-
1
-
-
3242884054
-
Fine-scale phylogenetic architecture of a complex bacterial community
-
Acinas S. G, Klepac-Ceraj V, Hunt D. E, Pharino C, Ceraj I, et al. (2004) Fine-scale phylogenetic architecture of a complex bacterial community. Nature 430: 551-554.
-
(2004)
Nature
, vol.430
, pp. 551-554
-
-
Acinas, S.G.1
Klepac-Ceraj, V.2
Hunt, D.E.3
Pharino, C.4
Ceraj, I.5
-
2
-
-
0036205618
-
Microheterogeneity in 16S ribosomal DNA-defined bacterial populations from a stratified planktonic environment is related to temporal changes and to ecological adaptations
-
Casamayor E. O, Pedros-Alio C, Muyzer G, Amann R, (2002) Microheterogeneity in 16S ribosomal DNA-defined bacterial populations from a stratified planktonic environment is related to temporal changes and to ecological adaptations. Appl Environ Microbiol 68: 1706-1714.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 1706-1714
-
-
Casamayor, E.O.1
Pedros-Alio, C.2
Muyzer, G.3
Amann, R.4
-
3
-
-
44449178480
-
Resource partitioning and sympatric differentiation among closely related bacterioplankton
-
Hunt D. E, David L. A, Gevers D, Preheim S. P, Alm E. J, et al. (2008) Resource partitioning and sympatric differentiation among closely related bacterioplankton. Science 320 (5879): 1081-1085.
-
(2008)
Science
, vol.320
, Issue.5879
, pp. 1081-1085
-
-
Hunt, D.E.1
David, L.A.2
Gevers, D.3
Preheim, S.P.4
Alm, E.J.5
-
4
-
-
27644597469
-
Adaptation and incipient sympatric speciation of Bacillus simplex under microclimatic contrast at "Evolution Canyons" I and II, Israel
-
Sikorski J, Nevo E, (2005) Adaptation and incipient sympatric speciation of Bacillus simplex under microclimatic contrast at "Evolution Canyons" I and II, Israel. Proc Natl Acad Sci U S A 102: 15924-15929.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 15924-15929
-
-
Sikorski, J.1
Nevo, E.2
-
5
-
-
77950023784
-
Evolutionary divergence and biogeography of sympatric niche-differentiated bacterial populations
-
Oakley B. B, Carbonero F, van der Gast C. J, Hawkins R. J, Purdy K. J, (2010) Evolutionary divergence and biogeography of sympatric niche-differentiated bacterial populations. ISME Journal 4: 488-497.
-
(2010)
ISME Journal
, vol.4
, pp. 488-497
-
-
Oakley, B.B.1
Carbonero, F.2
van der Gast, C.J.3
Hawkins, R.J.4
Purdy, K.J.5
-
6
-
-
40649125049
-
Identifying the fundamental units of bacterial diversity: a paradigm shift to incorporate ecology into bacterial systematics
-
Koeppel A, Perry E. B, Sikorski J, Krizanc D, Warner A, et al. (2008) Identifying the fundamental units of bacterial diversity: a paradigm shift to incorporate ecology into bacterial systematics. Proc Natl Acad Sci U S A 105: 2504-2509.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 2504-2509
-
-
Koeppel, A.1
Perry, E.B.2
Sikorski, J.3
Krizanc, D.4
Warner, A.5
-
7
-
-
33846923050
-
Genome dynamics in a natural archaeal population
-
Allen E. E, Tyson G. W, Whitaker R. J, Detter J. C, Richardson P. M, et al. (2007) Genome dynamics in a natural archaeal population. Proc Natl Acad Sci U S A 104: 1883-1888.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 1883-1888
-
-
Allen, E.E.1
Tyson, G.W.2
Whitaker, R.J.3
Detter, J.C.4
Richardson, P.M.5
-
8
-
-
0033012306
-
Niche-partitioning of Prochlorococcus populations in a stratified water column in the eastern North Atlantic Ocean
-
West N. J, Scanlan D. J, (1999) Niche-partitioning of Prochlorococcus populations in a stratified water column in the eastern North Atlantic Ocean. Appl Environ Microbiol 65: 2585-2591.
-
(1999)
Appl Environ Microbiol
, vol.65
, pp. 2585-2591
-
-
West, N.J.1
Scanlan, D.J.2
-
9
-
-
83155185388
-
Fine-scale distribution patterns of synechococcus ecological diversity in microbial mats of Mushroom Spring, Yellowstone National Park
-
Becraft E. D, Cohan F. M, Kohl M, Jensen S. I, Ward D. M, (2011) Fine-scale distribution patterns of synechococcus ecological diversity in microbial mats of Mushroom Spring, Yellowstone National Park. Applied and Environmental Microbiology 77: 7689-7697.
-
(2011)
Applied and Environmental Microbiology
, vol.77
, pp. 7689-7697
-
-
Becraft, E.D.1
Cohan, F.M.2
Kohl, M.3
Jensen, S.I.4
Ward, D.M.5
-
10
-
-
43849089834
-
Microbial diversity and the genetic nature of microbial species
-
Achtman M, Wagner M, (2008) Microbial diversity and the genetic nature of microbial species. Nat Rev Micro 6: 431-440.
-
(2008)
Nat Rev Micro
, vol.6
, pp. 431-440
-
-
Achtman, M.1
Wagner, M.2
-
11
-
-
49649114608
-
Hybridization, ecological races and the nature of species: empirical evidence for the ease of speciation
-
Mallet J, (2008) Hybridization, ecological races and the nature of species: empirical evidence for the ease of speciation. Philos Trans R Soc Lond B Biol Sci 363: 2971-2986.
-
(2008)
Philos Trans R Soc Lond B Biol Sci
, vol.363
, pp. 2971-2986
-
-
Mallet, J.1
-
12
-
-
0000978195
-
Skepticism towards Santa Rosalia, or why are there so few kinds of animals?
-
Felsenstein J, (1981) Skepticism towards Santa Rosalia, or why are there so few kinds of animals? Evolution 35: 124-138.
-
(1981)
Evolution
, vol.35
, pp. 124-138
-
-
Felsenstein, J.1
-
13
-
-
55249124606
-
The origins of ecological diversity in prokaryotes
-
Cohan F. M, Koeppel A. F, (2008) The origins of ecological diversity in prokaryotes. Curr Biol 18: R1024-R1034.
-
(2008)
Curr Biol
, vol.18
-
-
Cohan, F.M.1
Koeppel, A.F.2
-
14
-
-
33751202973
-
Towards a conceptual and operational union of bacterial systematics, ecology, and evolution
-
Cohan F. M, (2006) Towards a conceptual and operational union of bacterial systematics, ecology, and evolution. Philos Trans R Soc Lond B Biol Sci 361: 1985-1996.
-
(2006)
Philos Trans R Soc Lond B Biol Sci
, vol.361
, pp. 1985-1996
-
-
Cohan, F.M.1
-
15
-
-
79960961566
-
Origins of bacterial diversity through horizontal genetic transfer and adaptation to new ecological niches
-
Wiedenbeck J, Cohan F. M, (2011) Origins of bacterial diversity through horizontal genetic transfer and adaptation to new ecological niches. FEMS Microbiol Rev 35: 957-976.
-
(2011)
FEMS Microbiol Rev
, vol.35
, pp. 957-976
-
-
Wiedenbeck, J.1
Cohan, F.M.2
-
16
-
-
79955559191
-
Genome sequencing of environmental Escherichia coli expands understanding of the ecology and speciation of the model bacterial species
-
Luo C, Walk S. T, Gordon D. M, Feldgarden M, Tiedje J. M, et al. (2011) Genome sequencing of environmental Escherichia coli expands understanding of the ecology and speciation of the model bacterial species. Proc Natl Acad Sci U S A 108: 7200-7205.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 7200-7205
-
-
Luo, C.1
Walk, S.T.2
Gordon, D.M.3
Feldgarden, M.4
Tiedje, J.M.5
-
17
-
-
33846625056
-
Recombination and the nature of bacterial speciation
-
Fraser C, Hanage W. P, Spratt B. G, (2007) Recombination and the nature of bacterial speciation. Science 315: 476-480.
-
(2007)
Science
, vol.315
, pp. 476-480
-
-
Fraser, C.1
Hanage, W.P.2
Spratt, B.G.3
-
18
-
-
33751207098
-
Mismatch induced speciation in Salmonella: model and data
-
Falush D, Torpdahl M, Didelot X, Conrad D. F, Wilson D. J, et al. (2006) Mismatch induced speciation in Salmonella: model and data. Philos Trans R Soc Lond B Biol Sci 361: 2045-2053.
-
(2006)
Philos Trans R Soc Lond B Biol Sci
, vol.361
, pp. 2045-2053
-
-
Falush, D.1
Torpdahl, M.2
Didelot, X.3
Conrad, D.F.4
Wilson, D.J.5
-
19
-
-
33751249041
-
Modelling bacterial speciation
-
Hanage W. P, Spratt B. G, Turner K. M, Fraser C, (2006) Modelling bacterial speciation. Philos Trans R Soc Lond B Biol Sci 361: 2039-2044.
-
(2006)
Philos Trans R Soc Lond B Biol Sci
, vol.361
, pp. 2039-2044
-
-
Hanage, W.P.1
Spratt, B.G.2
Turner, K.M.3
Fraser, C.4
-
20
-
-
0036874116
-
Sexual isolation and speciation in bacteria
-
Cohan F. M, (2002) Sexual isolation and speciation in bacteria. Genetica 116: 359-370.
-
(2002)
Genetica
, vol.116
, pp. 359-370
-
-
Cohan, F.M.1
-
21
-
-
0030924545
-
Molecular keys to speciation: DNA polymorphism and the control of genetic exchange in enterobacteria
-
Vulic M, Dionisio F, Taddei F, Radman M, (1997) Molecular keys to speciation: DNA polymorphism and the control of genetic exchange in enterobacteria. Proc Natl Acad Sci U S A 94: 9763-9767.
-
(1997)
Proc Natl Acad Sci U S A
, vol.94
, pp. 9763-9767
-
-
Vulic, M.1
Dionisio, F.2
Taddei, F.3
Radman, M.4
-
22
-
-
0035972889
-
Sexual isolation in bacteria
-
Majewski J, (2001) Sexual isolation in bacteria. FEMS Microbiol Lett 199: 161-169.
-
(2001)
FEMS Microbiol Lett
, vol.199
, pp. 161-169
-
-
Majewski, J.1
-
23
-
-
23944437942
-
Re-evaluating prokaryotic species
-
Gevers D, Cohan F. M, Lawrence J. G, Spratt B. G, Coenye T, et al. (2005) Re-evaluating prokaryotic species. Nat Rev Micro 3: 733-739.
-
(2005)
Nat Rev Micro
, vol.3
, pp. 733-739
-
-
Gevers, D.1
Cohan, F.M.2
Lawrence, J.G.3
Spratt, B.G.4
Coenye, T.5
-
24
-
-
22144486947
-
Fuzzy species among recombinogenic bacteria
-
Hanage W. P, Fraser C, Spratt B. G, (2005) Fuzzy species among recombinogenic bacteria. BMC Biol 3: 6.
-
(2005)
BMC Biol
, vol.3
, pp. 6
-
-
Hanage, W.P.1
Fraser, C.2
Spratt, B.G.3
-
25
-
-
27844577665
-
Recombination shapes the natural population structure of the hyperthermophilic archaeon Sulfolobus islandicus
-
Whitaker R. J, Grogan D. W, Taylor J. W, (2005) Recombination shapes the natural population structure of the hyperthermophilic archaeon Sulfolobus islandicus. Mol Biol Evol 22: 2354-2361.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2354-2361
-
-
Whitaker, R.J.1
Grogan, D.W.2
Taylor, J.W.3
-
26
-
-
77956094202
-
Widespread homologous recombination within and between Streptomyces species
-
Doroghazi J. R, Buckley D. H, (2010) Widespread homologous recombination within and between Streptomyces species. ISME Journal 4: 1136-1143.
-
(2010)
ISME Journal
, vol.4
, pp. 1136-1143
-
-
Doroghazi, J.R.1
Buckley, D.H.2
-
27
-
-
58549084151
-
A comparison of homologous recombination rates in Bacteria and Archaea
-
Vos M, Didelot X, (2009) A comparison of homologous recombination rates in Bacteria and Archaea. ISME Journal 3: 199-208.
-
(2009)
ISME Journal
, vol.3
, pp. 199-208
-
-
Vos, M.1
Didelot, X.2
-
28
-
-
77954143123
-
Impact of recombination on bacterial evolution
-
Didelot X, Maiden M. C. J, (2010) Impact of recombination on bacterial evolution. Trends Microbiol 18: 315-322.
-
(2010)
Trends Microbiol
, vol.18
, pp. 315-322
-
-
Didelot, X.1
Maiden, M.C.J.2
-
29
-
-
77954912139
-
Phylogenetic incongruence arising from fragmented speciation in enteric bacteria
-
Retchless A. C, Lawrence J. G, (2010) Phylogenetic incongruence arising from fragmented speciation in enteric bacteria. Proc Natl Acad Sci U S A 107: 11453-11458.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 11453-11458
-
-
Retchless, A.C.1
Lawrence, J.G.2
-
30
-
-
66649087973
-
Biogeography of the Sulfolobus islandicus pan-genome
-
Reno M. L, Held N. L, Fields C. J, Burke P. V, Whitaker R. J, (2009) Biogeography of the Sulfolobus islandicus pan-genome. Proc Natl Acad Sci U S A 106: 8605-8610.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 8605-8610
-
-
Reno, M.L.1
Held, N.L.2
Fields, C.J.3
Burke, P.V.4
Whitaker, R.J.5
-
31
-
-
0042242559
-
Geographic barriers isolate endemic populations of hyperthermophilic Archaea
-
Whitaker R. J, Grogan D. W, Taylor J. W, (2003) Geographic barriers isolate endemic populations of hyperthermophilic Archaea. Science 301: 976-978.
-
(2003)
Science
, vol.301
, pp. 976-978
-
-
Whitaker, R.J.1
Grogan, D.W.2
Taylor, J.W.3
-
32
-
-
77958590947
-
CRISPR associated diversity within a natural population of Sulfolobus islandicus
-
doi: 12910.11371/journal.pone.0012988
-
Held N. L, Herrera A, Cadillo-Quiroz H, Whitaker R. J, (2010) CRISPR associated diversity within a natural population of Sulfolobus islandicus. PLoS ONE 5: e12988 doi:12910.11371/journal.pone.0012988.
-
(2010)
PLoS ONE
, vol.5
-
-
Held, N.L.1
Herrera, A.2
Cadillo-Quiroz, H.3
Whitaker, R.J.4
-
33
-
-
67349176068
-
Genetics in geographically structured populations: defining, estimating and interpreting FST
-
Holsinger K. E, Weir B. S, (2009) Genetics in geographically structured populations: defining, estimating and interpreting FST. Nat Rev Genet 10: 639-650.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 639-650
-
-
Holsinger, K.E.1
Weir, B.S.2
-
34
-
-
77953032930
-
Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows
-
Excoffier L, Lischer H. E. L, (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Res 10: 564-567.
-
(2010)
Mol Ecol Res
, vol.10
, pp. 564-567
-
-
Excoffier, L.1
Lischer, H.E.L.2
-
35
-
-
34249027580
-
Inference of bacterial microevolution using multilocus sequence data
-
Didelot X, Falush D, (2007) Inference of bacterial microevolution using multilocus sequence data. Genetics 175: 1251-1266.
-
(2007)
Genetics
, vol.175
, pp. 1251-1266
-
-
Didelot, X.1
Falush, D.2
-
36
-
-
79251573854
-
Inference of homologous recombination in Bacteria using whole genome sequences
-
genetics.110.120121
-
Didelot X, Lawson D, Darling A, Falush D, (2010) Inference of homologous recombination in Bacteria using whole genome sequences. Genetics pp. genetics.110.120121.
-
(2010)
Genetics
-
-
Didelot, X.1
Lawson, D.2
Darling, A.3
Falush, D.4
-
37
-
-
14544305228
-
The influence of mutation, recombination, population history, and selection on patterns of genetic diversity in neisseria meningitidis
-
Jolley K. A, Wilson D. J, Kriz P, Mcvean G, Maiden M. C. J, (2005) The influence of mutation, recombination, population history, and selection on patterns of genetic diversity in neisseria meningitidis. Mol Biol Evol 22: 562-569.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 562-569
-
-
Jolley, K.A.1
Wilson, D.J.2
Kriz, P.3
McVean, G.4
Maiden, M.C.J.5
-
38
-
-
0025788069
-
Recombination in Escherichia coli and the definition of biological species
-
Dykhuizen D. E, Green L, (1991) Recombination in Escherichia coli and the definition of biological species. J Bacteriol 173: 7257-7268.
-
(1991)
J Bacteriol
, vol.173
, pp. 7257-7268
-
-
Dykhuizen, D.E.1
Green, L.2
-
39
-
-
3042750437
-
-
Sunderland, Massachusetts, Sinauer Associates
-
Coyne J. A, Orr H. A, (2004) Speciation Sunderland, Massachusetts Sinauer Associates.
-
(2004)
Speciation
-
-
Coyne, J.A.1
Orr, H.A.2
-
40
-
-
33846120422
-
The Sulfolobus database
-
Brügger K, (2006) The Sulfolobus database. Nucleic Acids Res 35: D413-D415.
-
(2006)
Nucleic Acids Res
, vol.35
-
-
Brügger, K.1
-
41
-
-
33846032295
-
A bimodal pattern of relatedness between the Salmonella Paratyphi A and Typhi genomes: convergence or divergence by homologous recombination
-
Didelot X, Achtman M, Parkhill J, Thomson N. R, Falush D, (2006) A bimodal pattern of relatedness between the Salmonella Paratyphi A and Typhi genomes: convergence or divergence by homologous recombination. Genome Res 16: 61-68.
-
(2006)
Genome Res
, vol.16
, pp. 61-68
-
-
Didelot, X.1
Achtman, M.2
Parkhill, J.3
Thomson, N.R.4
Falush, D.5
-
42
-
-
42049090179
-
Convergence of campylobacter species: implications for bacterial evolution
-
Sheppard S. K, McCarthy N. D, Falush D, Maiden M. C. J, (2008) Convergence of campylobacter species: implications for bacterial evolution. Science 320: 237-239.
-
(2008)
Science
, vol.320
, pp. 237-239
-
-
Sheppard, S.K.1
McCarthy, N.D.2
Falush, D.3
Maiden, M.C.J.4
-
43
-
-
0030885649
-
Dual roles for DNA sequence identity and the mismatch repair system in the regulation of mitotic crossing-over in yeast
-
Datta A, Hendrix M, Lipsitch M, Jinks-Robertson S, (1997) Dual roles for DNA sequence identity and the mismatch repair system in the regulation of mitotic crossing-over in yeast. Proc Natl Acad Sci U S A 94: 9757-9762.
-
(1997)
Proc Natl Acad Sci U S A
, vol.94
, pp. 9757-9762
-
-
Datta, A.1
Hendrix, M.2
Lipsitch, M.3
Jinks-Robertson, S.4
-
44
-
-
0031930791
-
The effect of mismatch repair and heteroduplex formation on sexual isolation in bacillus
-
Majewski J, Cohan F. M, (1998) The effect of mismatch repair and heteroduplex formation on sexual isolation in bacillus. Genetics 148: 13-18.
-
(1998)
Genetics
, vol.148
, pp. 13-18
-
-
Majewski, J.1
Cohan, F.M.2
-
45
-
-
0029038657
-
The log-linear relationship between sexual isolation and sequence divergence in bacillus transformation is robust
-
Zawadzki P, Roberts M. S, Cohan F. M, (1995) The log-linear relationship between sexual isolation and sequence divergence in bacillus transformation is robust. Genetics 140: 917-932.
-
(1995)
Genetics
, vol.140
, pp. 917-932
-
-
Zawadzki, P.1
Roberts, M.S.2
Cohan, F.M.3
-
46
-
-
0033959357
-
Barriers to genetic exchange between bacterial species: streptococcus pneumoniae transformation
-
Majewski J, Zawadzki P, Pickerill P, Cohan F. M, Dowson C. G, (2000) Barriers to genetic exchange between bacterial species: streptococcus pneumoniae transformation. J Bacteriol 182: 1016-1023.
-
(2000)
J Bacteriol
, vol.182
, pp. 1016-1023
-
-
Majewski, J.1
Zawadzki, P.2
Pickerill, P.3
Cohan, F.M.4
Dowson, C.G.5
-
47
-
-
35048898799
-
Genetic exchange across a species boundary in the archaeal genus Ferroplasma
-
Eppley J. M, Tyson G. W, Getz W. M, Banfield J. F, (2007) Genetic exchange across a species boundary in the archaeal genus Ferroplasma. Genetics 177: 407-416.
-
(2007)
Genetics
, vol.177
, pp. 407-416
-
-
Eppley, J.M.1
Tyson, G.W.2
Getz, W.M.3
Banfield, J.F.4
-
48
-
-
49249131279
-
Recombination of synthetic oligonucleotides with prokaryotic chromosomes: substrate requirements of the Escherichia coli λ Red and Sulfolobus acidocaldarius recombination systems
-
Grogan D. W, Stengel K. R, (2008) Recombination of synthetic oligonucleotides with prokaryotic chromosomes: substrate requirements of the Escherichia coli λ Red and Sulfolobus acidocaldarius recombination systems. Mol Microbiol 69: 1255-1265.
-
(2008)
Mol Microbiol
, vol.69
, pp. 1255-1265
-
-
Grogan, D.W.1
Stengel, K.R.2
-
49
-
-
1942467443
-
Stability and repair of DNA in hyperthermophilic archaea
-
Grogan D. W, (2004) Stability and repair of DNA in hyperthermophilic archaea. Curr Issues Mol Biol 6: 137-144.
-
(2004)
Curr Issues Mol Biol
, vol.6
, pp. 137-144
-
-
Grogan, D.W.1
-
50
-
-
11844282841
-
Conjugational genetic exchange in the hyperthermophilic archaeon Sulfolobus acidocaldarius: intragenic recombination with minimal dependence on marker separation
-
Hansen J. E, Dill A. C, Grogan D. W, (2005) Conjugational genetic exchange in the hyperthermophilic archaeon Sulfolobus acidocaldarius: intragenic recombination with minimal dependence on marker separation. J Bacteriol 187: 805-809.
-
(2005)
J Bacteriol
, vol.187
, pp. 805-809
-
-
Hansen, J.E.1
Dill, A.C.2
Grogan, D.W.3
-
51
-
-
54249126559
-
UV-inducible cellular aggregation of the hyperthermophilic archaeon Sulfolobus solfataricus is mediated by pili formation
-
Fröls S, Ajon M, Wagner M, Teichmann D, Zolghadr B, et al. (2008) UV-inducible cellular aggregation of the hyperthermophilic archaeon Sulfolobus solfataricus is mediated by pili formation. Mol Microbiol 70: 938-952.
-
(2008)
Mol Microbiol
, vol.70
, pp. 938-952
-
-
Fröls, S.1
Ajon, M.2
Wagner, M.3
Teichmann, D.4
Zolghadr, B.5
-
52
-
-
80855131627
-
UV-inducible DNA exchange in hyperthermophilic archaea mediated by type IV pili
-
Ajon M, Fröls S, van Wolferen M, Stoecker K, Teichmann D, et al. (2011) UV-inducible DNA exchange in hyperthermophilic archaea mediated by type IV pili. Mol Microbiol 82: 807-817.
-
(2011)
Mol Microbiol
, vol.82
, pp. 807-817
-
-
Ajon, M.1
Fröls, S.2
van Wolferen, M.3
Stoecker, K.4
Teichmann, D.5
-
53
-
-
67649438828
-
Acidianus, Sulfolobus and Metallosphaera surface layers: structure, composition and gene expression
-
Veith A, Klingl A, Zolghadr B, Lauber K, Mentele R, et al. (2009) Acidianus, Sulfolobus and Metallosphaera surface layers: structure, composition and gene expression. Mol Microbiol 73: 58-72.
-
(2009)
Mol Microbiol
, vol.73
, pp. 58-72
-
-
Veith, A.1
Klingl, A.2
Zolghadr, B.3
Lauber, K.4
Mentele, R.5
-
54
-
-
78249283543
-
The S-layer glycoprotein of the crenarchaeote Sulfolobus acidocaldarius is glycosylated at multiple sites with chitobiose-linked N-glycans
-
doi: 10.1155/2010/754101
-
Peyfoon E, Meyer B, Hitchen P. G, Panico M, Morris H. R, et al. (2010) The S-layer glycoprotein of the crenarchaeote Sulfolobus acidocaldarius is glycosylated at multiple sites with chitobiose-linked N-glycans. Archaea 2010 doi:10.1155/2010/754101.
-
(2010)
Archaea
, vol.2010
-
-
Peyfoon, E.1
Meyer, B.2
Hitchen, P.G.3
Panico, M.4
Morris, H.R.5
-
55
-
-
79958816876
-
Archaeal type IV pilus-like structures-evolutionarily conserved prokaryotic surface organelles
-
Pohlschroder M, Ghosh A, Tripepi M, Albers S-V, (2011) Archaeal type IV pilus-like structures-evolutionarily conserved prokaryotic surface organelles. Curr Opin Microbiol 14: 1-7.
-
(2011)
Curr Opin Microbiol
, vol.14
, pp. 1-7
-
-
Pohlschroder, M.1
Ghosh, A.2
Tripepi, M.3
Albers, S.-V.4
-
56
-
-
0026428610
-
Adaptive protein evolution at the adh locus in drosophila
-
McDonald H, Kreitman M, (1991) Adaptive protein evolution at the adh locus in drosophila. Nature 351: 652-654.
-
(1991)
Nature
, vol.351
, pp. 652-654
-
-
McDonald, H.1
Kreitman, M.2
-
57
-
-
77952168929
-
Evolutionary dynamics of Clostridium difficile over short and long time scales
-
He M, Sebaihia M, Lawley T. D, Stabler R. A, Dawson L. F, et al. (2010) Evolutionary dynamics of Clostridium difficile over short and long time scales. Proc Natl Acad Sci U S A 107: 7527-7532.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 7527-7532
-
-
He, M.1
Sebaihia, M.2
Lawley, T.D.3
Stabler, R.A.4
Dawson, L.F.5
-
58
-
-
33644630612
-
Comparisons of dN/dS are time dependent for closely related bacterial genomes
-
Rocha E. P. C, Smith J. M, Hurst L. D, Holden M. T. G, Cooper J. E, et al. (2006) Comparisons of dN/dS are time dependent for closely related bacterial genomes. J Theor Biol 239: 226-235.
-
(2006)
J Theor Biol
, vol.239
, pp. 226-235
-
-
Rocha, E.P.C.1
Smith, J.M.2
Hurst, L.D.3
Holden, M.T.G.4
Cooper, J.E.5
-
59
-
-
33750219172
-
Speciation genetics: evolving approaches
-
Noor M. A. F, Feder J. L, (2006) Speciation genetics: evolving approaches. Nat Rev Genet 7: 851-861.
-
(2006)
Nat Rev Genet
, vol.7
, pp. 851-861
-
-
Noor, M.A.F.1
Feder, J.L.2
-
60
-
-
24944471763
-
Genomic islands of speciation in Anopheles gambiae
-
doi:10.1371/journal.pbio.0030285
-
Turner T. L, Hahn M. W, Nuzhdin S. V, (2005) Genomic islands of speciation in Anopheles gambiae. PLoS Biol 3: e285 doi:10.1371/journal.pbio.0030285.
-
(2005)
PLoS Biol
, vol.3
-
-
Turner, T.L.1
Hahn, M.W.2
Nuzhdin, S.V.3
-
61
-
-
0024231541
-
Genetic differentiation between sympatric host races of the apple maggot fly Rhagoletis pomonella
-
Feder J. L, Chilcote C. A, Bush G. L, (1988) Genetic differentiation between sympatric host races of the apple maggot fly Rhagoletis pomonella. Nature 336: 61-64.
-
(1988)
Nature
, vol.336
, pp. 61-64
-
-
Feder, J.L.1
Chilcote, C.A.2
Bush, G.L.3
-
62
-
-
32544432563
-
Sympatric speciation in Nicaraguan crater lake cichlid fish
-
Barluenga M, Stolting K. N, Salzburger W, Muschick M, Meyer A, (2006) Sympatric speciation in Nicaraguan crater lake cichlid fish. Nature 439: 719-723.
-
(2006)
Nature
, vol.439
, pp. 719-723
-
-
Barluenga, M.1
Stolting, K.N.2
Salzburger, W.3
Muschick, M.4
Meyer, A.5
-
63
-
-
70349506039
-
Detecting loci under selection in a hierarchically structured population
-
Excoffier L, Hofer T, Foll M, (2009) Detecting loci under selection in a hierarchically structured population. Heredity 103: 285-298.
-
(2009)
Heredity
, vol.103
, pp. 285-298
-
-
Excoffier, L.1
Hofer, T.2
Foll, M.3
-
64
-
-
67650287704
-
Natural selection in action during speciation
-
Via S, (2009) Natural selection in action during speciation. Proc Natl Acad Sci U S A 106: 9939-9946.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 9939-9946
-
-
Via, S.1
-
65
-
-
77953092533
-
Widespread genomic divergence during sympatric speciation
-
Michel A. P, Sim S, Powell T. H. Q, Taylor M. S, Nosil P, et al. (2010) Widespread genomic divergence during sympatric speciation. Proc Natl Acad Sci U S A 107: 9724-9729.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 9724-9729
-
-
Michel, A.P.1
Sim, S.2
Powell, T.H.Q.3
Taylor, M.S.4
Nosil, P.5
-
66
-
-
18844397544
-
Global divergence of microbial genome sequences mediated by propagating fronts
-
Vetsigian K, Goldenfeld N, (2005) Global divergence of microbial genome sequences mediated by propagating fronts. Proc Natl Acad Sci U S A 102: 7332-7337.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 7332-7337
-
-
Vetsigian, K.1
Goldenfeld, N.2
-
67
-
-
0027337482
-
Pyrobaculum aerophilum sp. nov., a novel nitrate-reducing hyperthermophilic archaeum
-
Volkl P, Huber R, Drobner E, Rachel R, Burggraf S, et al. (1993) Pyrobaculum aerophilum sp. nov., a novel nitrate-reducing hyperthermophilic archaeum. Appl Environ Microbiol 59: 2918-2926.
-
(1993)
Appl Environ Microbiol
, vol.59
, pp. 2918-2926
-
-
Volkl, P.1
Huber, R.2
Drobner, E.3
Rachel, R.4
Burggraf, S.5
-
68
-
-
0037381328
-
Evolution of bacterial and archaeal multicomponent monooxygenases
-
Notomista E, Lahm A, Di Donato A, Tramontano A, (2003) Evolution of bacterial and archaeal multicomponent monooxygenases. J Mol Evol 56: 435-445.
-
(2003)
J Mol Evol
, vol.56
, pp. 435-445
-
-
Notomista, E.1
Lahm, A.2
Di Donato, A.3
Tramontano, A.4
-
69
-
-
0035989633
-
Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology
-
Stackebrandt E, Frederiksen W, Garrity G. M, Grimont P, Kampfer P, et al. (2002) Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52: 1043-1047.
-
(2002)
Int J Syst Evol Microbiol
, vol.52
, pp. 1043-1047
-
-
Stackebrandt, E.1
Frederiksen, W.2
Garrity, G.M.3
Grimont, P.4
Kampfer, P.5
-
70
-
-
0028116224
-
A numerical phenotypic taxonomic study of the genus Neisseria
-
Barrett S. J, Sneath P. H. A, (1994) A numerical phenotypic taxonomic study of the genus Neisseria. Microbiology 140: 2867-2891.
-
(1994)
Microbiology
, vol.140
, pp. 2867-2891
-
-
Barrett, S.J.1
Sneath, P.H.A.2
-
71
-
-
0031981808
-
Santa Rosalia revisited: why are there so many species of bacteria?
-
Dykhuizen D. E, (1998) Santa Rosalia revisited: why are there so many species of bacteria? Antonie Leeuwenhoek 73: 25-33.
-
(1998)
Antonie Leeuwenhoek
, vol.73
, pp. 25-33
-
-
Dykhuizen, D.E.1
-
72
-
-
0030427959
-
Tests of ecological mechanisms promoting stable coexistence of two bacterial genotypes
-
Turner P. E, Souza V, Lenski R. E, (1996) Tests of ecological mechanisms promoting stable coexistence of two bacterial genotypes. Ecology 77: 2119-2129.
-
(1996)
Ecology
, vol.77
, pp. 2119-2129
-
-
Turner, P.E.1
Souza, V.2
Lenski, R.E.3
-
73
-
-
60949088263
-
Ecological explanations for (incomplete) speciation
-
Nosil P, Harmon L. J, Seehausen O, (2009) Ecological explanations for (incomplete) speciation. Trends Ecol Evol 24: 145-156.
-
(2009)
Trends Ecol Evol
, vol.24
, pp. 145-156
-
-
Nosil, P.1
Harmon, L.J.2
Seehausen, O.3
-
74
-
-
15444381264
-
Ecological speciation
-
Rundle H. D, Nosil P, (2005) Ecological speciation. Ecol Lett 8: 336-352.
-
(2005)
Ecol Lett
, vol.8
, pp. 336-352
-
-
Rundle, H.D.1
Nosil, P.2
-
75
-
-
79953644683
-
Progress toward a general species concept
-
Hausdorf B, (2011) Progress toward a general species concept. Evolution 65: 923-931.
-
(2011)
Evolution
, vol.65
, pp. 923-931
-
-
Hausdorf, B.1
-
76
-
-
24944452684
-
Speciation and gene flow between snails of opposite chirality
-
doi: 10.1371/journal.pbio.0030282
-
Davison A, Chiba S, Barton N. H, Clarke B, (2005) Speciation and gene flow between snails of opposite chirality. PLoS Biol 3: e282 doi:10.1371/journal.pbio.0030282.
-
(2005)
PLoS Biol
, vol.3
-
-
Davison, A.1
Chiba, S.2
Barton, N.H.3
Clarke, B.4
-
78
-
-
0034940811
-
Genetic fidelity under harsh conditions: analysis of spontaneous mutation in the thermoacidophilic archaeon Sulfolobus acidocaldarius
-
Grogan D. W, Carver G. T, Drake J. W, (2001) Genetic fidelity under harsh conditions: analysis of spontaneous mutation in the thermoacidophilic archaeon Sulfolobus acidocaldarius. Proc Natl Acad Sci U S A 98: 7928-7933.
-
(2001)
Proc Natl Acad Sci U S A
, vol.98
, pp. 7928-7933
-
-
Grogan, D.W.1
Carver, G.T.2
Drake, J.W.3
-
79
-
-
0031955116
-
Consed: a graphical tool for sequence finishing
-
Gordon D, Abajian C, Green P, (1998) Consed: a graphical tool for sequence finishing. Genome Res 8: 195-202.
-
(1998)
Genome Res
, vol.8
, pp. 195-202
-
-
Gordon, D.1
Abajian, C.2
Green, P.3
-
80
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz S, Phillippy A, Delcher A, Smoot M, Shumway M, et al. (2004) Versatile and open software for comparing large genomes. Genome Biology 5: R12.
-
(2004)
Genome Biology
, vol.5
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.3
Smoot, M.4
Shumway, M.5
-
81
-
-
77956193448
-
ProgressiveMauve: multiple genome alignment with gene gain, loss and rearrangement
-
doi: 10.1371/journal.pone.0011147
-
Darling A. E, Mau B, Perna N. T, (2010) ProgressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PLoS ONE 5: e11147 doi:10.1371/journal.pone.0011147.
-
(2010)
PLoS ONE
, vol.5
-
-
Darling, A.E.1
Mau, B.2
Perna, N.T.3
-
82
-
-
67650735586
-
ABACAS: algorithm-based automatic contiguation of assembled sequences
-
Assefa S, Keane T. M, Otto T. D, Newbold C, Berriman M, (2009) ABACAS: algorithm-based automatic contiguation of assembled sequences. Bioinformatics 25: 1968-1969.
-
(2009)
Bioinformatics
, vol.25
, pp. 1968-1969
-
-
Assefa, S.1
Keane, T.M.2
Otto, T.D.3
Newbold, C.4
Berriman, M.5
-
83
-
-
40549120596
-
The RAST Server: rapid annotations using subsystems technology
-
Aziz R, Bartels D, Best A, DeJongh M, Disz T, et al. (2008) The RAST Server: rapid annotations using subsystems technology. BMC Genomics 9: 75.
-
(2008)
BMC Genomics
, vol.9
, pp. 75
-
-
Aziz, R.1
Bartels, D.2
Best, A.3
DeJongh, M.4
Disz, T.5
-
84
-
-
0034096027
-
The coalescent with gene conversion
-
Wiuf C, Hein J, (2000) The coalescent with gene conversion. Genetics 155: 451-462.
-
(2000)
Genetics
, vol.155
, pp. 451-462
-
-
Wiuf, C.1
Hein, J.2
-
85
-
-
77957243284
-
RDP3: a flexible and fast computer program for analyzing recombination
-
Martin D. P, Lemey P, Lott M, Moulton V, Posada D, Lefeuvre P, (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26: 2462-2463.
-
(2010)
Bioinformatics
, vol.26
, pp. 2462-2463
-
-
Martin, D.P.1
Lemey, P.2
Lott, M.3
Moulton, V.4
Posada, D.5
Lefeuvre, P.6
-
86
-
-
58549120798
-
Viral biogeography revealed by signatures in Sulfolobus islandicus genomes
-
Held N. L, Whitaker R. J, (2009) Viral biogeography revealed by signatures in Sulfolobus islandicus genomes. Environ Microbiol 11: 457-466.
-
(2009)
Environ Microbiol
, vol.11
, pp. 457-466
-
-
Held, N.L.1
Whitaker, R.J.2
-
87
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
Enright A. J, Van Dongen S, Ouzounis C. A, (2002) An efficient algorithm for large-scale detection of protein families. Nucleic Acids Research 30 (7): 1575-1584.
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.7
, pp. 1575-1584
-
-
Enright, A.J.1
Van Dongen, S.2
Ouzounis, C.A.3
-
88
-
-
0002222774
-
-
In: Rodrigo AllenG, Learn GeraldH, editors, Dordrecht, Netherlands, Kluwer Academic Publishers, Computational analysis of HIV molecular sequences, Chapter 4
-
Korber B, (2000) HIV signature and sequence variation analysis. In: Rodrigo AllenG, Learn GeraldH, editors. Dordrecht, Netherlands Kluwer Academic Publishers pp. 55-72 Computational analysis of HIV molecular sequences, Chapter 4.
-
(2000)
HIV signature and sequence variation analysis
, pp. 55-72
-
-
Korber, B.1
-
89
-
-
0022507362
-
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions
-
Nei M, Gojobori T, (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3: 418-426.
-
(1986)
Mol Biol Evol
, vol.3
, pp. 418-426
-
-
Nei, M.1
Gojobori, T.2
|