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Insights into the genus Diaporthe: phylogenetic species delimitation in the D. eres species complex
Udayanga, Dhanushka1,2,3,4,5; Castlebury, Lisa A.5; Rossman, Amy Y.5; Chukeatirote, Ekachai3,4; Hyde, Kevin D.1,2,3,4; Hyde,KD (reprint author),Chinese Acad Sci,Kunming Inst Bot,Key Lab Plant Divers & Biogeog East Asia,Kunming 650201,Peoples R China.; kdhyde3@gmail.com
2014-07-01
Source PublicationFUNGAL DIVERSITY
ISSN1560-2745
Volume67Issue:1Pages:203-229
Contribution Rank第一
AbstractThe genus Diaporthe comprises pathogenic, endophytic and saprobic species with both temperate and tropical distributions. Cryptic diversification, phenotypic plasticity and extensive host associations have long complicated accurate identifications of species in this genus. The delimitation of the generic type species Diaporthe eres has been uncertain due to the lack of ex-type cultures. Species limits of D. eres and closely related species were evaluated using molecular phylogenetic analysis of eight genes including nuclear ribosomal internal transcribed spacer (ITS), partial sequences of actin (ACT), DNA-lyase (Apn2), translation elongation factor 1- alpha (EF1-alpha), beta-tubulin (TUB), calmodulin (CAL), 60s ribosomal protein L37 (FG1093) and histone-3 (HIS). The occurrence of sequence heterogeneity of ITS within D. eres is observed, which complicates the analysis and may lead to overestimation of the species diversity. The strict criteria of Genealogical Concordance Phylogenetic Species Recognition (GCPSR) were applied to resolve species boundaries based on individual and combined analyses of other seven genes except the ITS. We accept nine distinct phylogenetic species including Diaporthe alleghaniensis, D. alnea, D. bicincta, D. celastrina, D. eres, D. helicis, D. neilliae, D. pulla and D. vaccinii. Epitypes are designated for D. alnea, D. bicincta, D. celastrina, D. eres, D. helicis and D. pulla. Modern descriptions and illustrations are provided for these species. Newly designed primers are introduced to amplify and sequence the Apn2 (DNA- lyase) gene in Diaporthe. Based on phylogenetic informativeness profiles, EF1-alpha, Apn2 and HIS genes are recognised as the best markers for defining species in the D. eres complex.
KeywordDiaporthaceae Dna-lyase Epitypification Gene Discordance Generic Type Molecular Phylogeny New Primers Phylogenetic Informativeness Speciation
Subject AreaMycology
DOI10.1007/s13225-014-0297-2
Indexed BySCI
Language英语
WOS Research AreaMycology
WOS SubjectMycology
WOS IDWOS:000342427300008
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Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/18411
Collection资源植物与生物技术所级重点实验室
Corresponding AuthorHyde,KD (reprint author),Chinese Acad Sci,Kunming Inst Bot,Key Lab Plant Divers & Biogeog East Asia,Kunming 650201,Peoples R China.; kdhyde3@gmail.com
Affiliation1.Chinese Acad Sci, Kunming Inst Bot, Key Lab Plant Divers & Biogeog East Asia, Kunming 650201, Peoples R China
2.World Agroforestry Ctr, Kunming 650201, Peoples R China
3.Mae Fah Luang Univ, Inst Excellence Fungal Res, Chiang Rai 57100, Thailand
4.Mae Fah Luang Univ, Sch Sci, Chiang Rai 57100, Thailand
5.ARS, Systemat Mycol & Microbiol Lab, USDA, Beltsville, MD 20705 USA
Recommended Citation
GB/T 7714
Udayanga, Dhanushka,Castlebury, Lisa A.,Rossman, Amy Y.,et al. Insights into the genus Diaporthe: phylogenetic species delimitation in the D. eres species complex[J]. FUNGAL DIVERSITY,2014,67(1):203-229.
APA Udayanga, Dhanushka.,Castlebury, Lisa A..,Rossman, Amy Y..,Chukeatirote, Ekachai.,Hyde, Kevin D..,...&kdhyde3@gmail.com.(2014).Insights into the genus Diaporthe: phylogenetic species delimitation in the D. eres species complex.FUNGAL DIVERSITY,67(1),203-229.
MLA Udayanga, Dhanushka,et al."Insights into the genus Diaporthe: phylogenetic species delimitation in the D. eres species complex".FUNGAL DIVERSITY 67.1(2014):203-229.
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