中国网柄细胞状黏菌分子系统学研究
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摘要
基于ITS和18S rRNA基因片段对我国网柄细胞状黏菌进行分类学研究。以11种网柄细胞状黏菌为研究对象,对网柄菌进行多基因片段的扩增与分析,并构建系统发育树。共得到基因序列42条,其中ITS基因序列26条,18S rRNA基因序列16条,系统发育树表明,在物种鉴定上,分子系统学方法具有较高的准确性,但是亲缘关系分支与形态分类学并不完全一致。
In order to explore the taxonomy based on multigene sequences and fill up the blank of dictyostelid cellular slime molds( dictyostelids) in molecular researches from China,eleven species of dictyostelids were chosen in this study. Internal transcribed spacer( ITS) and 18 S rRNA gene sequences of these dictyostelids were amplified and analyzed,and then molecular phylogeny of these dictyostelids were constructed with parallel internal transcribed spacer and 18 S rRNA gene datasets.There are 42 sequences obtained from these dictyostelids,including 26 sequences of ITS and 16 sequences of 18 S rRNA gene sequences. The systematic tree showed that methods of molecular systems provide higher accuracy in species identification,but the phylogenetic branch is not completely consistent with the morphological taxonomy.
In order to explore the taxonomy based on multigene sequences and fill up the blank of dictyostelid cellular slime molds( dictyostelids) in molecular researches from China,eleven species of dictyostelids were chosen in this study. Internal transcribed spacer( ITS) and 18 S rRNA gene sequences of these dictyostelids were amplified and analyzed,and then molecular phylogeny of these dictyostelids were constructed with parallel internal transcribed spacer and 18 S rRNA gene datasets.There are 42 sequences obtained from these dictyostelids,including 26 sequences of ITS and 16 sequences of 18 S rRNA gene sequences. The systematic tree showed that methods of molecular systems provide higher accuracy in species identification,but the phylogenetic branch is not completely consistent with the morphological taxonomy.
引文
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[6] Brefeld O. Dictyostelium mucoroides. Ein neuer organismus und der verwandschaft der myxomyceten[J]. Abh Senckenbergischen Naturforsch Ges,1869,7:85-107.
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[8] Hagiwara H. The taxonomic study of Japanese dictyostelid cellular slime molds[M]. Tokyo:National Science Museum,1989:131.
[9] Mc Carroll R,Olsen G J,Stahl Y D,et al. Nucleotide sequence of the Dictyostelium discoideum small-subunit ribosomal ribonucleic acid inferred from the gene sequence:evolutionary implications[J]. Biochemistry,1983,22:5858-5868.
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[11] Schaap P,Winckler T,Nelson M,et al. Molecular phylogeny and evolution of morphology in the social amoebas[J]. Science,2006,314:661-663.
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[18] He Xiaolan,Li Yu. Three new records of dictyostelids in China[J].Mycosystema,2008,27(4):532-537.
[19] He Xiaolan,Li Yu. A new species of Dictyostelium from Tibet,China[J]. Mycotaxon,2010,111:287-290.
[20]刘朴.网柄细胞状黏菌的分类学与分子系统学研究[D].长春:吉林农业大学,2010.
[21] Liu Pu,Li Yu. New records of dictyostelids from China[J].Nova Hedwigia,2012,94(3/4):429-436.
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[24]任玉卓.中国热带与寒温带部分地区网柄菌的分布研究[D].长春:吉林农业大学,2013.
[25]李超.河南省和湖南省区网柄菌的分类学研究[D].长春:吉林农业大学,2013.
[26]赵明君.中国华东部分地区网柄菌的分类学研究[D].长春:吉林农业大学,2014.
[27] Hagiwara H,Yeh Z Y,Chien C Y. Dictyostelid cellular slime molds of Taiwan[J]. Bull Natn Sci Mus,Ser B,1992,18(2):39-52.
[28] Yeh Z Y. Biodiversity inventory of dictyostelid cellular slime molds in Taiwan[J]. Mycotaxon,2003,86:103-110.
[29] Yeh Z Y,Chen M J. Notes on dictyostelid cellular slime molds from Taiwan(2):Dictyostelium exiguum and its ITS-5. 8 S r DNA sequences[J]. Mycotaxon,2004,89(2):489-496.
[30] Sheikh S,Thulin M,Cavender J C,et al.A new classification of the Dictyostelids[J]. Protist,2018,169:1-28.
[31] Pai S C,Whung P Y,Lai R L. Pre-concentration efficiency of Chelex-100 resin for heavy metals in seawater:part 1.effects of p H and salts on the distribution ratios of heavy metals[J]. Analytica Chimica Acta,1988,211:257-270.
[32] White T J,Bruns T,Lee S,et al. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics,PCR Protocols:a guide to methods and applications[M]. San Diegoi:Academic Press,1990:315-322.
[33] Douglas T E,Kronforst M R,Queller D C,et al. Genetic diversity in the social amoeba Dictyostelium discoideum:population differentiation and cryptic species[J]. Molecular Phylogenetics and Evolution,2011,60:455-462.
[34] Ronquist F,Teslenko M,Mark P V D,et al. Mr Bayes 3. 2:Efficient bayesian phylogenetic inference and model choice across a large model space[J]. Systematic Biology,2012,61(3):539-542.
[35] Posada D,Buckley T R. Model selection and model averaging in phylogenetics:advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests[J]. Systematic Biology,2004,53(5):793-808.
[36] Baldauf S L,Romeralo M,Fizpalacios O,et al.A deep hidden diversity of Dictyostelia[J]. Protist,2018,169:64-78.
[2] Lee J J,Hutner S H,Bovee E C. An illustrated guide to the Protozoa[M]. Kansas:Society of Protozoologists,1985:629.
[3]秦翊玮,秦问敏.微孢子虫的进化起源与系统分类现状[J].菌物研究,2018,16(2):106-114.
[4]周艳辉,刘朴,李玉.网柄细胞状黏菌的化学成分及药理作用研究进展[J].菌物研究,2017,17(1):57-62.
[5] HAWKSWORTH David L,姚一建.深圳植物学大会有关菌物命名法的重要决定[J].菌物研究,2018,16(1):10-16.
[6] Brefeld O. Dictyostelium mucoroides. Ein neuer organismus und der verwandschaft der myxomyceten[J]. Abh Senckenbergischen Naturforsch Ges,1869,7:85-107.
[7] Raper K B. The Dictyostelids[M]. New Jersey:Princeton University Press,1984:1-6.
[8] Hagiwara H. The taxonomic study of Japanese dictyostelid cellular slime molds[M]. Tokyo:National Science Museum,1989:131.
[9] Mc Carroll R,Olsen G J,Stahl Y D,et al. Nucleotide sequence of the Dictyostelium discoideum small-subunit ribosomal ribonucleic acid inferred from the gene sequence:evolutionary implications[J]. Biochemistry,1983,22:5858-5868.
[10] Trivios-Lagos L,Ohmachi T,Albrightson C,et al. The highly divergent alpha-and beta-tubulins from Dictyostelium discoideum are encoded by single genes[J]. Journal of Cell Science,1993,105:903-911.
[11] Schaap P,Winckler T,Nelson M,et al. Molecular phylogeny and evolution of morphology in the social amoebas[J]. Science,2006,314:661-663.
[12] Romeralo M,Spiegel F W,Baldauf S L. A fully resolved phylogeny of the social Amoebas(Dictyostelia)based on combined SSU and ITS r DNA Sequences[J]. Protist,2010,161:539-548.
[13] Romeralo M,Cavender J C,Landolt J C. An expanded phylogeny of social amoebas(Dictyostelia)shows increasing diversity and new morphological patterns[J].BMC Evolutionary Biology,2011:11-84.
[14]白容霖.集胞菌的初步研究[D].长春:吉林农业大学,1983.
[15]崔俊涛.东北地区网柄菌属分类研究[D].长春:吉林农业大学,1991.
[16]何晓兰.中国网柄菌科分类学初步研究[D].长春:吉林农业大学,2008.
[17] He Xiaolan,Li Yu. A new species of Dictyostelium[J]. Mycotaxon,2008,106:379-383.
[18] He Xiaolan,Li Yu. Three new records of dictyostelids in China[J].Mycosystema,2008,27(4):532-537.
[19] He Xiaolan,Li Yu. A new species of Dictyostelium from Tibet,China[J]. Mycotaxon,2010,111:287-290.
[20]刘朴.网柄细胞状黏菌的分类学与分子系统学研究[D].长春:吉林农业大学,2010.
[21] Liu Pu,Li Yu. New records of dictyostelids from China[J].Nova Hedwigia,2012,94(3/4):429-436.
[22] Liu Pu,Li Yu. Dictyostelids from Jilin Province,China.Ⅰ[J].Phytotaxa,2014,183(4):429-436.
[23]袁海艳.中国西南部分地区网柄菌的分类学研究[D].长春:吉林农业大学,2012.
[24]任玉卓.中国热带与寒温带部分地区网柄菌的分布研究[D].长春:吉林农业大学,2013.
[25]李超.河南省和湖南省区网柄菌的分类学研究[D].长春:吉林农业大学,2013.
[26]赵明君.中国华东部分地区网柄菌的分类学研究[D].长春:吉林农业大学,2014.
[27] Hagiwara H,Yeh Z Y,Chien C Y. Dictyostelid cellular slime molds of Taiwan[J]. Bull Natn Sci Mus,Ser B,1992,18(2):39-52.
[28] Yeh Z Y. Biodiversity inventory of dictyostelid cellular slime molds in Taiwan[J]. Mycotaxon,2003,86:103-110.
[29] Yeh Z Y,Chen M J. Notes on dictyostelid cellular slime molds from Taiwan(2):Dictyostelium exiguum and its ITS-5. 8 S r DNA sequences[J]. Mycotaxon,2004,89(2):489-496.
[30] Sheikh S,Thulin M,Cavender J C,et al.A new classification of the Dictyostelids[J]. Protist,2018,169:1-28.
[31] Pai S C,Whung P Y,Lai R L. Pre-concentration efficiency of Chelex-100 resin for heavy metals in seawater:part 1.effects of p H and salts on the distribution ratios of heavy metals[J]. Analytica Chimica Acta,1988,211:257-270.
[32] White T J,Bruns T,Lee S,et al. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics,PCR Protocols:a guide to methods and applications[M]. San Diegoi:Academic Press,1990:315-322.
[33] Douglas T E,Kronforst M R,Queller D C,et al. Genetic diversity in the social amoeba Dictyostelium discoideum:population differentiation and cryptic species[J]. Molecular Phylogenetics and Evolution,2011,60:455-462.
[34] Ronquist F,Teslenko M,Mark P V D,et al. Mr Bayes 3. 2:Efficient bayesian phylogenetic inference and model choice across a large model space[J]. Systematic Biology,2012,61(3):539-542.
[35] Posada D,Buckley T R. Model selection and model averaging in phylogenetics:advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests[J]. Systematic Biology,2004,53(5):793-808.
[36] Baldauf S L,Romeralo M,Fizpalacios O,et al.A deep hidden diversity of Dictyostelia[J]. Protist,2018,169:64-78.