메뉴 건너뛰기




Volumn 63, Issue 2, 2006, Pages 231-239

Evidence for positive selection on a sexual reproduction gene in the diatom genus Thalassiosira (Bacillariophyta)

Author keywords

Likelihood methods; Negative selection; Nonsynonymous substitution; Positive selection; Sexual reproduction gene; Synonymous substitution; Thalassiosira

Indexed keywords

ARTICLE; CODON; CONTROLLED STUDY; DATA ANALYSIS; DIATOM; GENE EXPRESSION; GENE SEQUENCE; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PERFORMANCE; REPRODUCTION; SIMULATION;

EID: 33746468945     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-006-0016-z     Document Type: Article
Times cited : (19)

References (43)
  • 1
    • 0033053201 scopus 로고    scopus 로고
    • Identification of a new gene family expressed during the onset of sexual reproduction in the centric diatom Thalassiosira weissflogii
    • Armbrust EV (1999) Identification of a new gene family expressed during the onset of sexual reproduction in the centric diatom Thalassiosira weissflogii. Appl Environ Microbiol 65:3121-3128
    • (1999) Appl Environ Microbiol , vol.65 , pp. 3121-3128
    • Armbrust, E.V.1
  • 2
    • 0035434109 scopus 로고    scopus 로고
    • Rapid evolution of a sexual reproduction gene in centric diatoms of the genus Thalassiosira
    • Armbrust EV, Galindo HM (2001) Rapid evolution of a sexual reproduction gene in centric diatoms of the genus Thalassiosira. Appl Environ Microbiol 67:3501-3513
    • (2001) Appl Environ Microbiol , vol.67 , pp. 3501-3513
    • Armbrust, E.V.1    Galindo, H.M.2
  • 3
    • 0034604156 scopus 로고    scopus 로고
    • Molecular evidence for genetic mixing of Arctic and Antarctic subpolar population of planktonic forminifers
    • Darling KF, Wade CM, Stewart IA, Kroon D, Dingle R, Brown AJL (2000) Molecular evidence for genetic mixing of Arctic and Antarctic subpolar population of planktonic forminifers. Nature 405:43-47
    • (2000) Nature , vol.405 , pp. 43-47
    • Darling, K.F.1    Wade, C.M.2    Stewart, I.A.3    Kroon, D.4    Dingle, R.5    Brown, A.J.L.6
  • 4
    • 2442650351 scopus 로고    scopus 로고
    • Molecular evidence links cryptic diversification in polar planktonic protests to Quaternary climate dynamics
    • USA
    • Darling KF, Kucera M, Pudsey CJ, Wade CM (2004) Molecular evidence links cryptic diversification in polar planktonic protests to Quaternary climate dynamics. Proc Natl Acad Sci USA 101:7657-7662
    • (2004) Proc Natl Acad Sci , vol.101 , pp. 7657-7662
    • Darling, K.F.1    Kucera, M.2    Pudsey, C.J.3    Wade, C.M.4
  • 5
    • 0032980049 scopus 로고    scopus 로고
    • Molecular evidence of cryptic speciation in planktonic foraminifers and their relation to oceanic provinces
    • USA
    • De Vargas C, Norris R, Zaninetti L, Gibb SW, Pawlowski J (1999) Molecular evidence of cryptic speciation in planktonic foraminifers and their relation to oceanic provinces. Proc Natl Acad Sci USA 96:2864-2868
    • (1999) Proc Natl Acad Sci , vol.96 , pp. 2864-2868
    • De Vargas, C.1    Norris, R.2    Zaninetti, L.3    Gibb, S.W.4    Pawlowski, J.5
  • 6
    • 0000639320 scopus 로고
    • Sexuality
    • Werner D (ed) University of California Press, Berkeley
    • Drebes G (1977) Sexuality. In: Werner D (ed) The biology of diatoms. University of California Press, Berkeley, pp 250-283
    • (1977) The Biology of Diatoms , pp. 250-283
    • Drebes, G.1
  • 7
    • 0034020911 scopus 로고    scopus 로고
    • Phylogenetic analysis of diatoms cox I genes and implications of a fluctuating GC content on mitochondrial genetic code evolution
    • Ehara M, Inagaki Y, Watanabe KI, Ohama T (2000) Phylogenetic analysis of diatoms cox I genes and implications of a fluctuating GC content on mitochondrial genetic code evolution. Curr Genet 37:29-33
    • (2000) Curr Genet , vol.37 , pp. 29-33
    • Ehara, M.1    Inagaki, Y.2    Watanabe, K.I.3    Ohama, T.4
  • 8
    • 0346336037 scopus 로고    scopus 로고
    • RpoA: A useful gene for phylogenetic analysis in diatoms
    • Fox M, Sorhannus U (2003) RpoA: A useful gene for phylogenetic analysis in diatoms. J Eukaryot Microbiol 50:471-475
    • (2003) J Eukaryot Microbiol , vol.50 , pp. 471-475
    • Fox, M.1    Sorhannus, U.2
  • 9
    • 33645241687 scopus 로고    scopus 로고
    • Molecular phylogeny of selected members of the order Thalssiosirales (Bacillariophyta) and evolution of the fultoportula
    • Kaczmarska I, Beaton M, Benoit AC, Medlin LK (2006) Molecular phylogeny of selected members of the order Thalssiosirales (Bacillariophyta) and evolution of the fultoportula. J Phycol 42:121-138
    • (2006) J Phycol , vol.42 , pp. 121-138
    • Kaczmarska, I.1    Beaton, M.2    Benoit, A.C.3    Medlin, L.K.4
  • 10
    • 0030341926 scopus 로고    scopus 로고
    • Evolution of the diatoms (Bacillariophyta). IV. A reconstruction of their age from small subunit rRNA coding regions and the fossil record
    • Kooistra WHCF, Medlin LK (1996) Evolution of the diatoms (Bacillariophyta). IV. A reconstruction of their age from small subunit rRNA coding regions and the fossil record. Mol Phylogenet Evol 6:391-407
    • (1996) Mol Phylogenet Evol , vol.6 , pp. 391-407
    • Kooistra, W.H.C.F.1    Medlin, L.K.2
  • 11
    • 0037329410 scopus 로고    scopus 로고
    • The phylogenetic position of Toxarium, a pennate-like lineage within centric diatoms (Bacillariophyceae)
    • Kooistra WHCF, De Stefano M, Mann DG, Salma N, Medlin LK (2003) The phylogenetic position of Toxarium, a pennate-like lineage within centric diatoms (Bacillariophyceae). J Phycol 39:185-197
    • (2003) J Phycol , vol.39 , pp. 185-197
    • Kooistra, W.H.C.F.1    De Stefano, M.2    Mann, D.G.3    Salma, N.4    Medlin, L.K.5
  • 12
    • 17744396121 scopus 로고    scopus 로고
    • Not so different after all: A comparison of methods for detecting amino-acid sites under selection
    • Kosakovsky Pond SL, Frost SDW (2005) Not so different after all: a comparison of methods for detecting amino-acid sites under selection. Mol Biol Evol 22:1208-1222
    • (2005) Mol Biol Evol , vol.22 , pp. 1208-1222
    • Kosakovsky Pond, S.L.1    Frost, S.D.W.2
  • 13
    • 27844569825 scopus 로고    scopus 로고
    • Site-to-site variation in synonymous substitution rates
    • Kosakovsky Pond SL, Muse SV (2005) Site-to-site variation in synonymous substitution rates. Mol Biol Evol 22(12):2375-2385
    • (2005) Mol Biol Evol , vol.22 , Issue.12 , pp. 2375-2385
    • Kosakovsky Pond, S.L.1    Muse, S.V.2
  • 14
    • 17744395033 scopus 로고    scopus 로고
    • Datamonkey: Rapid detection of selective pressure on individual sites of codon alignments
    • Kosakovsky Pond SL, Simon SDW (2005) Datamonkey: rapid detection of selective pressure on individual sites of codon alignments. Bioinformatics 21(10):2531-2533
    • (2005) Bioinformatics , vol.21 , Issue.10 , pp. 2531-2533
    • Kosakovsky Pond, S.L.1    Simon, S.D.W.2
  • 16
    • 0033384725 scopus 로고    scopus 로고
    • Species concepts in diatoms
    • Mann DG (1999) Species concepts in diatoms. Phycologia 38:437-495
    • (1999) Phycologia , vol.38 , pp. 437-495
    • Mann, D.G.1
  • 17
    • 2542421957 scopus 로고    scopus 로고
    • Evolution of the diatoms: V. Morphological and cytological support for the major clades and a taxonomic revision
    • Medlin LK, Kaczmarska I (2004) Evolution of the diatoms: V. Morphological and cytological support for the major clades and a taxonomic revision. Phycologia 43:245-270
    • (2004) Phycologia , vol.43 , pp. 245-270
    • Medlin, L.K.1    Kaczmarska, I.2
  • 18
    • 0028024626 scopus 로고
    • A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome
    • Muse SV, Gaut BS (1994) A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. Mol Biol Evol 11:715-724
    • (1994) Mol Biol Evol , vol.11 , pp. 715-724
    • Muse, S.V.1    Gaut, B.S.2
  • 19
    • 0034474483 scopus 로고    scopus 로고
    • Pelagic species diversity, biogeography and Evolution
    • Erwin DH, Wing SL (eds) Allen Press, Lawrence, KS
    • Norris RD (2000) Pelagic species diversity, biogeography and Evolution. In: Erwin DH, Wing SL (eds) Deep time: paleobiology's perspective. Allen Press, Lawrence, KS, pp 236-258
    • (2000) Deep Time: Paleobiology's Perspective , pp. 236-258
    • Norris, R.D.1
  • 20
    • 0030203863 scopus 로고    scopus 로고
    • TREEVIEW: An application to display phylogeneticrees on personal computers
    • Page RDM (1996) TREEVIEW: An application to display phylogeneticrees on personal computers. Comp Appl Biosci 12:357-358
    • (1996) Comp Appl Biosci , vol.12 , pp. 357-358
    • Page, R.D.M.1
  • 21
    • 0028164409 scopus 로고
    • Genetic divergence, reproductive isolation and marine speciation
    • Palumbi SR (1994) Genetic divergence, reproductive isolation and marine speciation. Annu Rev Ecol Syst 25:547-572
    • (1994) Annu Rev Ecol Syst , vol.25 , pp. 547-572
    • Palumbi, S.R.1
  • 23
    • 1342290847 scopus 로고    scopus 로고
    • Genetic differentiation among populations of planktonic marine diatom Ditylum brightwellii (Bacillariophyceae)
    • Rynearson T, Armbrust VE (2004) Genetic differentiation among populations of planktonic marine diatom Ditylum brightwellii (Bacillariophyceae). J Phycol 40:34-43
    • (2004) J Phycol , vol.40 , pp. 34-43
    • Rynearson, T.1    Armbrust, V.E.2
  • 24
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
    • (1987) Mol Biol Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 26
    • 84907319426 scopus 로고
    • Asymptotic properties of maximum likelihood estimators and likelihood ratio test statistic under nonstandard conditions
    • Self SG, Liang K-Y (1987) Asymptotic properties of maximum likelihood estimators and likelihood ratio test statistic under nonstandard conditions. JASA 82(398):605-610
    • (1987) JASA , vol.82 , Issue.398 , pp. 605-610
    • Self, S.G.1    Liang, K.-Y.2
  • 27
    • 0009377772 scopus 로고
    • Ideas for a more natural system of the centric diatoms
    • Simonsen R (1972) Ideas for a more natural system of the centric diatoms. Nova Hedwigia 29:37-54
    • (1972) Nova Hedwigia , vol.29 , pp. 37-54
    • Simonsen, R.1
  • 28
    • 0002821474 scopus 로고
    • The diatom system: Ideas on phylogeny
    • Simonsen R (1979) The diatom system: ideas on phylogeny. Bacillaria 2:9-71
    • (1979) Bacillaria , vol.2 , pp. 9-71
    • Simonsen, R.1
  • 29
    • 0031466209 scopus 로고    scopus 로고
    • The origination time of diatoms: An analysis based on ribosomal RNA data
    • Sorhannus U (1997) The origination time of diatoms: an analysis based on ribosomal RNA data. Micropaleontology 43:215-218
    • (1997) Micropaleontology , vol.43 , pp. 215-218
    • Sorhannus, U.1
  • 30
    • 0041571680 scopus 로고    scopus 로고
    • The effect of positive selection on a sexual reproduction gene in Thalassiosira weissflogii (Bacillariophyta): Results obtained from maximum likelihood and parsimony-based methods
    • Sorhannus U (2003) The effect of positive selection on a sexual reproduction gene in Thalassiosira weissflogii (Bacillariophyta): results obtained from maximum likelihood and parsimony-based methods. Mol Biol Evol 20:1326-1328
    • (2003) Mol Biol Evol , vol.20 , pp. 1326-1328
    • Sorhannus, U.1
  • 31
    • 11144222285 scopus 로고    scopus 로고
    • Diatom phylogenetics inferred based on direct optimization of nuclear-encoded SSU rRNA sequences
    • Sorhannus U (2004) Diatom phylogenetics inferred based on direct optimization of nuclear-encoded SSU rRNA sequences. Cladistics 20:487-497
    • (2004) Cladistics , vol.20 , pp. 487-497
    • Sorhannus, U.1
  • 32
    • 0029140048 scopus 로고
    • A preliminary phylogeny of diatoms based on 28S ribosomal RNA sequence data
    • Sorhannus U, Gasse F, Perasso R, Baroin-Tourancheau A (1995) A preliminary phylogeny of diatoms based on 28S ribosomal RNA sequence data. Phycologia 34:65-73
    • (1995) Phycologia , vol.34 , pp. 65-73
    • Sorhannus, U.1    Gasse, F.2    Perasso, R.3    Baroin-Tourancheau, A.4
  • 33
    • 1942533483 scopus 로고    scopus 로고
    • False-positive selection identified by ML-based methods: Examples from the Sig1 gene of the diatom Thalassiosira weissflogii and the tax gene of a human T-cell lymphotropic virus
    • Suzuki Y, Nei M (2004) False-positive selection identified by ML-based methods: examples from the Sig1 gene of the diatom Thalassiosira weissflogii and the tax gene of a human T-cell lymphotropic virus. Mol Biol Evol 21:914-921
    • (2004) Mol Biol Evol , vol.21 , pp. 914-921
    • Suzuki, Y.1    Nei, M.2
  • 34
    • 0029061703 scopus 로고
    • Extraordinary divergence and positive Darwinian selection in a fusagenic protein coating the acrosomal process of abalone spermatozoa
    • USA
    • Swanson WJ, Vacquier VD (1995) Extraordinary divergence and positive Darwinian selection in a fusagenic protein coating the acrosomal process of abalone spermatozoa. Proc Natl Acad Sci USA 92:4957-4961
    • (1995) Proc Natl Acad Sci , vol.92 , pp. 4957-4961
    • Swanson, W.J.1    Vacquier, V.D.2
  • 36
    • 0035957018 scopus 로고    scopus 로고
    • Positive Darwinian selection drives the evolution of several female reproductive proteins in mammals
    • USA
    • Swanson WJ, Yang Z, Wolfner MF, Aquadro CF (2001) Positive Darwinian selection drives the evolution of several female reproductive proteins in mammals. Proc Natl Acad Sci USA 98:2509-2514
    • (2001) Proc Natl Acad Sci , vol.98 , pp. 2509-2514
    • Swanson, W.J.1    Yang, Z.2    Wolfner, M.F.3    Aquadro, C.F.4
  • 38
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in control region of mithocondrial DNA in humans and chimpanzees
    • Tamura K, Nei M (1993) Estimation of the number of nucleotide substitutions in control region of mithocondrial DNA in humans and chimpanzees. Mol Biol Evol 10:512-526
    • (1993) Mol Biol Evol , vol.10 , pp. 512-526
    • Tamura, K.1    Nei, M.2
  • 39
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 40
    • 0030969134 scopus 로고    scopus 로고
    • Positive selection and the molecular evolution of a gene of male reproduction, Acp26Aa of Drosophila
    • Tsaur SC, Wu CI (1997) Positive selection and the molecular evolution of a gene of male reproduction, Acp26Aa of Drosophila. Mol Biol Evol 14:544-549
    • (1997) Mol Biol Evol , vol.14 , pp. 544-549
    • Tsaur, S.C.1    Wu, C.I.2
  • 41
    • 0032566791 scopus 로고    scopus 로고
    • Evolution of gamete recognition proteins
    • Vacquier VD (1998) Evolution of gamete recognition proteins. Science 281:1995-1998
    • (1998) Science , vol.281 , pp. 1995-1998
    • Vacquier, V.D.1
  • 42
    • 0034688140 scopus 로고    scopus 로고
    • Rapid evolution of male reproductive genes in the descent of man
    • Wyckoff GJ, Wang W, Wu CI (2000) Rapid evolution of male reproductive genes in the descent of man. Nature 403:304-309
    • (2000) Nature , vol.403 , pp. 304-309
    • Wyckoff, G.J.1    Wang, W.2    Wu, C.I.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.