-
1
-
-
0242371471
-
Horizontal gene transfer accelerates genome innovation and evolution
-
10.1093/molbev/msg154, 12777514
-
Jain R, Rivera MC, Moore JE, Lake JA. Horizontal gene transfer accelerates genome innovation and evolution. Mol Biol Evol 2003, 20(10):1598-1602. 10.1093/molbev/msg154, 12777514.
-
(2003)
Mol Biol Evol
, vol.20
, Issue.10
, pp. 1598-1602
-
-
Jain, R.1
Rivera, M.C.2
Moore, J.E.3
Lake, J.A.4
-
2
-
-
77950847866
-
Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota
-
10.1038/nature08937, 20376150
-
Hehemann JH, Correc G, Barbeyron T, Helbert W, Czjzek M, Michel G. Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota. Nature 2010, 464(7290):908-912. 10.1038/nature08937, 20376150.
-
(2010)
Nature
, vol.464
, Issue.7290
, pp. 908-912
-
-
Hehemann, J.H.1
Correc, G.2
Barbeyron, T.3
Helbert, W.4
Czjzek, M.5
Michel, G.6
-
3
-
-
80053896776
-
Unprecedented levels of horizontal gene transfer among spatially co-occurring Shewanella bacteria from the Baltic Sea
-
Caro-Quintero A, Deng J, Auchtung J, Brettar I, Hofle MG, Klappenbach J, Konstantinidis KT. Unprecedented levels of horizontal gene transfer among spatially co-occurring Shewanella bacteria from the Baltic Sea. ISME J 2010,
-
(2010)
ISME J
-
-
Caro-Quintero, A.1
Deng, J.2
Auchtung, J.3
Brettar, I.4
Hofle, M.G.5
Klappenbach, J.6
Konstantinidis, K.T.7
-
4
-
-
66649098780
-
Occurrence of phosphate acquisition genes in Prochlorococcus cells from different ocean regions
-
10.1111/j.1462-2920.2009.01860.x, 19187282
-
Martiny AC, Huang Y, Li W. Occurrence of phosphate acquisition genes in Prochlorococcus cells from different ocean regions. Environ Microbiol 2009, 11(6):1340-1347. 10.1111/j.1462-2920.2009.01860.x, 19187282.
-
(2009)
Environ Microbiol
, vol.11
, Issue.6
, pp. 1340-1347
-
-
Martiny, A.C.1
Huang, Y.2
Li, W.3
-
5
-
-
79851505378
-
Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes
-
10.1371/journal.pgen.1001284, 3029252, 21298028
-
Treangen TJ, Rocha EPC. Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes. PLoS Genet 2011, 7(1):e1001284. 10.1371/journal.pgen.1001284, 3029252, 21298028.
-
(2011)
PLoS Genet
, vol.7
, Issue.1
-
-
Treangen, T.J.1
Rocha, E.P.C.2
-
6
-
-
78751596904
-
Horizontal Gene Transfer and the Formation of Groups of Microorganisms
-
Caister Academic Press, Oren A, Papke RT
-
Williams D, Andam CP, Gogarten JP. Horizontal Gene Transfer and the Formation of Groups of Microorganisms. Molecular Phylogeny of Microorganisms 2010, Caister Academic Press, Oren A, Papke RT., http://gogarten.uconn.edu/articles/WilliamsAndamGogarten_HGT_and_the_Formation_of_Groups_of_Microorganisms.pdf
-
(2010)
Molecular Phylogeny of Microorganisms
-
-
Williams, D.1
Andam, C.P.2
Gogarten, J.P.3
-
7
-
-
23944499633
-
Horizontal gene transfer, genome innovation and evolution
-
10.1038/nrmicro1204, 16138096
-
Gogarten JP, Townsend JP. Horizontal gene transfer, genome innovation and evolution. Nat Rev Microbiol 2005, 3(9):679-687. 10.1038/nrmicro1204, 16138096.
-
(2005)
Nat Rev Microbiol
, vol.3
, Issue.9
, pp. 679-687
-
-
Gogarten, J.P.1
Townsend, J.P.2
-
8
-
-
78751527447
-
Networks of gene sharing among 329 proteobacterial genomes reveal differences in lateral gene transfer frequency at different phylogenetic depths
-
10.1093/molbev/msq297, 3021791, 21059789
-
Kloesges T, Papa O, Martin W, Dagan T. Networks of gene sharing among 329 proteobacterial genomes reveal differences in lateral gene transfer frequency at different phylogenetic depths. Mol Biol Evol 2011, 28:1057-1074. 10.1093/molbev/msq297, 3021791, 21059789.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 1057-1074
-
-
Kloesges, T.1
Papa, O.2
Martin, W.3
Dagan, T.4
-
9
-
-
77957355684
-
High frequency of horizontal gene transfer in the oceans
-
10.1126/science.1192243, 20929803
-
McDaniel LD, Young E, Delaney J, Ruhnau F, Ritchie KB, Paul JH. High frequency of horizontal gene transfer in the oceans. Science 2010, 330:50. 10.1126/science.1192243, 20929803.
-
(2010)
Science
, vol.330
, pp. 50
-
-
McDaniel, L.D.1
Young, E.2
Delaney, J.3
Ruhnau, F.4
Ritchie, K.B.5
Paul, J.H.6
-
10
-
-
57649238024
-
Natural transfer of sulphonamide and ampicillin resistance between Escherichia coli residing in the human intestine
-
Trobos M, Lester CH, Olsen JE, Frimodt-Moller N, Hammerum AM. Natural transfer of sulphonamide and ampicillin resistance between Escherichia coli residing in the human intestine. J Antimicrob Chemother 2009, 63:80-86.
-
(2009)
J Antimicrob Chemother
, vol.63
, pp. 80-86
-
-
Trobos, M.1
Lester, C.H.2
Olsen, J.E.3
Frimodt-Moller, N.4
Hammerum, A.M.5
-
11
-
-
26444506791
-
Highways of gene sharing in prokaryotes
-
10.1073/pnas.0504068102, 1242295, 16176988
-
Beiko RG, Harlow TJ, Ragan MA. Highways of gene sharing in prokaryotes. Proc Natl Acad Sci USA 2005, 102:14332-14337. 10.1073/pnas.0504068102, 1242295, 16176988.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 14332-14337
-
-
Beiko, R.G.1
Harlow, T.J.2
Ragan, M.A.3
-
12
-
-
56349169406
-
Accounting for horizontal gene transfers explains conflicting hypotheses regarding the position of aquificales in the phylogeny of Bacteria
-
10.1186/1471-2148-8-272, 2584045, 18834516
-
Boussau B, Gueguen L, Gouy M. Accounting for horizontal gene transfers explains conflicting hypotheses regarding the position of aquificales in the phylogeny of Bacteria. BMC evolutionary biology 2008, 8:272. 10.1186/1471-2148-8-272, 2584045, 18834516.
-
(2008)
BMC evolutionary biology
, vol.8
, pp. 272
-
-
Boussau, B.1
Gueguen, L.2
Gouy, M.3
-
13
-
-
65249126970
-
On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermotogales
-
10.1073/pnas.0901260106, 2667022, 19307556
-
Zhaxybayeva O, Swithers KS, Lapierre P, Fournier GP, Bickhart DM, DeBoy RT, Nelson KE, Nesbo CL, Doolittle WF, Gogarten JP, et al. On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermotogales. Proc Natl Acad Sci USA 2009, 106(14):5865-5870. 10.1073/pnas.0901260106, 2667022, 19307556.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, Issue.14
, pp. 5865-5870
-
-
Zhaxybayeva, O.1
Swithers, K.S.2
Lapierre, P.3
Fournier, G.P.4
Bickhart, D.M.5
DeBoy, R.T.6
Nelson, K.E.7
Nesbo, C.L.8
Doolittle, W.F.9
Gogarten, J.P.10
-
14
-
-
78650186254
-
Oral biofilms: a reservoir of transferable, bacterial, antimicrobial resistance
-
10.1586/eri.10.106, 21133668
-
Roberts AP, Mullany P. Oral biofilms: a reservoir of transferable, bacterial, antimicrobial resistance. Expert Rev Anti Infect Ther 2010, 8:1441-1450. 10.1586/eri.10.106, 21133668.
-
(2010)
Expert Rev Anti Infect Ther
, vol.8
, pp. 1441-1450
-
-
Roberts, A.P.1
Mullany, P.2
-
16
-
-
77953776263
-
Biased gene transfer mimics patterns created through shared ancestry
-
10.1073/pnas.1001418107, 2890805, 20495090
-
Andam CP, Williams D, Gogarten JP. Biased gene transfer mimics patterns created through shared ancestry. Proc Natl Acad Sci USA 2010, 107:10679-10684. 10.1073/pnas.1001418107, 2890805, 20495090.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 10679-10684
-
-
Andam, C.P.1
Williams, D.2
Gogarten, J.P.3
-
17
-
-
0034053846
-
Aminoacyl-tRNA synthetases, the genetic code, and the evolutionary process
-
10.1128/MMBR.64.1.202-236.2000, 98992, 10704480
-
Woese CR, Olsen GJ, Ibba M, Soll D. Aminoacyl-tRNA synthetases, the genetic code, and the evolutionary process. Microbiol Mol Biol Rev 2000, 64:202-236. 10.1128/MMBR.64.1.202-236.2000, 98992, 10704480.
-
(2000)
Microbiol Mol Biol Rev
, vol.64
, pp. 202-236
-
-
Woese, C.R.1
Olsen, G.J.2
Ibba, M.3
Soll, D.4
-
19
-
-
0017296927
-
Spirochaeta halophila sp. n., a facultative anaerobe from a high-salinity pond
-
10.1007/BF00690227, 1015946
-
Greenberg EP, Canale-Parola E. Spirochaeta halophila sp. n., a facultative anaerobe from a high-salinity pond. Arch Microbiol 1976, 110:185-194. 10.1007/BF00690227, 1015946.
-
(1976)
Arch Microbiol
, vol.110
, pp. 185-194
-
-
Greenberg, E.P.1
Canale-Parola, E.2
-
20
-
-
0026536905
-
Spirochaeta thermophila sp. nov., an obligately anaerobic, polysaccharolytic, extremely thermophilic bacterium
-
Aksenova H, Rainey F, Janssen P, Zavarzin G, Morgan H. Spirochaeta thermophila sp. nov., an obligately anaerobic, polysaccharolytic, extremely thermophilic bacterium. Int J Syst Bacteriol 1992, 42:175-177.
-
(1992)
Int J Syst Bacteriol
, vol.42
, pp. 175-177
-
-
Aksenova, H.1
Rainey, F.2
Janssen, P.3
Zavarzin, G.4
Morgan, H.5
-
21
-
-
0028044852
-
Spirochaeta caldaria sp. nov., a thermophilic bacterium that enhances cellulose degradation by Clostridium thermocellum
-
Pohlschroeder M, Leschine S, Canale-Parola E. Spirochaeta caldaria sp. nov., a thermophilic bacterium that enhances cellulose degradation by Clostridium thermocellum. Archives Microbiol 1994, 161:17-24.
-
(1994)
Archives Microbiol
, vol.161
, pp. 17-24
-
-
Pohlschroeder, M.1
Leschine, S.2
Canale-Parola, E.3
-
22
-
-
0031572417
-
Spirochaeta smaragdinae sp. nov., a new mesophilic strictly anaerobic spirochete from an oil field
-
10.1111/j.1574-6968.1997.tb13876.x, 9351200
-
Magot M, Fardeau ML, Arnauld O, Lanau C, Ollivier B, Thomas P, Patel BK. Spirochaeta smaragdinae sp. nov., a new mesophilic strictly anaerobic spirochete from an oil field. FEMS Microbiol Lett 1997, 155:185-191. 10.1111/j.1574-6968.1997.tb13876.x, 9351200.
-
(1997)
FEMS Microbiol Lett
, vol.155
, pp. 185-191
-
-
Magot, M.1
Fardeau, M.L.2
Arnauld, O.3
Lanau, C.4
Ollivier, B.5
Thomas, P.6
Patel, B.K.7
-
23
-
-
0037978083
-
Spirochaeta americana sp. nov., a new haloalkaliphilic, obligately anaerobic spirochaete isolated from soda Mono Lake in California
-
10.1099/ijs.0.02535-0, 12807206
-
Hoover RB, Pikuta EV, Bej AK, Marsic D, Whitman WB, Tang J, Krader P. Spirochaeta americana sp. nov., a new haloalkaliphilic, obligately anaerobic spirochaete isolated from soda Mono Lake in California. Int J Syst Evol Microbiol 2003, 53:815-821. 10.1099/ijs.0.02535-0, 12807206.
-
(2003)
Int J Syst Evol Microbiol
, vol.53
, pp. 815-821
-
-
Hoover, R.B.1
Pikuta, E.V.2
Bej, A.K.3
Marsic, D.4
Whitman, W.B.5
Tang, J.6
Krader, P.7
-
24
-
-
69449086311
-
Spirochaeta dissipatitropha sp. nov., an alkaliphilic, obligately anaerobic bacterium, and emended description of the genus Spirochaeta Ehrenberg 1835
-
Pikuta EV, Hoover RB, Bej AK, Marsic D, Whitman WB, Krader P. Spirochaeta dissipatitropha sp. nov., an alkaliphilic, obligately anaerobic bacterium, and emended description of the genus Spirochaeta Ehrenberg 1835. Int J Syst Evol Microbiol 2009, 59:1798-1804.
-
(2009)
Int J Syst Evol Microbiol
, vol.59
, pp. 1798-1804
-
-
Pikuta, E.V.1
Hoover, R.B.2
Bej, A.K.3
Marsic, D.4
Whitman, W.B.5
Krader, P.6
-
25
-
-
33644859974
-
Spirochaeta coccoides sp. nov., a novel coccoid spirochete from the hindgut of the termite Neotermes castaneus
-
10.1128/AEM.72.1.392-397.2006, 1352290, 16391069
-
Droge S, Frohlich J, Radek R, Konig H. Spirochaeta coccoides sp. nov., a novel coccoid spirochete from the hindgut of the termite Neotermes castaneus. Appl Environ Microbiol 2006, 72:392-397. 10.1128/AEM.72.1.392-397.2006, 1352290, 16391069.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 392-397
-
-
Droge, S.1
Frohlich, J.2
Radek, R.3
Konig, H.4
-
26
-
-
0022419375
-
Aromatic-aromatic interaction: a mechanism of protein structure stabilization
-
10.1126/science.3892686, 3892686
-
Burley SK, Petsko GA. Aromatic-aromatic interaction: a mechanism of protein structure stabilization. Science 1985, 229:23-28. 10.1126/science.3892686, 3892686.
-
(1985)
Science
, vol.229
, pp. 23-28
-
-
Burley, S.K.1
Petsko, G.A.2
-
27
-
-
0027209738
-
Hydrophobic core repacking and aromatic-aromatic interaction in the thermostable mutant of T4 lysozyme Ser 117-- > Phe
-
10.1002/pro.5560020811, 2142442, 8401213
-
Anderson DE, Hurley JH, Nicholson H, Baase WA, Matthews BW. Hydrophobic core repacking and aromatic-aromatic interaction in the thermostable mutant of T4 lysozyme Ser 117-- > Phe. Protein Sci 1993, 2:1285-1290. 10.1002/pro.5560020811, 2142442, 8401213.
-
(1993)
Protein Sci
, vol.2
, pp. 1285-1290
-
-
Anderson, D.E.1
Hurley, J.H.2
Nicholson, H.3
Baase, W.A.4
Matthews, B.W.5
-
28
-
-
0034495733
-
Aromatic clusters: a determinant of thermal stability of thermophilic proteins
-
10.1093/protein/13.11.753, 11161106
-
Kannan N, Vishveshwara S. Aromatic clusters: a determinant of thermal stability of thermophilic proteins. Protein Eng 2000, 13:753-761. 10.1093/protein/13.11.753, 11161106.
-
(2000)
Protein Eng
, vol.13
, pp. 753-761
-
-
Kannan, N.1
Vishveshwara, S.2
-
29
-
-
65549115002
-
Ancient gene transfer as a tool in phylogenetic reconstruction
-
10.1007/978-1-60327-853-9_7, 19271182
-
Huang J, Gogarten JP. Ancient gene transfer as a tool in phylogenetic reconstruction. Methods in molecular biology 2009, 532:127-139. 10.1007/978-1-60327-853-9_7, 19271182.
-
(2009)
Methods in molecular biology
, vol.532
, pp. 127-139
-
-
Huang, J.1
Gogarten, J.P.2
-
30
-
-
26444543426
-
The presence of a haloarchaeal type tyrosyl-tRNA synthetase marks the opisthokonts as monophyletic
-
10.1093/molbev/msi221, 16049196
-
Huang J, Xu Y, Gogarten JP. The presence of a haloarchaeal type tyrosyl-tRNA synthetase marks the opisthokonts as monophyletic. Mol Biol Evol 2005, 22:2142-2146. 10.1093/molbev/msi221, 16049196.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2142-2146
-
-
Huang, J.1
Xu, Y.2
Gogarten, J.P.3
-
31
-
-
1942422301
-
Genome mosaicism and organismal lineages
-
10.1016/j.tig.2004.03.009, 15109780
-
Zhaxybayeva O, Lapierre P, Gogarten JP. Genome mosaicism and organismal lineages. Trends Genet 2004, 20(5):254-260. 10.1016/j.tig.2004.03.009, 15109780.
-
(2004)
Trends Genet
, vol.20
, Issue.5
, pp. 254-260
-
-
Zhaxybayeva, O.1
Lapierre, P.2
Gogarten, J.P.3
-
33
-
-
79952201675
-
The tree and net components of prokaryote evolution
-
10.1093/gbe/evq062, 2997564, 20889655
-
Puigbo P, Wolf YI, Koonin EV. The tree and net components of prokaryote evolution. Genome Biol Evol 2010, 2:745-756. 10.1093/gbe/evq062, 2997564, 20889655.
-
(2010)
Genome Biol Evol
, vol.2
, pp. 745-756
-
-
Puigbo, P.1
Wolf, Y.I.2
Koonin, E.V.3
-
34
-
-
79959256644
-
Biased gene transfer in microbial evolution
-
10.1038/nrmicro2593, 21666709
-
Andam CP, Gogarten JP. Biased gene transfer in microbial evolution. Nat Rev Microbiol 2011, 9(7):543-555. 10.1038/nrmicro2593, 21666709.
-
(2011)
Nat Rev Microbiol
, vol.9
, Issue.7
, pp. 543-555
-
-
Andam, C.P.1
Gogarten, J.P.2
-
35
-
-
0032830481
-
Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events
-
Wolf YI, Aravind L, Grishin NV, Koonin EV. Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events. Genome Res 1999, 9(8):689-710.
-
(1999)
Genome Res
, vol.9
, Issue.8
, pp. 689-710
-
-
Wolf, Y.I.1
Aravind, L.2
Grishin, N.V.3
Koonin, E.V.4
-
36
-
-
2342661195
-
Detection of lateral gene transfer events in the prokaryotic tRNA synthetases by the ratios of evolutionary distances method
-
10.1007/s00239-004-2582-2, 15170264
-
Farahi K, Pusch GD, Overbeek R, Whitman WB. Detection of lateral gene transfer events in the prokaryotic tRNA synthetases by the ratios of evolutionary distances method. Journal of molecular evolution 2004, 58(5):615-631. 10.1007/s00239-004-2582-2, 15170264.
-
(2004)
Journal of molecular evolution
, vol.58
, Issue.5
, pp. 615-631
-
-
Farahi, K.1
Pusch, G.D.2
Overbeek, R.3
Whitman, W.B.4
-
37
-
-
4544298806
-
Genome-wide molecular clock and horizontal gene transfer in bacterial evolution
-
10.1128/JB.186.19.6575-6585.2004, 516599, 15375139
-
Novichkov PS, Omelchenko MV, Gelfand MS, Mironov AA, Wolf YI, Koonin EV. Genome-wide molecular clock and horizontal gene transfer in bacterial evolution. J Bacteriol 2004, 186(19):6575-6585. 10.1128/JB.186.19.6575-6585.2004, 516599, 15375139.
-
(2004)
J Bacteriol
, vol.186
, Issue.19
, pp. 6575-6585
-
-
Novichkov, P.S.1
Omelchenko, M.V.2
Gelfand, M.S.3
Mironov, A.A.4
Wolf, Y.I.5
Koonin, E.V.6
-
38
-
-
0025158208
-
Partition of tRNA synthetases into two classes based on mutually exclusive sets of sequence motifs
-
10.1038/347203a0, 2203971
-
Eriani G, Delarue M, Poch O, Gangloff J, Moras D. Partition of tRNA synthetases into two classes based on mutually exclusive sets of sequence motifs. Nature 1990, 347(6289):203-206. 10.1038/347203a0, 2203971.
-
(1990)
Nature
, vol.347
, Issue.6289
, pp. 203-206
-
-
Eriani, G.1
Delarue, M.2
Poch, O.3
Gangloff, J.4
Moras, D.5
-
39
-
-
0026075798
-
Structural relationships and the classification of aminoacyl-tRNA synthetases
-
Burbaum JJ, Schimmel P. Structural relationships and the classification of aminoacyl-tRNA synthetases. J Biol Chem 1991, 266(26):16965-16968.
-
(1991)
J Biol Chem
, vol.266
, Issue.26
, pp. 16965-16968
-
-
Burbaum, J.J.1
Schimmel, P.2
-
40
-
-
1642339676
-
Cladogenesis, coalescence and the evolution of the three domains of life
-
10.1016/j.tig.2004.02.004, 15041172
-
Zhaxybayeva O, Gogarten JP. Cladogenesis, coalescence and the evolution of the three domains of life. Trends in Genetics 2004, 20(4):182-187. 10.1016/j.tig.2004.02.004, 15041172.
-
(2004)
Trends in Genetics
, vol.20
, Issue.4
, pp. 182-187
-
-
Zhaxybayeva, O.1
Gogarten, J.P.2
-
41
-
-
67651064681
-
Horizontal gene transfer from extinct and extant lineages: biological innovation and the coral of life
-
10.1098/rstb.2009.0033, 2873001, 19571243
-
Fournier GP, Huang J, Gogarten JP. Horizontal gene transfer from extinct and extant lineages: biological innovation and the coral of life. Philosophical transactions of the Royal Society of London 2009, 364:2229-2239. 10.1098/rstb.2009.0033, 2873001, 19571243.
-
(2009)
Philosophical transactions of the Royal Society of London
, vol.364
, pp. 2229-2239
-
-
Fournier, G.P.1
Huang, J.2
Gogarten, J.P.3
-
42
-
-
23944506044
-
Mobile genetic elements: the agents of open source evolution
-
10.1038/nrmicro1235, 16138100
-
Frost LS, Leplae R, Summers AO, Toussaint A. Mobile genetic elements: the agents of open source evolution. Nat Rev Microbiol 2005, 3(9):722-732. 10.1038/nrmicro1235, 16138100.
-
(2005)
Nat Rev Microbiol
, vol.3
, Issue.9
, pp. 722-732
-
-
Frost, L.S.1
Leplae, R.2
Summers, A.O.3
Toussaint, A.4
-
43
-
-
23944453816
-
What's in a Tree?: Does Horizontal Gene Transfer Determine Microbial Taxonomy?
-
Netherlands: Kluwer Academic Publishers, Seckbach J
-
Olendzenski L, Zhaxybayeva O, Gogarten JP. What's in a Tree?: Does Horizontal Gene Transfer Determine Microbial Taxonomy?. Cellular Origin and Life in Extreme Habitats Vol 4: Symbiosis 2001, 4:67-78. Netherlands: Kluwer Academic Publishers, Seckbach J.
-
(2001)
Cellular Origin and Life in Extreme Habitats Vol 4: Symbiosis
, vol.4
, pp. 67-78
-
-
Olendzenski, L.1
Zhaxybayeva, O.2
Gogarten, J.P.3
-
44
-
-
77649249551
-
An evolutionary analysis of lateral gene transfer in thymidylate synthase enzymes
-
10.1093/sysbio/syp104, 2826268, 20525631
-
Stern A, Mayrose I, Penn O, Shaul S, Gophna U, Pupko T. An evolutionary analysis of lateral gene transfer in thymidylate synthase enzymes. Syst Biol 2010, 59(2):212-225. 10.1093/sysbio/syp104, 2826268, 20525631.
-
(2010)
Syst Biol
, vol.59
, Issue.2
, pp. 212-225
-
-
Stern, A.1
Mayrose, I.2
Penn, O.3
Shaul, S.4
Gophna, U.5
Pupko, T.6
-
45
-
-
79959256644
-
Biased gene transfer in microbial evolution
-
Andam CP, Gogarten JP. Biased gene transfer in microbial evolution. Nat Rev Micro 2011, 9(7):543-555.
-
(2011)
Nat Rev Micro
, vol.9
, Issue.7
, pp. 543-555
-
-
Andam, C.P.1
Gogarten, J.P.2
-
48
-
-
70349979453
-
Phylogeny of prokaryotes: does it exist and why should we care?
-
10.1016/j.resmic.2009.07.006, 19631737
-
Gribaldo S, Brochier C. Phylogeny of prokaryotes: does it exist and why should we care?. Res Microbiol 2009, 160:513-521. 10.1016/j.resmic.2009.07.006, 19631737.
-
(2009)
Res Microbiol
, vol.160
, pp. 513-521
-
-
Gribaldo, S.1
Brochier, C.2
-
49
-
-
77954075974
-
Save the tree of life or get lost in the woods
-
Valas R, Bourne P. Save the tree of life or get lost in the woods. Biol Direct 2010, (5):44.
-
(2010)
Biol Direct
, Issue.5
, pp. 44
-
-
Valas, R.1
Bourne, P.2
-
51
-
-
70449515444
-
Prokaryotic evolution and the tree of life are two different things
-
10.1186/1745-6150-4-34, 2761302, 19788731
-
Bapteste E, O'Malley MA, Beiko RG, Ereshefsky M, Gogarten JP, Franklin-Hall L, Lapointe FJ, Dupre J, Dagan T, Boucher Y, et al. Prokaryotic evolution and the tree of life are two different things. Biol Direct 2009, 4:34. 10.1186/1745-6150-4-34, 2761302, 19788731.
-
(2009)
Biol Direct
, vol.4
, pp. 34
-
-
Bapteste, E.1
O'Malley, M.A.2
Beiko, R.G.3
Ereshefsky, M.4
Gogarten, J.P.5
Franklin-Hall, L.6
Lapointe, F.J.7
Dupre, J.8
Dagan, T.9
Boucher, Y.10
-
52
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990, 215:403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
53
-
-
3042666256
-
MUSCLE: multiple sequence alignment with high accuracy and high throughput
-
10.1093/nar/gkh340, 390337, 15034147
-
Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucl Acids Res 2004, 32(5):1792-1797. 10.1093/nar/gkh340, 390337, 15034147.
-
(2004)
Nucl Acids Res
, vol.32
, Issue.5
, pp. 1792-1797
-
-
Edgar, R.C.1
-
54
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
10.1080/10635150390235520, 14530136
-
Guindon S, Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 2003, 52:696-704. 10.1080/10635150390235520, 14530136.
-
(2003)
Syst Biol
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
55
-
-
0035031966
-
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
-
Whelan S, Goldman N. A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 2001, 18(5):691-699.
-
(2001)
Mol Biol Evol
, vol.18
, Issue.5
, pp. 691-699
-
-
Whelan, S.1
Goldman, N.2
-
56
-
-
0007507214
-
-
Marine Biological Laboratory, Woods Hole, MA
-
Holder ME, Roger A. PUZZLEBOOT 1999, Marine Biological Laboratory, Woods Hole, MA.
-
(1999)
PUZZLEBOOT
-
-
Holder, M.E.1
Roger, A.2
-
57
-
-
0036205377
-
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing
-
10.1093/bioinformatics/18.3.502, 11934758
-
Schmidt HA, Strimmer K, Vingron M, von Haeseler A. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 2002, 18:502-504. 10.1093/bioinformatics/18.3.502, 11934758.
-
(2002)
Bioinformatics
, vol.18
, pp. 502-504
-
-
Schmidt, H.A.1
Strimmer, K.2
Vingron, M.3
von Haeseler, A.4
-
58
-
-
80053918221
-
-
Berkeley, CA: University Herbarium, University of California
-
Felsenstein J. PHYLIP Manual v1.03 1993, Berkeley, CA: University Herbarium, University of California.
-
(1993)
PHYLIP Manual v1.03
-
-
Felsenstein, J.1
-
59
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
10.1093/bioinformatics/btg180, 12912839
-
Ronquist F, Huelsenbeck JP. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 2003, 19:1572-1574. 10.1093/bioinformatics/btg180, 12912839.
-
(2003)
Bioinformatics
, vol.19
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
60
-
-
0021277009
-
A new method for calculating evolutionary substitution rates
-
10.1007/BF02101990, 6429346
-
Lanave C, Preparata G, Saccone C, Serio G. A new method for calculating evolutionary substitution rates. Journal of molecular evolution 1984, 20(1):86-93. 10.1007/BF02101990, 6429346.
-
(1984)
Journal of molecular evolution
, vol.20
, Issue.1
, pp. 86-93
-
-
Lanave, C.1
Preparata, G.2
Saccone, C.3
Serio, G.4
-
61
-
-
18744382506
-
ProtTest: selection of best-fit models of protein evolution
-
10.1093/bioinformatics/bti263, 15647292
-
Abascal F, Zardoya R, Posada D. ProtTest: selection of best-fit models of protein evolution. Bioinformatics 2005, 21:2104-2105. 10.1093/bioinformatics/bti263, 15647292.
-
(2005)
Bioinformatics
, vol.21
, pp. 2104-2105
-
-
Abascal, F.1
Zardoya, R.2
Posada, D.3
-
62
-
-
45849154165
-
JModelTest: phylogenetic model averaging
-
10.1093/molbev/msn083, 18397919
-
Posada D. jModelTest: phylogenetic model averaging. Mol Biol Evol 2008, 25:1253-1256. 10.1093/molbev/msn083, 18397919.
-
(2008)
Mol Biol Evol
, vol.25
, pp. 1253-1256
-
-
Posada, D.1
-
63
-
-
79960943453
-
Multilevel populations and the evolution of antibiotic resistance through horizontal gene transfer
-
Epub May 2011
-
Andam C, Fournier G, Gogarten J. Multilevel populations and the evolution of antibiotic resistance through horizontal gene transfer. FEMS Microbiology Reviews 2011, Epub May 2011.
-
(2011)
FEMS Microbiology Reviews
-
-
Andam, C.1
Fournier, G.2
Gogarten, J.3
-
64
-
-
0036165760
-
Halocins and sulfolobicins: the emerging story of archaeal protein and peptide antibiotics
-
O'Connor E, Shand R. Halocins and sulfolobicins: the emerging story of archaeal protein and peptide antibiotics. J Ind Microbiol Biotech 2001, 28:23-31.
-
(2001)
J Ind Microbiol Biotech
, vol.28
, pp. 23-31
-
-
O'Connor, E.1
Shand, R.2
-
65
-
-
77954993696
-
Rooting the Ribosomal Tree of Life
-
10.1093/molbev/msq057, 20194428
-
Fournier GP, Gogarten JP. Rooting the Ribosomal Tree of Life. Mol Biol Evol 2010, 27(8):1792-1801. 10.1093/molbev/msq057, 20194428.
-
(2010)
Mol Biol Evol
, vol.27
, Issue.8
, pp. 1792-1801
-
-
Fournier, G.P.1
Gogarten, J.P.2
-
66
-
-
77956010582
-
Natural taxonomy in light of horizontal gene transfer
-
Andam CP, Williams D, Gogarten JP. Natural taxonomy in light of horizontal gene transfer. Biol Philos 2010, 25:589-602.
-
(2010)
Biol Philos
, vol.25
, pp. 589-602
-
-
Andam, C.P.1
Williams, D.2
Gogarten, J.P.3
-
67
-
-
79851505378
-
Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes
-
10.1371/journal.pgen.1001284, 3029252, 21298028
-
Treangen T, Rocha E. Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes. PLoS Genetics 2011, 7:e1001284. 10.1371/journal.pgen.1001284, 3029252, 21298028.
-
(2011)
PLoS Genetics
, vol.7
-
-
Treangen, T.1
Rocha, E.2
-
68
-
-
33745760575
-
Ancient horizontal gene transfer can benefit phylogenetic reconstruction
-
10.1016/j.tig.2006.05.004, 16730850
-
Huang J, Gogarten JP. Ancient horizontal gene transfer can benefit phylogenetic reconstruction. Trends Genet 2006, 22(7):361-366. 10.1016/j.tig.2006.05.004, 16730850.
-
(2006)
Trends Genet
, vol.22
, Issue.7
, pp. 361-366
-
-
Huang, J.1
Gogarten, J.P.2
-
69
-
-
39549122214
-
Did an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?
-
10.1186/gb-2007-8-6-r99, 2394758, 17547748
-
Huang J, Gogarten P. Did an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?. Genome Biol 2007, 8(6):R99. 10.1186/gb-2007-8-6-r99, 2394758, 17547748.
-
(2007)
Genome Biol
, vol.8
, Issue.6
-
-
Huang, J.1
Gogarten, P.2
-
70
-
-
4944233611
-
PhyloGenie: automated phylome generation and analysis
-
10.1093/nar/gkh867, 521674, 15459293
-
Frickey T, Lupas AN. PhyloGenie: automated phylome generation and analysis. Nucleic Acids Res 2004, 32(17):5231-5238. 10.1093/nar/gkh867, 521674, 15459293.
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.17
, pp. 5231-5238
-
-
Frickey, T.1
Lupas, A.N.2
-
71
-
-
14844328170
-
Horizontal gene transfer: A new taxonomic principle?
-
New York: Academic Press, Syvanen M, Kado CI, 2
-
Olendzenski L, Zhaxybayeva O, Gogarten JP. Horizontal gene transfer: A new taxonomic principle?. Horizontal Gene Transfer 2002, 427-435. New York: Academic Press, Syvanen M, Kado CI, 2.
-
(2002)
Horizontal Gene Transfer
, pp. 427-435
-
-
Olendzenski, L.1
Zhaxybayeva, O.2
Gogarten, J.P.3
|