根虫瘟霉和相关种的分类地位研究及其ITS核苷酸序列分析
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摘要
根虫瘟霉是最常见的一种虫霉,寄主广泛,世界广布。目前有学者认为该种是个复寄主的根虫瘟霉及其近缘类群总计19个菌株,进行3个靶位点(ITèU合种。S、LSU D本研究对世界不同地区和不同rDNA、RPB2)的分子系统发育学分析。结果显示,根虫瘟霉ITS长度较为保守性,介于1 321–1 324bp之间,而所研究的虫霉亚门的其他类群的长度范围较大,为556–1654bp。本研究确认根虫瘟霉是单系种,同时西虫瘟霉、矛孢虫瘟霉和英吉利虫瘟霉具有明确种的分类地位。鬼笔状虫瘟霉种应该被视为西虫瘟霉的异名。
Zoophthora radicans with wide host range and global distribution is one of the most ubiquitous species of entomophthoroid fungi. To explicate the taxonomic position of Z. radicans and its related species, comparison and phylogenetic analyses of sequence data of three target loci, nuclear 28 S rDNA, ITS region and the protein-coding RPB2, from 15 Z. radicans isolates and four other Zoophthora species were performed. Analysis result showed that the length of entire ITS in Z. radicans ranging 1 321–1 324 bp is conservative, however, the ITS length in other entomophthoroid species ranging 556–1 654 bp is diverse. Phylogenetic tree confirms that Z. radicans is monophyletic, and the species status of Z. occidentalis, Z. anglica and Z. lanceolata is explicit. Z. phalloides may be regarded as a synonym of Z. occidentalis.
Zoophthora radicans with wide host range and global distribution is one of the most ubiquitous species of entomophthoroid fungi. To explicate the taxonomic position of Z. radicans and its related species, comparison and phylogenetic analyses of sequence data of three target loci, nuclear 28 S rDNA, ITS region and the protein-coding RPB2, from 15 Z. radicans isolates and four other Zoophthora species were performed. Analysis result showed that the length of entire ITS in Z. radicans ranging 1 321–1 324 bp is conservative, however, the ITS length in other entomophthoroid species ranging 556–1 654 bp is diverse. Phylogenetic tree confirms that Z. radicans is monophyletic, and the species status of Z. occidentalis, Z. anglica and Z. lanceolata is explicit. Z. phalloides may be regarded as a synonym of Z. occidentalis.
引文
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Gryganskyi AP,Humber RA,Smith ME,Hodge K,Huang B,Voigt K,Vilgalys R,2013.Phylogenetic lineages in Entomophthoromycota.Persoonia,30:94-105
Humber RA,1989.Synopsis of a revised classification for the Entomophthorales(Zygomycotina).Mycotaxon,34:441-460
Lacey LA,1997.Manual of techniques in insect pathology.UKAcademic Press,Harcourt Brace&Company,London.1-409
Li ZZ,Fan MZ,Huang B,2000.Flora fungorum sinicorum.Vol.13.Entomophthorales.Science Press,Beijing.1-168(in Chinese)
Liu M,Rombach MC,Humber RA,Hodge KT,2005.What’s in a name?Aschersonia insperata:a new pleoanamorphic fungus with characteristics of Aschersonia and Hirsutella.Mycologia,97:246-253
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Spatafora JW,Chang Y,Benny GL,Lazarus K,Smith ME,Berbee ML,Bonito G,Corradi N,Grigoriev I,Gryganskyi A,James TY,O’Donnell K,Roberson RW,Taylor TN,Uehling J,Vilgalys R,White MM,Stajich JE,2016.Aphylum-level phylogenetic classification of zygomycete fungi based on genomescale data.Mycologia,108(5):1028-1046
Thompson JD,Higgins DG,Gibson TJ,1994.Clustal W:improving the sensitivity of progressive multiple sequence alignment through sequence weighting,position-specific gap penalties and weight matrix choice.Nucleic Acids Research,22:4673-4680
Vilgalys R,Hester M,1990.Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species.Journal of Bacteriology,172:4238-4246
White TJ,Bruns T,Lee S,Taylor J,1990.Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics.In:Innis MA,Gelfand DH,Sninsky JJ,White TJ(eds.)PCR protocols:a guide to methods and applications.Academic Press,San Diego.315-322
Yang RH,Su JH,Shang JJ,Wu YY,Li Y,Bao DP,Yao YJ,2018.Evaluation of the ribosomal DNA internal transcribed spacer(ITS),specifically ITS1 and ITS2,for the analysis of fungal diversity by deep sequencing.PLoS One,13(10):https://doi.org/10.1371/journal.pone.0206428
Zhu H,Qu F,Zhu LH,1994.Isolation of genomic DNAs from fungi using benzyl chloride.Acta Mycological Sinica,13:41-47(in Chinese)
李增智，樊美珍，黄勃，2000．中国真菌志.第十三卷（虫霉目）．科学出版社．1-168
朱衡，瞿峰，朱立煌，1994．利用氯化苄提取适于分子生物学分析的真菌DNA．真菌学报，13(1):34-40
Batko A,1964.On the new genera:Zoophthora gen.nov.,Triplosporium(Thaxter)gen.nov.,and Entomophaga gen.nov.(Phycomycetes:Entomophthoraceae).Bulletin de l’Academie Polonaise des Sciences,Série des Sciences Biologiques,12:323-326
Glare TR,Milner RJ,Chilvers GA,Mahon RJ,Brown WV,1987.Taxonomic implications of intraspecific variation amongst isolates of the aphid-pathogenic fungi Zoophthora radicans Brefeld and Z.phalloides Batko(Zygomycetes,Entomophthoraceae).Australian Journal of Botany,35:49-67
Gryganskyi AP,Humber RA,Miadlikovska J,Smith ME,Wu S,Voigt K,Walther G,Anishchenko IM,Vilgalys R,2012.Molecular phylogeny of the Entomophthoromycota.Molecular Phylogeny and Evolution,65:682-694
Gryganskyi AP,Humber RA,Smith ME,Hodge K,Huang B,Voigt K,Vilgalys R,2013.Phylogenetic lineages in Entomophthoromycota.Persoonia,30:94-105
Humber RA,1989.Synopsis of a revised classification for the Entomophthorales(Zygomycotina).Mycotaxon,34:441-460
Lacey LA,1997.Manual of techniques in insect pathology.UKAcademic Press,Harcourt Brace&Company,London.1-409
Li ZZ,Fan MZ,Huang B,2000.Flora fungorum sinicorum.Vol.13.Entomophthorales.Science Press,Beijing.1-168(in Chinese)
Liu M,Rombach MC,Humber RA,Hodge KT,2005.What’s in a name?Aschersonia insperata:a new pleoanamorphic fungus with characteristics of Aschersonia and Hirsutella.Mycologia,97:246-253
Posada D,Crandall KA,1998.MODELTEST:testing the model of DNA substitution.Bioinformatics,14:817-818
Rambaut A,2012.FigTree version 1.4.0.Available at http://tree.bio.ed.ac.uk/software/figtree/
Ronquist F,Huelsenbeck JP,2003.MRBAYES 3:Bayesian phylogenetic inference under mixed models.Bioinformatics,19:1572-1574
Silvestro D,Michalak I,2012.RaxmlGUI:a graphical front-end for RAxML.Organisms Diversity&Evolution,12:335-337
Spatafora JW,Chang Y,Benny GL,Lazarus K,Smith ME,Berbee ML,Bonito G,Corradi N,Grigoriev I,Gryganskyi A,James TY,O’Donnell K,Roberson RW,Taylor TN,Uehling J,Vilgalys R,White MM,Stajich JE,2016.Aphylum-level phylogenetic classification of zygomycete fungi based on genomescale data.Mycologia,108(5):1028-1046
Thompson JD,Higgins DG,Gibson TJ,1994.Clustal W:improving the sensitivity of progressive multiple sequence alignment through sequence weighting,position-specific gap penalties and weight matrix choice.Nucleic Acids Research,22:4673-4680
Vilgalys R,Hester M,1990.Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species.Journal of Bacteriology,172:4238-4246
White TJ,Bruns T,Lee S,Taylor J,1990.Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics.In:Innis MA,Gelfand DH,Sninsky JJ,White TJ(eds.)PCR protocols:a guide to methods and applications.Academic Press,San Diego.315-322
Yang RH,Su JH,Shang JJ,Wu YY,Li Y,Bao DP,Yao YJ,2018.Evaluation of the ribosomal DNA internal transcribed spacer(ITS),specifically ITS1 and ITS2,for the analysis of fungal diversity by deep sequencing.PLoS One,13(10):https://doi.org/10.1371/journal.pone.0206428
Zhu H,Qu F,Zhu LH,1994.Isolation of genomic DNAs from fungi using benzyl chloride.Acta Mycological Sinica,13:41-47(in Chinese)
李增智，樊美珍，黄勃，2000．中国真菌志.第十三卷（虫霉目）．科学出版社．1-168
朱衡，瞿峰，朱立煌，1994．利用氯化苄提取适于分子生物学分析的真菌DNA．真菌学报，13(1):34-40