ecotype-specific genome and proteome signatures in the marine cyanobacteria Prochlorococcus
    • Paul, S., Dutta, A., Bag, S. K., Das, S. & Dutta, C. Distinct, ecotype-specific genome and proteome signatures in the marine cyanobacteria Prochlorococcus. BMC Genomics 11, 103 (2010).
    • (2010) BMC Genomics , vol.11 , pp. 103
    • Paul, S.1    Dutta, A.2    Bag, S.K.3    Das, S.4    Dutta, C.5
  • 42
    • 0041375471 scopus 로고    scopus 로고
    • Cyanophages infecting the oceanic cyanobacterium Prochlorococcus
    • Sullivan, M. B., Waterbury, J. B. & Chisholm, S. W. Cyanophages infecting the oceanic cyanobacterium Prochlorococcus. Nature 424, 1047-1051 (2003).
    • (2003) Nature , vol.424 , pp. 1047-1051
    • Sullivan, M.B.1    Waterbury, J.B.2    Chisholm, S.W.3
  • 43
    • 21344461027 scopus 로고    scopus 로고
    • Three Prochlorococcus cyanophage genomes: Signature features and ecological interpretations
    • Sullivan, M. B., Coleman, M. L., Weigele, P., Rohwer, F. & Chisholm, S. W. Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations. PLoS Biol. 3, e144 (2005).
    • (2005) PLoS Biol. , vol.3 , pp. e144
    • Sullivan, M.B.1    Coleman, M.L.2    Weigele, P.3    Rohwer, F.4    Chisholm, S.W.5
  • 44
    • 37749041470 scopus 로고    scopus 로고
    • Patterns and implications of gene gain and loss in the evolution of Prochlorococcus
    • Kettler, G. C., et al. Patterns and implications of gene gain and loss in the evolution of Prochlorococcus. Plos Genet. 3, e231 (2007).
    • (2007) Plos Genet. , vol.3 , pp. e231
    • Kettler, G.C.1
  • 45
    • 80053189514 scopus 로고    scopus 로고
    • Genome reduction by deletion of paralogs in the marine cyanobacterium Prochlorococcus
    • Luo, H., Friedman, R., Tang, J. & Hughes, A. L. Genome reduction by deletion of paralogs in the marine cyanobacterium Prochlorococcus. Mol. Biol. Evol. 28, 2751-2760 (2011).
    • (2011) Mol. Biol. Evol. , vol.28 , pp. 2751-2760
    • Luo, H.1    Friedman, R.2    Tang, J.3    Hughes, A.L.4
  • 46
    • 0032731436 scopus 로고    scopus 로고
    • Sequence evolution in bacterial endosymbionts having extreme base compositions
    • Clark, M. A., Moran, N. A. & Baumann, P. Sequence evolution in bacterial endosymbionts having extreme base compositions. Mol. Biol. Evol. 16, 1586-1598 (1999).
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1586-1598
    • Clark, M.A.1    Moran, N.A.2    Baumann, P.3
  • 47
    • 57749176901 scopus 로고    scopus 로고
    • Environmental sequence data from the Sargasso Sea reveal that the characteristics of genome reduction in Prochlorococcus are not a harbinger for an escalation in genetic drift
    • Hu, J. & Blanchard, J. L. Environmental sequence data from the Sargasso Sea reveal that the characteristics of genome reduction in Prochlorococcus are not a harbinger for an escalation in genetic drift. Mol. Biol. Evol. 26, 5-13 (2009).
    • (2009) Mol. Biol. Evol. , vol.26 , pp. 5-13
    • Hu, J.1    Blanchard, J.L.2
  • 48
    • 84897045188 scopus 로고    scopus 로고
    • Strong genome-wide selection early in the evolution of Prochlorococcus resulted in a reduced genome through the loss of a large number of small effect genes
    • Sun, Z. & Blanchard, J. L. Strong genome-wide selection early in the evolution of Prochlorococcus resulted in a reduced genome through the loss of a large number of small effect genes. PLoS ONE 9, e88837 (2014).
    • (2014) PLoS ONE , vol.9 , pp. e88837
    • Sun, Z.1    Blanchard, J.L.2
  • 49
    • 0032948901 scopus 로고    scopus 로고
    • Evidence for genetic drift in endosymbionts (Buchnera): Analyses of protein-coding genes
    • Wernegreen, J. J. & Moran, N. A. Evidence for genetic drift in endosymbionts (Buchnera): analyses of protein-coding genes. Mol. Biol. Evol. 16, 83-97 (1999).
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 83-97
    • Wernegreen, J.J.1    Moran, N.A.2
  • 51
    • 50549201557 scopus 로고
    • The relation of recombination to mutational advance
    • Muller, H. J. The relation of recombination to mutational advance. Mutat. Res. 1, 2-9 (1964).
    • (1964) Mutat. Res. , vol.1 , pp. 2-9
    • Muller, H.J.1
  • 52
    • 80053458871 scopus 로고    scopus 로고
    • Sequence conservation and functional constraint on intergenic spacers in reduced genomes of the obligate symbiont Buchnera
    • Degnan, P. H., Ochman, H. & Moran, N. A. Sequence conservation and functional constraint on intergenic spacers in reduced genomes of the obligate symbiont Buchnera. PLoS Genet. 7, e1002252 (2011).
    • (2011) PLoS Genet. , vol.7 , pp. e1002252
    • Degnan, P.H.1    Ochman, H.2    Moran, N.A.3
  • 53
    • 84879060146 scopus 로고    scopus 로고
    • Present and future global distributions of the marine Cyanobacteria Prochlorococcus and Synechococcus
    • Flombaum, P., et al. Present and future global distributions of the marine Cyanobacteria Prochlorococcus and Synechococcus. Proc. Natl Acad. Sci. USA 110, 9824-9829 (2013).
    • (2013) Proc. Natl Acad. Sci. USA , vol.110 , pp. 9824-9829
    • Flombaum, P.1
  • 54
    • 84864083035 scopus 로고    scopus 로고
    • The infinitely many genes model for the distributed genome of bacteria
    • Baumdicker, F., Hess, W. R. & Pfaffelhuber, P. The infinitely many genes model for the distributed genome of bacteria. Genome Biol. Evol. 4, 443-456 (2012).
    • (2012) Genome Biol. Evol. , vol.4 , pp. 443-456
    • Baumdicker, F.1    Hess, W.R.2    Pfaffelhuber, P.3
  • 55
    • 33745624539 scopus 로고    scopus 로고
    • The rate of adaptive evolution in enteric bacteria
    • Charlesworth, J. & Eyre-Walker, A. The rate of adaptive evolution in enteric bacteria. Mol. Biol. Evol. 23, 1348-1356 (2006).
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 1348-1356
    • Charlesworth, J.1    Eyre-Walker, A.2
  • 56
    • 84899559579 scopus 로고    scopus 로고
    • Single-cell genomics reveals hundreds of coexisting subpopulations in wild Prochlorococcus
    • Kashtan, N., et al. Single-cell genomics reveals hundreds of coexisting subpopulations in wild Prochlorococcus. Science 344, 416-420 (2014).
    • (2014) Science , vol.344 , pp. 416-420
    • Kashtan, N.1
  • 57
    • 77149147828 scopus 로고    scopus 로고
    • Intertwined evolutionary histories of marine Synechococcus and Prochlorococcus marinus
    • Zhaxybayeva, O., Doolittle, W. F., Papke, R. T. & Gogarten, J. P. Intertwined evolutionary histories of marine Synechococcus and Prochlorococcus marinus. Genome Biol. Evol. 1, 325-339 (2009).
    • (2009) Genome Biol. Evol. , vol.1 , pp. 325-339
    • Zhaxybayeva, O.1    Doolittle, W.F.2    Papke, R.T.3    Gogarten, J.P.4
  • 58
    • 50249107979 scopus 로고    scopus 로고
    • Mutation rate and genome reduction in endosymbiotic and free-living bacteria
    • Marais, G. A. B., Calteau, A. & Tenaillon, O. Mutation rate and genome reduction in endosymbiotic and free-living bacteria. Genetica 134, 205-210 (2008).
    • (2008) Genetica , vol.134 , pp. 205-210
    • Marais, G.A.B.1    Calteau, A.2    Tenaillon, O.3
  • 59
    • 84855864414 scopus 로고    scopus 로고
    • Independent genome reduction and phylogenetic reclassification of the oceanic SAR11 clade
    • Viklund, J., Ettema, T. J. G. & Andersson, S. G. E. Independent genome reduction and phylogenetic reclassification of the oceanic SAR11 clade. Mol. Biol. Evol. 29, 599-615 (2012).
    • (2012) Mol. Biol. Evol. , vol.29 , pp. 599-615
    • Viklund, J.1    Ettema, T.J.G.2    Andersson, S.G.E.3
  • 60
    • 0036606915 scopus 로고    scopus 로고
    • Base composition bias might result from competition for metabolic resources
    • Rocha, E. P. & Danchin, A. Base composition bias might result from competition for metabolic resources. Trends Genet. 18, 291-294 (2002).
    • (2002) Trends Genet. , vol.18 , pp. 291-294
    • Rocha, E.P.1    Danchin, A.2
  • 61
    • 78649868522 scopus 로고    scopus 로고
    • Ecosystem-specific selection pressures revealed through comparative population genomics
    • Coleman, M. L. & Chisholm, S. W. Ecosystem-specific selection pressures revealed through comparative population genomics. Proc. Natl Acad. Sci. USA 107, 18634-18639 (2010).
    • (2010) Proc. Natl Acad. Sci. USA , vol.107 , pp. 18634-18639
    • Coleman, M.L.1    Chisholm, S.W.2
  • 62
    • 2942525371 scopus 로고    scopus 로고
    • Effects of high light on transcripts of stress-associated genes for the cyanobacteria Synechocystis sp PCC 6803 and Prochlorococcus MED4 and MIT9313
    • Mary, I., Tu, C.-J., Grossman, A. & Vaulot, D. Effects of high light on transcripts of stress-associated genes for the cyanobacteria Synechocystis sp. PCC 6803 and Prochlorococcus MED4 and MIT9313. Microbiology 150, 1271-1281 (2004).
    • (2004) Microbiology , vol.150 , pp. 1271-1281
    • Mary, I.1    Tu, C.-J.2    Grossman, A.3    Vaulot, D.4
  • 63
    • 84860511582 scopus 로고    scopus 로고
    • The Black Queen hypo thesis: Evolution of dependencies through adaptive gene loss
    • Morris, J. J., Lenski, R. E. & Zinser, E. R. The Black Queen hypothesis: evolution of dependencies through adaptive gene loss. mBio 3, e00036-12 (2012).
    • (2012) MBio , vol.3 , pp. e00036-12
    • Morris, J.J.1    Lenski, R.E.2    Zinser, E.R.3
  • 64
    • 0030620272 scopus 로고    scopus 로고
    • Role of mutator alleles in adaptive evolution
    • Taddei, F., et al. Role of mutator alleles in adaptive evolution. Nature 387, 700-702 (1997).
    • (1997) Nature , vol.387 , pp. 700-702
    • Taddei, F.1
  • 65
    • 0032979190 scopus 로고    scopus 로고
    • Mutators, population size, adaptive landscape and the adaptation of asexual populations of bacteria
    • Tenaillon, O., Toupance, B., Nagard, H. L., Taddei, F. & Godelle, B. Mutators, population size, adaptive landscape and the adaptation of asexual populations of bacteria. Genetics 152, 485-493 (1999).
    • (1999) Genetics , vol.152 , pp. 485-493
    • Tenaillon, O.1    Toupance, B.2    Nagard, H.L.3    Taddei, F.4    Godelle, B.5
  • 66
    • 0034703744 scopus 로고    scopus 로고
    • Evolutionary implications of the frequent horizontal transfer of mismatch repair genes
    • Denamur, E., et al. Evolutionary implications of the frequent horizontal transfer of mismatch repair genes. Cell 103, 711-721 (2000).
    • (2000) Cell , vol.103 , pp. 711-721
    • Denamur, E.1
  • 67
    • 84859838556 scopus 로고    scopus 로고
    • The spontaneous mutation frequencies of Prochlorococcus strains are commensurate with those of other bacteria
    • Osburne, M. S., Holmbeck, B. M., Coe, A. & Chisholm, S. W. The spontaneous mutation frequencies of Prochlorococcus strains are commensurate with those of other bacteria. Environ. Microbiol. Rep. 3, 744-749 (2011).
    • (2011) Environ. Microbiol. Rep. , vol.3 , pp. 744-749
    • Osburne, M.S.1    Holmbeck, B.M.2    Coe, A.3    Chisholm, S.W.4
  • 68
    • 84885180119 scopus 로고    scopus 로고
    • Confounders of mutation-rate estimators: Selection and phenotypic lag in Thermus thermophilus
    • Kissling, G. E., Grogan, D. W. & Drake, J. W. Confounders of mutation-rate estimators: selection and phenotypic lag in Thermus thermophilus. Mut. Res. Fundam. Mol. Mech. Mutag. 749, 16-20 (2013).
    • (2013) Mut. Res. Fundam. Mol. Mech. Mutag. , vol.749 , pp. 16-20
    • Kissling, G.E.1    Grogan, D.W.2    Drake, J.W.3
  • 70
    • 83655167105 scopus 로고    scopus 로고
    • Codon usage patterns and adaptive evolution of marine unicellular cyanobacteria Synechococcus and Prochlorococcus
    • Yu, T., et al. Codon usage patterns and adaptive evolution of marine unicellular cyanobacteria Synechococcus and Prochlorococcus. Mol. Phylogenet. Evol. 62, 206-213 (2012).
    • (2012) Mol. Phylogenet. Evol. , vol.62 , pp. 206-213
    • Yu, T.1
  • 71
    • 84870507657 scopus 로고    scopus 로고
    • Altered tRNA characteristics and 3? Maturation in bacterial symbionts with reduced genomes
    • Hansen, A. K. & Moran, N. A. Altered tRNA characteristics and 3? maturation in bacterial symbionts with reduced genomes. Nucleic Acids Res. 40, 7870-7884 (2012).
    • (2012) Nucleic Acids Res. , vol.40 , pp. 7870-7884
    • Hansen, A.K.1    Moran, N.A.2
  • 72
    • 0036899934 scopus 로고    scopus 로고
    • Extremely low levels of genetic polymorphism in endosymbionts (Buchnera) of aphids (Pemphigus)
    • Abbot, P. & Moran, N. A. Extremely low levels of genetic polymorphism in endosymbionts (Buchnera) of aphids (Pemphigus). Mol. Ecol. 11, 2649-2660 (2002).
    • (2002) Mol. Ecol. , vol.11 , pp. 2649-2660
    • Abbot, P.1    Moran, N.A.2
  • 73
    • 33846933977 scopus 로고    scopus 로고
    • Comparative molecular population genetics of phycoerythrin locus in Prochlorococcus
    • Zhao, F. & Qin, S. Comparative molecular population genetics of phycoerythrin locus in Prochlorococcus. Genetica 129, 291-299 (2007).
    • (2007) Genetica , vol.129 , pp. 291-299
    • Zhao, F.1    Qin, S.2
  • 74
    • 0030060509 scopus 로고    scopus 로고
    • High degree of genetic variation in Prochlorococcus (Prochlorophyta) revealed by RFLP analysis
    • Scanlan, D. J., Hess, W. R., Partensky, F., Newman, J. & Vaulot, D. High degree of genetic variation in Prochlorococcus (Prochlorophyta) revealed by RFLP analysis. Eur. J. Phycol. 31, 1-9 (1996).
    • (1996) Eur. J. Phycol. , vol.31 , pp. 1-9
    • Scanlan, D.J.1    Hess, W.R.2    Partensky, F.3    Newman, J.4    Vaulot, D.5
  • 75
    • 37649011282 scopus 로고    scopus 로고
    • Application of a novel rpoC1-RFLP approach reveals that marine Prochlorococcus populations in the atlantic gyres are composed of greater microdiversity than previously described
    • Jameson, E., Joint, I., Mann, N. H. & Muhling, M. Application of a novel rpoC1-RFLP approach reveals that marine Prochlorococcus populations in the atlantic gyres are composed of greater microdiversity than previously described. Microb. Ecol. 55, 141-151 (2008).
    • (2008) Microb. Ecol. , vol.55 , pp. 141-151
    • Jameson, E.1    Joint, I.2    Mann, N.H.3    Muhling, M.4
  • 76
    • 0033009854 scopus 로고    scopus 로고
    • Prochlorococcus a marine photosynthetic prokaryote of global significance
    • Partensky, F., Hess, W. R. & Vaulot, D. Prochlorococcus, a marine photosynthetic prokaryote of global significance. Microbiol. Mol. Biol. Rev. 63, 106-127 (1999).
    • (1999) Microbiol. Mol. Biol. Rev. , vol.63 , pp. 106-127
    • Partensky, F.1    Hess, W.R.2    Vaulot, D.3
  • 77
    • 83655191007 scopus 로고    scopus 로고
    • The rare bacterial biosphere
    • Pedros-Alio, C. The rare bacterial biosphere. Annu. Rev. Mar. Sci. 4, 449-466 (2012).
    • (2012) Annu. Rev. Mar. Sci. , vol.4 , pp. 449-466
    • Pedros-Alio, C.1
  • 78
    • 0015290672 scopus 로고
    • Fixation probability of a mutant influenced by random fluctuation of selection intensity
    • Ohta, T. Fixation probability of a mutant influenced by random fluctuation of selection intensity. Genet. Res. 19, 33-38 (1972).
    • (1972) Genet. Res. , vol.19 , pp. 33-38
    • Ohta, T.1
  • 79
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4: Phylogenetic analysis by maximum likelihood
    • Yang, Z. PAML 4: phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 24, 1586-1591 (2007).
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 1586-1591
    • Yang, Z.1
  • 80
    • 53249100490 scopus 로고    scopus 로고
    • Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs
    • Dutheil, J. & Boussau, B. Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs. BMC Evol. Biol. 8, 255 (2008).
    • (2008) BMC Evol. Biol. , vol.8 , pp. 255
    • Dutheil, J.1    Boussau, B.2
  • 81
    • 84893676156 scopus 로고    scopus 로고
    • Bio++: Efficient extensible libraries and tools for computational molecular evolution
    • Gueguen, L., et al. Bio++: efficient extensible libraries and tools for computational molecular evolution. Mol. Biol. Evol. 30, 1745-1750 (2013).
    • (2013) Mol. Biol. Evol. , vol.30 , pp. 1745-1750
    • Gueguen, L.1
  • 82
    • 33845898825 scopus 로고    scopus 로고
    • Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila
    • Nielsen, R., DuMont, V. L. B., Hubisz, M. J. & Aquadro, C. F. Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila. Mol. Biol. Evol. 24, 228-235 (2007).
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 228-235
    • Nielsen, R.1    Dumont, V.L.B.2    Hubisz, M.J.3    Aquadro, C.F.4
  • 83
    • 0033804199 scopus 로고    scopus 로고
    • Accumulation of deleterious mutations in endosymbionts: Mullers ratchet with two levels of selection
    • Rispe, C. & Moran, N. A. Accumulation of deleterious mutations in endosymbionts: Mullers ratchet with two levels of selection. Am. Nat. 156, 425-441 (2000).
    • (2000) Am. Nat. , vol.156 , pp. 425-441
    • Rispe, C.1    Moran, N.A.2
  • 84
    • 34247495126 scopus 로고    scopus 로고
    • Mullers ratchet in symbiont populations
    • Pettersson, M. E. & Berg, O. G. Mullers ratchet in symbiont populations. Genetica 130, 199-211 (2007).
    • (2007) Genetica , vol.130 , pp. 199-211
    • Pettersson, M.E.1    Berg, O.G.2
  • 85
    • 39749201715 scopus 로고    scopus 로고
    • Population structure, levels of selection, and the evolution of intracellular symbionts
    • OFallon, B. Population structure, levels of selection, and the evolution of intracellular symbionts. Evolution 62, 361-373 (2008).
    • (2008) Evolution , vol.62 , pp. 361-373
    • Ofallon, B.1
  • 86
    • 0015133749 scopus 로고
    • Selforganization of matter and the evolution of biological macromolecules
    • Eigen, M. Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58, 465-523 (1971).
    • (1971) Naturwissenschaften , vol.58 , pp. 465-523
    • Eigen, M.1
  • 87
    • 33847251630 scopus 로고    scopus 로고
    • Error-threshold exists in fitness landscapes with lethal mutants
    • Takeuchi, N. & Hogeweg, P. Error-threshold exists in fitness landscapes with lethal mutants. BMC Evol. Biol. 7, 15 (2007).
    • (2007) BMC Evol. Biol. , vol.7 , pp. 15
    • Takeuchi, N.1    Hogeweg, P.2
  • 88
    • 84859906147 scopus 로고    scopus 로고
    • Evolution of variation in presence and absence of genes in bacterial pathways
    • Francis, A. R. & Tanaka, M. M. Evolution of variation in presence and absence of genes in bacterial pathways. BMC Evol. Biol. 12, 55 (2012).
    • (2012) BMC Evol. Biol. , vol.12 , pp. 55
    • Francis, A.R.1    Tanaka, M.M.2
  • 89
    • 78549244458 scopus 로고    scopus 로고
    • Eco-evolutionary dynamics, coding structure and the information threshold
    • De Boer, F. K. & Hogeweg, P. Eco-evolutionary dynamics, coding structure and the information threshold. BMC Evol. Biol. 10, 361 (2010).
    • (2010) BMC Evol. Biol. , vol.10 , pp. 361
    • De Boer, F.K.1    Hogeweg, P.2
  • 90
  • 91
    • 0032921497 scopus 로고    scopus 로고
    • Redundant gene functions and natural selection
    • Wagner, A. Redundant gene functions and natural selection. J. Evol. Biol. 12, 1-16 (1999).
    • (1999) J. Evol. Biol. , vol.12 , pp. 1-16
    • Wagner, A.1
  • 92
    • 84863208931 scopus 로고    scopus 로고
    • Virtual genomes in flux: An interplay of neutrality and adaptability explains genome expansion and streamlining
    • Cuypers, T. D. & Hogeweg, P. Virtual genomes in flux: an interplay of neutrality and adaptability explains genome expansion and streamlining. Genome Biol. Evol. 4, 212-229 (2012).
    • (2012) Genome Biol. Evol. , vol.4 , pp. 212-229
    • Cuypers, T.D.1    Hogeweg, P.2
  • 93
    • 33750344923 scopus 로고    scopus 로고
    • Streamlining and simplification of microbial genome architecture
    • Lynch, M. Streamlining and simplification of microbial genome architecture. Annu. Rev. Microbiol. 60, 327-349 (2006).
    • (2006) Annu. Rev. Microbiol. , vol.60 , pp. 327-349
    • Lynch, M.1
  • 94
    • 0031889272 scopus 로고    scopus 로고
    • Rapid diversification of marine picophytoplankton with dissimilar light-harvesting structures inferred from sequences of Prochlorococcus and Synechococcus (Cyanobacteria)
    • Urbach, E., Scanlan, D. J., Distel, D. L., Waterbury, J. B. & Chisholm, S. W. Rapid diversification of marine picophytoplankton with dissimilar light-harvesting structures inferred from sequences of Prochlorococcus and Synechococcus (Cyanobacteria). J. Mol. Evol. 46, 188-201 (1998).
    • (1998) J. Mol. Evol. , vol.46 , pp. 188-201
    • Urbach, E.1    Scanlan, D.J.2    Distel, D.L.3    Waterbury, J.B.4    Chisholm, S.W.5
  • 95
    • 77950806408 scopus 로고    scopus 로고
    • New algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0
    • Guindon, S., et al. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst. Biol. 59, 307-321 (2010).
    • (2010) Syst. Biol. , vol.59 , pp. 307-321
    • Guindon, S.1
  • 96
    • 67649115335 scopus 로고    scopus 로고
    • Databases of homologous gene families for comparative genomics
    • Penel, S., et al. Databases of homologous gene families for comparative genomics. BMC Bioinformatics 10, S3 (2009).
    • (2009) BMC Bioinformatics , vol.10 , pp. S3
    • Penel, S.1
  • 97
    • 23044471766 scopus 로고    scopus 로고
    • An algorithm for progressive multiple alignment of sequences with insertions
    • Loytynoja, A. & Goldman, N. An algorithm for progressive multiple alignment of sequences with insertions. Proc. Natl Acad. Sci. USA 102, 10557-10562 (2005).
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 10557-10562
    • Loytynoja, A.1    Goldman, N.2
  • 98
    • 10344237544 scopus 로고    scopus 로고
    • Streamlined regulation and gene loss as adaptive mechanisms in Prochlorococcus for optimized nitrogen utilization in oligotrophic environments
    • Garcia-Fernandez, J. M., de Marsac, N. T. & Diez, J. Streamlined regulation and gene loss as adaptive mechanisms in Prochlorococcus for optimized nitrogen utilization in oligotrophic environments. Microbiol. Mol. Biol. Rev. 68, 630-638 (2004).
    • (2004) Microbiol. Mol. Biol. Rev. , vol.68 , pp. 630-638
    • Garcia-Fernandez, J.M.1    De Marsac, N.T.2    Diez, J.3
  • 99
    • 0036791017 scopus 로고    scopus 로고
    • Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts
    • Itoh, T., Martin, W. & Nei, M. Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts. Proc. Natl Acad. Sci. USA 99, 12944-12948 (2002).
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 12944-12948
    • Itoh, T.1    Martin, W.2    Nei, M.3
  • 100
    • 79959842126 scopus 로고    scopus 로고
    • Genomic island variability facilitates Prochlorococcus-virus coexistence
    • Avrani, S., Wurtzel, O., Sharon, I., Sorek, R. & Lindell, D. Genomic island variability facilitates Prochlorococcus-virus coexistence. Nature 474, 604-608 (2011).
    • (2011) Nature , vol.474 , pp. 604-608
    • Avrani, S.1    Wurtzel, O.2    Sharon, I.3    Sorek, R.4    Lindell, D.5
  • 101
    • 66749151555 scopus 로고    scopus 로고
    • Ecological genomics of marine picocyanobacteria
    • Scanlan, D. J., et al. Ecological genomics of marine picocyanobacteria. Microbiol. Mol. Biol. Rev. 73, 249-299 (2009).
    • (2009) Microbiol. Mol. Biol. Rev. , vol.73 , pp. 249-299
    • Scanlan, D.J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.