메뉴 건너뛰기




Volumn 104, Issue 6, 2012, Pages 1325-1350

Multigene phylogenetic analyses of the Thelonectria coronata and T. veuillotiana species complexes

Author keywords

Ascomycota; Fungi; Homothallic; Hypocreales; Neonectria; Phylogenetic analyses; Species concept; Taxonomy

Indexed keywords

ACTIN; FUNGAL DNA; FUNGAL PROTEIN; RIBOSOMAL SPACER DNA; RIBOSOME DNA; RNA POLYMERASE II; TUBULIN;

EID: 84871774560     PISSN: 00275514     EISSN: 15572536     Source Type: Journal    
DOI: 10.3852/12-055     Document Type: Article
Times cited : (18)

References (69)
  • 1
    • 0002961523 scopus 로고
    • Principles of genealogical concordance in species concepts and biological taxonomy
    • In: Futuyma D, Antonovics J, eds
    • Avise JC, Ball RM. 1990. Principles of genealogical concordance in species concepts and biological taxonomy. In: Futuyma D, Antonovics J, eds. Oxford Surv Evol Biol 7:45-67.
    • (1990) Oxford Surv Evol Biol , vol.7 , pp. 45-67
    • Avise, J.C.1    Ball, R.M.2
  • 2
    • 0036699888 scopus 로고    scopus 로고
    • The utility of the incongruence length difference test
    • Barker FK, Lutzoni FM. 2002. The utility of the incongruence length difference test. Syst Biol 51:625-637
    • (2002) Syst Biol , vol.51 , pp. 625-637
    • Barker, F.K.1    Lutzoni, F.M.2
  • 3
    • 0026911267 scopus 로고
    • Split decomposition: a new and useful approach to phylogenetic analysis of distance data
    • Bandelt HJ, Dress AW. 1992. Split decomposition: a new and useful approach to phylogenetic analysis of distance data. Mol Phylogenet Evol 1:242-252
    • (1992) Mol Phylogenet Evol , vol.1 , pp. 242-252
    • Bandelt, H.J.1    Dress, A.W.2
  • 5
    • 0002379062 scopus 로고
    • Studies of pyrenomycete
    • Booth C. 1959. Studies of pyrenomycete. IV. Nectria 1. Mycol Pap 73:1-115.
    • (1959) IV. Nectria 1. Mycol Pap , vol.73 , pp. 1-115
    • Booth, C.1
  • 6
    • 0005290754 scopus 로고
    • Some didymosporous species of Nectria with non-microconidial Cylindrocarpon anamorphs
    • Brayford D, Samuels GJ. 1993. Some didymosporous species of Nectria with non-microconidial Cylindrocarpon anamorphs. Mycologia 85:612-637
    • (1993) Mycologia , vol.85 , pp. 612-637
    • Brayford, D.1    Samuels, G.J.2
  • 7
    • 33646167864 scopus 로고    scopus 로고
    • A simple and robust statistical test to detect the presence of recombination
    • Bruen TC, Philippe H, Bryant D. 2006. A simple and robust statistical test to detect the presence of recombination. Genetics 172:2665-2681
    • (2006) Genetics , vol.172 , pp. 2665-2681
    • Bruen, T.C.1    Philippe, H.2    Bryant, D.3
  • 8
    • 0038124573 scopus 로고    scopus 로고
    • Sex slows down the accumulation of deleterious mutations in the homothallic fungus Aspergillus nidulans
    • Bruggeman J, Debets AJM, Wijngaarden PJ, de Vieser JA, Hoekstra RF. 2003. Sex slows down the accumulation of deleterious mutations in the homothallic fungus Aspergillus nidulans. Genetics 164:479-485.
    • (2003) Genetics , vol.164 , pp. 479-485
    • Bruggeman, J.1    Debets, A.J.M.2    Wijngaarden, P.J.3    de Vieser, J.A.4    Hoekstra, R.F.5
  • 9
    • 1542347067 scopus 로고    scopus 로고
    • Neighbor-net: an agglomerative method for the construction of phylogenetic networks
    • Bryant D, Moulton V. 2004. Neighbor-net: an agglomerative method for the construction of phylogenetic networks. Mol Biol Evol 21:255-265
    • (2004) Mol Biol Evol , vol.21 , pp. 255-265
    • Bryant, D.1    Moulton, V.2
  • 11
    • 77957089810 scopus 로고    scopus 로고
    • Inferring process from pattern in fungal population genetics
    • Arora DK, Khachatourians GG, eds
    • Carbone I, Kohn L. 2004. Inferring process from pattern in fungal population genetics. In: Arora DK, Khachatourians GG, eds. Applied mycology & biotechnology 4: fungal genomics, p 29-58.
    • (2004) Applied mycology & biotechnology fungal genomics , vol.4 , pp. 29-58
    • Carbone, I.1    Kohn, L.2
  • 12
    • 79955772059 scopus 로고    scopus 로고
    • Delimitation of Nectria and Cylindrocarpon (Nectriaceae, Hypocreales Ascomycota) and related genera with Cylindrocarpon-like anamorphs
    • Chaverri P, Salgado C, Hirooka Y, Rossman AY, Samuels GJ. 2011. Delimitation of Nectria and Cylindrocarpon (Nectriaceae, Hypocreales, Ascomycota) and related genera with Cylindrocarpon-like anamorphs. Stud Mycol 68:57-68
    • (2011) Stud Mycol , vol.68 , pp. 57-68
    • Chaverri, P.1    Salgado, C.2    Hirooka, Y.3    Rossman, A.Y.4    Samuels, G.J.5
  • 13
    • 58649097912 scopus 로고    scopus 로고
    • Recombination Glomus intraradices a supposed ancient asexual arbuscular mycorrhizal fungus
    • Croll D, Sanders IR. 2009. Recombination in Glomus intraradices, a supposed ancient asexual arbuscular mycorrhizal fungus. BMC Evol Biol 9:13
    • (2009) BMC Evol Biol , vol.9 , pp. 13
    • Croll, D.1    Sanders, I.R.2
  • 14
    • 51549089796 scopus 로고    scopus 로고
    • A genealogical approach to quantifying lineage divergence
    • Cummings MP, Neel MC, Shaw KL. 2008. A genealogical approach to quantifying lineage divergence. Evolution 62:2411-2242
    • (2008) Evolution , vol.62 , pp. 2242-2411
    • Cummings, M.P.1    Neel, M.C.2    Shaw, K.L.3
  • 15
    • 0030816742 scopus 로고    scopus 로고
    • Can three incongruence tests predict when data should be combined?
    • Cunningham C. 1997. Can three incongruence tests predict when data should be combined? Mol Biol Evol 14:432- 437.
    • (1997) Mol Biol Evol , vol.14 , pp. 432-437
    • Cunningham, C.1
  • 16
    • 0004220649 scopus 로고    scopus 로고
    • Contributions of a model organism. New York: Oxford Univ. Press
    • Davis RH. 2000. Neurospora. Contributions of a model organism. New York: Oxford Univ. Press. p 261-282.
    • (2000) Neurospora , pp. 261-282
    • Davis, R.H.1
  • 17
    • 84902300566 scopus 로고
    • Bouquet de champignons nouveaux observés dans le Midi de la France et en Algérie (1879-1880)
    • Debeaux O, Trabut A, Therry J, Telesphore, Roumeguere C. 1880. Bouquet de champignons nouveaux observés dans le Midi de la France et en Algérie (1879-1880). Rev Mycol, Toulouse 2:187-191.
    • (1880) Rev Mycol, Toulouse , vol.2 , pp. 187-191
    • Debeaux, O.1    Trabut, A.2    Therry, J.3    Telesphore4    Roumeguere, C.5
  • 19
    • 0344863884 scopus 로고    scopus 로고
    • A multilocus genealogical approach to phylogenetic species recognition in the model eukaryote Neurospora
    • Dettman JR, Jacobson DJ, Taylor JW. 2003. A multilocus genealogical approach to phylogenetic species recognition in the model eukaryote Neurospora. Evolution 57:2703-2720.
    • (2003) Evolution , vol.57 , pp. 2703-2720
    • Dettman, J.R.1    Jacobson, D.J.2    Taylor, J.W.3
  • 20
    • 36048932661 scopus 로고    scopus 로고
    • Using the putative asexual fungus Cenococcum geophilum as a model to test how species concepts influence recombination analyses using sequence data from multiple loci
    • Douhan GW, Martin DP, Rizzo DM. 2007. Using the putative asexual fungus Cenococcum geophilum as a model to test how species concepts influence recombination analyses using sequence data from multiple loci. Curr Genet 52: 191-201
    • (2007) Curr Genet , vol.52 , pp. 191-201
    • Douhan, G.W.1    Martin, D.P.2    Rizzo, D.M.3
  • 21
    • 77950526917 scopus 로고    scopus 로고
    • The Trichoderma harzianum demon: complex speciation history resulting in coexistence of hypothetical biological species, recent agamospecies and numerous relict lineages
    • Druzhinina IS, Kubicek CP, Komon-Zelazowska M, Belayneh M, Bissett J. 2010. The Trichoderma harzianum demon: complex speciation history resulting in coexistence of hypothetical biological species, recent agamospecies and numerous relict lineages. BMC Evol Biol 10:94
    • (2010) BMC Evol Biol , vol.10 , pp. 94
    • Druzhinina, I.S.1    Kubicek, C.P.2    Komon-Zelazowska, M.3    Belayneh, M.4    Bissett, J.5
  • 22
    • 33750206871 scopus 로고    scopus 로고
    • Homothallism in Sclerotinia minor
    • Ekins M, Aitken EA, Coulter KC. 2006. Homothallism in Sclerotinia minor. Mycol Res 110: 1193- 1199
    • (2006) Mycol Res , vol.110 , pp. 1193-1199
    • Ekins, M.1    Aitken, E.A.2    Coulter, K.C.3
  • 23
    • 0029468060 scopus 로고
    • Constructing a significance test from incongruence
    • Farris JS. 1995. Constructing a significance test from incongruence. Syst Biol 44:570-572.
    • (1995) Syst Biol , vol.44 , pp. 570-572
    • Farris, J.S.1
  • 24
    • 84989432221 scopus 로고
    • Testing significance of incongruence
    • Farris JS, Kallersjo M, Kludge AG, Bult C. 1994. Testing significance of incongruence. Cladistics 10:315-319, doi:10.1111/j.1096-0031.1994.tb00181.x
    • (1994) Cladistics , vol.10 , pp. 315-319
    • Farris, J.S.1    Kallersjo, M.2    Kludge, A.G.3    Bult, C.4
  • 25
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: an approach using the bootstrap
    • Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 27
    • 33646589012 scopus 로고    scopus 로고
    • Partition of the Botrytis cinerea complex in France using multiple gene genealogies
    • Fournier E, Giraud T, Albertini C, Brygoo Y. 2005. Partition of the Botrytis cinerea complex in France using multiple gene genealogies.Mycologia 97:1251-1267
    • (2005) Mycologia , vol.97 , pp. 1251-1267
    • Fournier, E.1    Giraud, T.2    Albertini, C.3    Brygoo, Y.4
  • 28
    • 0031940433 scopus 로고    scopus 로고
    • Cryptic speciation and recombination in the aflatoxin-producing fungus Aspergillus flavus
    • Geiser DM, Pitt JI, Taylor JW. 1998. Cryptic speciation and recombination in the aflatoxin-producing fungus Aspergillus flavus. Proc Natl Acad Sci USA 95:388- 393
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 388-393
    • Geiser, D.M.1    Pitt, J.I.2    Taylor, J.W.3
  • 29
    • 47049093932 scopus 로고    scopus 로고
    • Mating system of the anther smut fungus Microbotryum violaceum: selfing under heterothallism
    • Giraud T, Yockteng R, Lopez-Villavicencio M, Refregier G, Hood ME. 2008. Mating system of the anther smut fungus Microbotryum violaceum: selfing under heterothallism. Eukaryot Cell 7:765-775
    • (2008) Eukaryot Cell , vol.7 , pp. 765-775
    • Giraud, T.1    Yockteng, R.2    Lopez-Villavicencio, M.3    Refregier, G.4    Hood, M.E.5
  • 30
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon S, Gascuel O. 2003. A simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696-704
    • (2003) Syst Biol , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 31
    • 34249982031 scopus 로고    scopus 로고
    • Nectriaceous fungi collected from forest in Taiwan
    • Guu J-R, Ju Y-M, Hsieh H-J. 2007. Nectriaceous fungi collected from forest in Taiwan. Bot Stud 48:187-203.
    • (2007) Bot Stud , vol.48 , pp. 187-203
    • Guu, J.-R.1    Ju, Y.-M.2    Hsieh, H.-J.3
  • 32
    • 33750068291 scopus 로고    scopus 로고
    • Neonectria amamiensis and Cylindrocarpon amamiense, a new nectrioid fungus and its sporodochial anamorph on Pinus luchuensis from Japan
    • Hirooka Y, Kobayashi T, Natsuaki KT, Aoki T. 2006. Neonectria amamiensis and Cylindrocarpon amamiense, a new nectrioid fungus and its sporodochial anamorph on Pinus luchuensis from Japan. Mycoscience 47:248- 256
    • (2006) Mycoscience , vol.47 , pp. 248-256
    • Hirooka, Y.1    Kobayashi, T.2    Natsuaki, K.T.3    Aoki, T.4
  • 33
    • 11144277878 scopus 로고    scopus 로고
    • Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models
    • Huelsenbeck JP, Rannala B. 2004. Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models. Syst Biol 53:904-913
    • (2004) Syst Biol , vol.53 , pp. 904-913
    • Huelsenbeck, J.P.1    Rannala, B.2
  • 35
    • 30744470609 scopus 로고    scopus 로고
    • Application of phylogenetic networks in evolutionary studies
    • Huson DH, Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23:254- 267
    • (2006) Mol Biol Evol , vol.23 , pp. 254-267
    • Huson, D.H.1    Bryant, D.2
  • 36
    • 45949107473 scopus 로고    scopus 로고
    • Recent developments in the MAFFT multiple sequence alignment program
    • Katoh K, Toh H. 2008. Recent developments in the MAFFT multiple sequence alignment program. Brief Bioinform 9:286-298
    • (2008) Brief Bioinform , vol.9 , pp. 286-298
    • Katoh, K.1    Toh, H.2
  • 37
    • 0030995435 scopus 로고    scopus 로고
    • Concordance of gene genealogies reveals reproductive isolation in the pathogenic fungus Coccidioides immitis
    • Koufopanou V, Burt A, Taylor JW. 1997. Concordance of gene genealogies reveals reproductive isolation in the pathogenic fungus Coccidioides immitis. Proc Natl Acad Sci USA 94:5478-5482
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 5478-5482
    • Koufopanou, V.1    Burt, A.2    Taylor, J.W.3
  • 38
    • 65249121956 scopus 로고    scopus 로고
    • Isolation and characterization of codominant markers for the perennial canker fungal pathogen Neonectria ditissima
    • Marra RE, Corwin JA. 2009. Isolation and characterization of codominant markers for the perennial canker fungal pathogen Neonectria ditissima. Mol Ecol Resour 9:906- 909
    • (2009) Mol Ecol Resour , vol.9 , pp. 906-909
    • Marra, R.E.1    Corwin, J.A.2
  • 40
    • 6044276713 scopus 로고    scopus 로고
    • Using phylogenetic species recognition to delimit species boundaries within Lasiosphaeria
    • Miller AN, Huhndorf SM. 2004. Using phylogenetic species recognition to delimit species boundaries within Lasiosphaeria. Mycologia 96:1106-1127
    • (2004) Mycologia , vol.96 , pp. 1106-1127
    • Miller, A.N.1    Huhndorf, S.M.2
  • 41
    • 84966179879 scopus 로고
    • Evolution of reproductive systems in filamentous ascomycetes I Evolution ofmating types
    • Nauta MJ, Hoekstra RF. 1992. Evolution of reproductive systems in filamentous ascomycetes I. Evolution ofmating types. Heredity 68:405-410
    • (1992) Heredity , vol.68 , pp. 405-410
    • Nauta, M.J.1    Hoekstra, R.F.2
  • 43
    • 0347395522 scopus 로고
    • Diagnoses fungorum novorum in insula Java collectorum II
    • Penzig AJO, Saccardo PA. 1897. Diagnoses fungorum novorum in insula Java collectorum II. Malpighia 11: 491-530.
    • (1897) Malpighia , vol.11 , pp. 491-530
    • Penzig, A.J.O.1    Saccardo, P.A.2
  • 44
    • 0036097812 scopus 로고    scopus 로고
    • Evaluation of methods for detecting recombination from DNA sequences: empirical data
    • Posada D. 2002. Evaluation of methods for detecting recombination from DNA sequences: empirical data. Mol Biol Evol 19:708-717
    • (2002) Mol Biol Evol , vol.19 , pp. 708-717
    • Posada, D.1
  • 45
    • 45849154165 scopus 로고    scopus 로고
    • jModeltest: phylogenetic model averaging
    • Posada D. 2008. jModeltest: phylogenetic model averaging. Mol Biol Evol 25:1253-1256
    • (2008) Mol Biol Evol , vol.25 , pp. 1253-1256
    • Posada, D.1
  • 48
    • 0004004204 scopus 로고
    • A mycological color chart. Commonwealth Mycological Institute
    • UK. 34 Rambaut A. 2005. FigTree 1.3.1
    • Rayner RW. 1970. A mycological color chart. Commonwealth Mycological Institute, Kew, Surrey, UK. 34 p. Rambaut A. 2005. FigTree 1.3.1. http://tree.bio.ed.ac.uk/software/figtree/
    • (1970) Kew, Surrey
    • Rayner, R.W.1
  • 49
  • 51
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes Bayesian phylogenetic inference under mixed models
    • Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574
    • (2003) Bioinformatics , Issue.3 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 53
    • 0002647275 scopus 로고
    • Species of Nectria (sensu lato) with red perithecia and striate ascospores
    • Samuels GJ, Brayford D. 1994. Species of Nectria (sensu lato) with red perithecia and striate ascospores. Sydowia 46:75-161.
    • (1994) Sydowia , vol.46 , pp. 75-161
    • Samuels, G.J.1    Brayford, D.2
  • 55
    • 84859972408 scopus 로고    scopus 로고
    • Fungal Barcoding Consortium Nuclear ribosomal internal transcribed spacer (ITS) region as a universalDNA barcode marker for fungi
    • Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, ChenW, Fungal Barcoding Consortium. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universalDNA barcode marker for fungi. ProcNatl Acad Sci USA 109:6241-6246
    • (2012) ProcNatl Acad Sci USA , vol.109 , pp. 6241-6246
    • Schoch, C.L.1    Seifert, K.A.2    Huhndorf, S.3    Robert, V.4    Spouge, J.L.5    Levesque, C.A.6    Chen, W.7
  • 56
    • 65349088516 scopus 로고    scopus 로고
    • Progress toward DNA barcoding of fungi
    • Seifert KA. 2009. Progress toward DNA barcoding of fungi. Mol Ecol Resour 9(Suppl. 1): 83-89
    • (2009) Mol Ecol Resour , vol.9 , Issue.SUPPL. 1 , pp. 83-89
    • Seifert, K.A.1
  • 57
    • 80755149686 scopus 로고    scopus 로고
    • How to describe a new fungal species
    • Seifert KA, Rossman AY. 2011. How to describe a new fungal species. IMA Fungus 1:109-116
    • (2011) IMA Fungus , vol.1 , pp. 109-116
    • Seifert, K.A.1    Rossman, A.Y.2
  • 58
    • 0042011260 scopus 로고    scopus 로고
    • Delimiting species: a renaissance issue in systematic biology
    • Sites JW, Marshall JC. 2003. Delimiting species: a renaissance issue in systematic biology. Trends Ecol Evol 18: 462-470
    • (2003) Trends Ecol Evol , vol.18 , pp. 462-470
    • Sites, J.W.1    Marshall, J.C.2
  • 59
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: maximum likelihoodbased phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihoodbased phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688- 2690
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 61
    • 84871765444 scopus 로고    scopus 로고
    • PAUPz.ast; 4.0a114: phylogenetic analysis using parsimony (z.ast;and other methods)
    • Swofford DL. 2000. PAUPz.ast; 4.0a114: phylogenetic analysis using parsimony (z.ast;and other methods). Sunderland, Massachusetts: Sinauer Associates.
    • (2000) Sunderland, Massachusetts: Sinauer Associates
    • Swofford, D.L.1
  • 62
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance and maximum parsimony methods
    • Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance and maximum parsimony methods. Mol Biol Evol 28:2731-2739
    • (2011) Mol Biol Evol , vol.28 , pp. 2731-2739
    • Tamura, K.1    Peterson, D.2    Peterson, N.3    Stecher, G.4    Nei, M.5    Kumar, S.6
  • 63
  • 64
    • 0032693223 scopus 로고    scopus 로고
    • The evolution of asexual fungi: reproduction, speciation and classification
    • Taylor JW, Jacobson DJ, Fisher MC. 1999. The evolution of asexual fungi: reproduction, speciation and classification. Annu Rev Phytopathol 37:197-246
    • (1999) Annu Rev Phytopathol , vol.37 , pp. 197-246
    • Taylor, J.W.1    Jacobson, D.J.2    Fisher, M.C.3
  • 67
    • 0032884643 scopus 로고    scopus 로고
    • Recombination and the power of statistical tests of neutrality
    • Wall JD. 1999. Recombination and the power of statistical tests of neutrality. Genet Res Camb 74:65-79
    • (1999) Genet Res Camb , vol.74 , pp. 65-79
    • Wall, J.D.1
  • 68
    • 79956150568 scopus 로고    scopus 로고
    • Consequences of reproductive mode on genome evolution of fungi
    • Whittle CA, Nygren K, Johannesson H. 2011. Consequences of reproductive mode on genome evolution of fungi. Fungal Genet Biol 48:661-667
    • (2011) Fungal Genet Biol , vol.48 , pp. 661-667
    • Whittle, C.A.1    Nygren, K.2    Johannesson, H.3
  • 69
    • 38149072385 scopus 로고    scopus 로고
    • New species and new Chinese records of Bionectriaceae and Nectriaceae (Hypocreales, Ascomycetes) from Hubei
    • Zhuang W-Y, Nong Y, Luo J. 2007. New species and new Chinese records of Bionectriaceae and Nectriaceae (Hypocreales, Ascomycetes) from Hubei, China. Fungal Divers 24:347-357.
    • (2007) China. Fungal Divers , vol.24 , pp. 347-357
    • Zhuang, W.-Y.1    Nong, Y.2    Luo, J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.