SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny
CNRS UMR 5558, Biométrie, Génétique et Biologie des Populations. Université Claude Bernard Lyon 1, 43, Boulevard du 11 novembre 1918, 69622 Villeurbanne cedex. France
1To whom correspondence should be addressed. E-mail galtier{at}biomserv.univ-lyonl.fr
SEA VIEW and PHYLO_WIN are two graphic tools for X Windows-Unix computers dedicated to sequence alignment and molecular phylogenetics. SEA VIEW is a sequence alignment editor allowing manual or automatic alignment through an interface with CLUSTALW program. Alignment of large sequences with extensive length differences is made easier by a dot-plot-based routine. The PHYLO_WIN program allows phylogenetic tree building according to most usual methods (neighbor joining with numerous distance estimates, maximum parsimony, maximum likelihood), and a bootstrap analysis with any of them. Reconstructed trees can be drawn, edited, printed, stored, evaluated according to numerous criteria. Taxonomic species groups and sets of conserved regions can be defined by mouse and stored into sequence files, thus avoiding multiple data files. Both tools are entirely mouse driven. On-line help makes them easy to use. They are freely available by anonymous ftp at biom3.univ-lyonl. fr/pub/ mol_phylogeny or http://acnuc.univ-lyonl.fr, or by e-mail to galtier{at}biomserv.univ-lyonl.fr.
Received on July 11, 1996; accepted on August 28, 1996
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|
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A. H. A. M. van Hoek, S. Mayrhofer, K. J. Domig, A. B. Florez, M. S. Ammor, B. Mayo, and H. J. M. Aarts Mosaic Tetracycline Resistance Genes and Their Flanking Regions in Bifidobacterium thermophilum and Lactobacillus johnsonii Antimicrob. Agents Chemother., January 1, 2008; 52(1): 248 - 252. [Abstract] [Full Text] [PDF]
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|
 D. Bass, A. Howe, N. Brown, H. Barton, M. Demidova, H. Michelle, L. Li, H. Sanders, S. C Watkinson, S. Willcock, et al. Yeast forms dominate fungal diversity in the deep oceans Proc R Soc B, December 22, 2007; 274(1629): 3069 - 3077. [Abstract] [Full Text] [PDF]
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 B. Cherif-Zahar, A. Durand, I. Schmidt, N. Hamdaoui, I. Matic, M. Merrick, and G. Matassi Evolution and Functional Characterization of the RH50 Gene from the Ammonia-Oxidizing Bacterium Nitrosomonas europaea J. Bacteriol., December 15, 2007; 189(24): 9090 - 9100. [Abstract] [Full Text] [PDF]
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A. Klevan, N. J. Tourasse, F. B. Stabell, A.-B. Kolsto, and O. A. Okstad Exploring the evolution of the Bacillus cereus group repeat element bcr1 by comparative genome analysis of closely related strains Microbiology, November 1, 2007; 153(11): 3894 - 3908. [Abstract] [Full Text] [PDF]
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T. Golubchik, M. J. Wise, S. Easteal, and L. S. Jermiin Mind the Gaps: Evidence of Bias in Estimates of Multiple Sequence Alignments Mol. Biol. Evol., November 1, 2007; 24(11): 2433 - 2442. [Abstract] [Full Text] [PDF]
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 N. Sharma, J. Bryant, D. Wloga, R. Donaldson, R. C. Davis, M. Jerka-Dziadosz, and J. Gaertig Katanin regulates dynamics of microtubules and biogenesis of motile cilia J. Cell Biol., September 7, 2007; 178(6): 1065 - 1079. [Abstract] [Full Text] [PDF]
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M. Pravenec, M. Hyakukoku, J. Houstek, V. Zidek, V. Landa, P. Mlejnek, I. Miksik, K. Dudova-Mothejzikova, P. Pecina, M. Vrbacky, et al. Direct linkage of mitochondrial genome variation to risk factors for type 2 diabetes in conplastic strains Genome Res., September 1, 2007; 17(9): 1319 - 1326. [Abstract] [Full Text] [PDF]
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D. P. Labeda, J. M. Donahue, S. F. Sells, and R. M. Kroppenstedt Lentzea kentuckyensis sp. nov., of equine origin Int J Syst Evol Microbiol, August 1, 2007; 57(8): 1780 - 1783. [Abstract] [Full Text] [PDF]
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 S. Mignard and J.-P. Flandrois Identification of Mycobacterium using the EF-Tu encoding (tuf) gene and the tmRNA encoding (ssrA) gene J. Med. Microbiol., August 1, 2007; 56(8): 1033 - 1041. [Abstract] [Full Text] [PDF]
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Y. Wang, S. Lechno-Yossef, Y. Gong, Q. Fan, C. P. Wolk, and X. Xu Predicted Glycosyl Transferase Genes Located outside the HEP Island Are Required for Formation of Heterocyst Envelope Polysaccharide in Anabaena sp. Strain PCC 7120 J. Bacteriol., July 15, 2007; 189(14): 5372 - 5378. [Abstract] [Full Text] [PDF]
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S. Ohene-Adjei, R. M. Teather, M. Ivan, and R. J. Forster Postinoculation Protozoan Establishment and Association Patterns of Methanogenic Archaea in the Ovine Rumen Appl. Envir. Microbiol., July 15, 2007; 73(14): 4609 - 4618. [Abstract] [Full Text] [PDF]
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V. Rodriguez-Nava, Z. U. Khan, G. Potter, R. M. Kroppenstedt, P. Boiron, and F. Laurent Nocardia coubleae sp. nov., isolated from oil-contaminated Kuwaiti soil Int J Syst Evol Microbiol, July 1, 2007; 57(7): 1482 - 1486. [Abstract] [Full Text] [PDF]
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 A. Garcel, J.-M. Crance, R. Drillien, D. Garin, and A.-L. Favier Genomic sequence of a clonal isolate of the vaccinia virus Lister strain employed for smallpox vaccination in France and its comparison to other orthopoxviruses J. Gen. Virol., July 1, 2007; 88(7): 1906 - 1916. [Abstract] [Full Text] [PDF]
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R. T. Souza, M. R. M. Santos, F. M. Lima, N. M. El-Sayed, P. J. Myler, J. C. Ruiz, and J. F. da Silveira New Trypanosoma cruzi Repeated Element That Shows Site Specificity for Insertion Eukaryot. Cell, July 1, 2007; 6(7): 1228 - 1238. [Abstract] [Full Text] [PDF]
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P. Narasingarao and M. M. Haggblom Identification of Anaerobic Selenate-Respiring Bacteria from Aquatic Sediments Appl. Envir. Microbiol., June 1, 2007; 73(11): 3519 - 3527. [Abstract] [Full Text] [PDF]
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F. Laurent, V. Rodriguez-Nava, L. Noussair, A. Couble, M.-H. Nicolas-Chanoine, and P. Boiron Nocardia ninae sp. nov., isolated from a bronchial aspirate Int J Syst Evol Microbiol, April 1, 2007; 57(4): 661 - 665. [Abstract] [Full Text] [PDF]
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M. Babcock, S. Yatsenko, P. Stankiewicz, J. R. Lupski, and B. E. Morrow AT-rich repeats associated with chromosome 22q11.2 rearrangement disorders shape human genome architecture on Yq12 Genome Res., April 1, 2007; 17(4): 451 - 460. [Abstract] [Full Text] [PDF]
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A. C. Doxey, M. W. F. Yaish, B. A. Moffatt, M. Griffith, and B. J. McConkey Functional Divergence in the Arabidopsis {beta}-1,3-Glucanase Gene Family Inferred by Phylogenetic Reconstruction of Expression States Mol. Biol. Evol., April 1, 2007; 24(4): 1045 - 1055. [Abstract] [Full Text] [PDF]
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 Y. Danin-Poleg, L. A. Cohen, H. Gancz, Y. Y. Broza, H. Goldshmidt, E. Malul, L. Valinsky, L. Lerner, M. Broza, and Y. Kashi Vibrio cholerae Strain Typing and Phylogeny Study Based on Simple Sequence Repeats J. Clin. Microbiol., March 1, 2007; 45(3): 736 - 746. [Abstract] [Full Text] [PDF]
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B. Brindefalk, J. Viklund, D. Larsson, M. Thollesson, and S. G. E. Andersson Origin and Evolution of the Mitochondrial Aminoacyl-tRNA Synthetases Mol. Biol. Evol., March 1, 2007; 24(3): 743 - 756. [Abstract] [Full Text] [PDF]
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J. Zluvova, M. Nicolas, A. Berger, I. Negrutiu, and F. Moneger Premature arrest of the male flower meristem precedes sexual dimorphism in the dioecious plant Silene latifolia PNAS, December 5, 2006; 103(49): 18854 - 18859. [Abstract] [Full Text] [PDF]
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G. Plotz, C. Welsch, L. Giron-Monzon, P. Friedhoff, M. Albrecht, A. Piiper, R. M. Biondi, T. Lengauer, S. Zeuzem, and J. Raedle Mutations in the MutS{alpha} interaction interface of MLH1 can abolish DNA mismatch repair Nucleic Acids Res., December 2, 2006; 34(22): 6574 - 6586. [Abstract] [Full Text] [PDF]
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S. M. Turner, R. R. Chaudhuri, Z.-D. Jiang, H. DuPont, C. Gyles, C. W. Penn, M. J. Pallen, and I. R. Henderson Phylogenetic Comparisons Reveal Multiple Acquisitions of the Toxin Genes by Enterotoxigenic Escherichia coli Strains of Different Evolutionary Lineages J. Clin. Microbiol., December 1, 2006; 44(12): 4528 - 4536. [Abstract] [Full Text] [PDF]
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A. Aouacheria, C. Geourjon, N. Aghajari, V. Navratil, G. Deleage, C. Lethias, and J.-Y. Exposito Insights into Early Extracellular Matrix Evolution: Spongin Short Chain Collagen-Related Proteins Are Homologous to Basement Membrane Type IV Collagens and Form a Novel Family Widely Distributed in Invertebrates Mol. Biol. Evol., December 1, 2006; 23(12): 2288 - 2302. [Abstract] [Full Text] [PDF]
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B. Piegu, R. Guyot, N. Picault, A. Roulin, A. Saniyal, H. Kim, K. Collura, D. S. Brar, S. Jackson, R. A. Wing, et al. Doubling genome size without polyploidization: Dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice Genome Res., October 1, 2006; 16(10): 1262 - 1269. [Abstract] [Full Text] [PDF]
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A. Pareek, A. Singh, M. Kumar, H. R. Kushwaha, A. M. Lynn, and S. L. Singla-Pareek Whole-Genome Analysis of Oryza sativa Reveals Similar Architecture of Two-Component Signaling Machinery with Arabidopsis Plant Physiology, October 1, 2006; 142(2): 380 - 397. [Abstract] [Full Text] [PDF]
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G. Delhon, E. R. Tulman, C. L. Afonso, Z. Lu, J. J. Becnel, B. A. Moser, G. F. Kutish, and D. L. Rock Genome of invertebrate iridescent virus type 3 (mosquito iridescent virus). J. Virol., September 1, 2006; 80(17): 8439 - 8449. [Abstract] [Full Text] [PDF]
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M.-P. Egloff, H. Malet, A. Putics, M. Heinonen, H. Dutartre, A. Frangeul, A. Gruez, V. Campanacci, C. Cambillau, J. Ziebuhr, et al. Structural and Functional Basis for ADP-Ribose and Poly(ADP-Ribose) Binding by Viral Macro Domains. J. Virol., September 1, 2006; 80(17): 8493 - 8502. [Abstract] [Full Text] [PDF]
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E. R. Tulman, G. Delhon, C. L. Afonso, Z. Lu, L. Zsak, N. T. Sandybaev, U. Z. Kerembekova, V. L. Zaitsev, G. F. Kutish, and D. L. Rock Genome of horsepox virus. J. Virol., September 1, 2006; 80(18): 9244 - 9258. [Abstract] [Full Text] [PDF]
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