Genetic variability in Gymnodiniaceae ITS regions: implications for species identification and phylogenetic analysis
Genetic variability in Gymnodiniaceae ITS regions: implications for species identification and phylogenetic analysis
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DOI：
10.1007/s00227-003-1157-x
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发表时间：
2004-02
期刊：
影响因子：
2.4
通讯作者：
Peng Shao;Yue‐Qin Chen;Hui Zhou;Jie Yuan;L. Qu;Di Zhao;Yong-Shui Lin
中科院分区：
文献类型：
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作者：
Peng Shao;Yue‐Qin Chen;Hui Zhou;Jie Yuan;L. Qu;Di Zhao;Yong-Shui Lin
对来自几种有毒裸甲藻科菌株的内转录间隔区 (ITS) 区域和 5.8S rRNA 基因进行了测序，并与其他裸甲藻科物种进行了系统发育分析。序列比对表明，裸甲藻科，特别是裸甲藻属存在较高的序列差异。 Amphidinium 和 Gyrodinium 物种的 ITS 区域的扩增子分别为 438-439 和 604-605 bp，而 Gymnodinium 物种的扩增子范围为 575 至 615 bp。根据ITS序列计算，Gymnodinium内的平均距离值为0.68827（范围：0-0.92323），Amphidinium为0.11342（范围：0.00467-0.17120），Karenia为0.2005（范围：0.00521-0.29971）。在Gyrodinium instriatum(<0.01)和Karlodinium micrum(<0.02)种内发现了低距离值。Amphidinium的ITS明显短于裸甲科其他属，这意味着Aphidinium可能与其他裸甲科较远，并支持Saunders关于Aphidinium需要重新评估分类的观点。通过最大简约法（PAUP）、最大似然法（PAUP）和贝叶斯推理（MrBayes）生成了高度一致的系统发育树，而这三种分析表明裸甲藻属和卡伦甲藻属是系统发育中未解决的类群。在 Amphidinium carterae 的不同克隆中发现了较小的序列差异，表明 ITS 区域适合作为属和种特异性寡核苷酸探针来快速检测和识别形成赤潮的藻类物种。
The internal transcribed spacer (ITS) regions and 5.8S rRNA genes from several strains of toxic Gymnodiniaceae were sequenced and subjected to phylogenetic analysis with other Gymnodiniaceae species. Sequence comparisons showed that high sequence divergence existed in Gymnodiniaceae, especially in the genusGymnodinium. The amplicons of the ITS regions fromAmphidiniumandGyrodiniumspecies were 438–439 and 604–605 bp, respectively, and those of theGymnodiniumspecies ranged from 575 to 615 bp. The mean distance value withinGymnodinium, calculated from the ITS sequence, was 0.68827 (range: 0–0.92323), 0.11342 forAmphidinium(range: 0.00467–0.17120) and 0.2005 forKarenia(range: 0.00521–0.29971). Low distance values were found within the speciesGyrodinium instriatum(<0.01) andKarlodinium micrum(<0.02).Amphidiniumremarkably had a shorter ITS than did other genera in Gymnodiniaceae, this implied thatAmphidiniummight be distant from the other Gymnodiniaceae and supported Saunders’ opinion that the taxonomy ofAmphidiniumneeds to be reevaluated. Largely congruent phylogenetic trees were produced by the maximum-parsimony method (PAUP), maximum-likelihood method (PAUP) and Bayesian inference (MrBayes), whereas the three analyses showed that the generaGymnodiniumandKareniaare unresolved groups in phylogeny. Minor sequence divergence was found within the different clones ofAmphidinium carterae, suggesting that the ITS regions are suitable as genus- and species-specific oligonucleotide probes to rapidly detect and identify the red tide-forming algal species.