| Application of the first internal transcribed spacer(ITS-1) of ribosomal DNA as a molecular marker to population analysis in farrer's scallop Chlamys farreri |
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| 作者姓名： | YU Ziniu WEI Xiaohu KONG Xiaoyu YU Shanshan |
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| 作者单位： | [1]Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China [2]. Key Laboratory of Mariculture of Ministry of Education, Ocean University of China, Qingdao 266003, China |
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| 基金项目： | 国家高技术研究发展计划(863计划)
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国家自然科学基金 |
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| 摘 要： | Sequence variation of the first internal transcribed spacer of ribosomal DNA （ ITS - 1 ） was examined and its application to the study of genetic variation was explored in four populations of farter＇ s scallop Chlamys farreri. ITS - 1 fragments, with a length of about 300 bp,of 78 individuals collected from Dalian, Qingdao, Yantai in China and Korea respectively were amplified via PCR, cloned and sequenced. Intra-genomic variation was examined by sequencing several clones of single individuals. Alignment and polymorphism analysis detected 44 haplotypes and 50 polymorphic sites which consist of 30 substitutions and 20 indels, indicating a high level of polymorphisms. Sequence analysis also showed a very low level of intra-individual variation. All these features validated the feasibility of application of ITS - 1 fragment to population analysis. Polymorphism analysis showed that the Korea sample has the richest genetic variation, followed by Yantai and Qingdao samples. AMOVA （analysis of molecular variance） showed that the majority （96.26%） of genetic variation was distributed within populations and 3.74% resulted from among populations, but with P 〈 0.05 （ = 0.042）, indicating that the populations in this study have significant divergence. This output was basically concordant with the result arising from RAPD data and different from that from mitochondrial 16S rDNA sequence data. Discussion on this inconsistency was made accordingly.
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| 关 键 词： | 栉孔扇贝 DNA序列 遗传变异 分子标记 群体分析 |
| 收稿时间： | 2006-01-20 |
| 修稿时间： | 2006-04-30 |
Application of the first internal transcribed spacer(ITS-1) of ribosomal DNA as a molecular marker to population analysis in farrer's scallop Chlamys farreri |
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| YU Ziniu,WEI Xiaohu,KONG Xiaoyu,YU Shanshan.Application of the first internal transcribed spacer(ITS-1) of ribosomal DNA as a molecular marker to population analysis in farrer''s scallop Chlamys farreri[J].Acta Oceanologica Sinica,2007,26(1):93-100. |
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| Authors: | YU Ziniu WEI Xiaohu KONG Xiaoyu and YU Shanshan |
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| Institution: | 1.Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China2.Key Laboratory of Mariculture of Ministry of Education, Ocean University of China, Qingdao 266003, China |
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| Abstract: | Sequence variation of the first internal transcribed spacer of ribosomal DNA (ITS-1) was examined and its application to the study of genetic variation was explored in four populations of farrer's scallop Chlamys farreri. ITS-1 fragments,with a length of about 300 bp,of 78 individuals collected from Dalian, Qingdao, Yantai in China and Korea respectively were amplified via PCR, cloned and sequenced. Intra-genomic variation was examined by sequencing several clones of single individuals. Alignment and polymorphism analysis detected 44 haplotypes and 50 polymorphic sites which consist of 30 substitutions and 20 indels, indicating a high level of polymorphisms. Sequence analysis also showed a very low level of intra-individual variation. All these features validated the feasibility of application of ITS-1 fragment to population analysis. Polymorphism analysis showed that the Korea sample has the richest genetic variation, followed by Yantai and Qingdao samples. AMOVA (analysis of molecular variance) showed that the majority (96.26%) of genetic variation was distributed within populations and 3.74% resulted from among populations, but with P＜0.05 (= 0.042), indicating that the populations in this study have significant divergence. This output was basically concordant with the result arising from RAPD data and different from that from mitochondrial 16S rDNA sequence data. Discussion on this inconsistency was made accordingly. |
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| Keywords: | Chlamys farreri farrer's scallop internal transcribed spacer (ITS-1) DNA sequence genetic variation spacer transcribed internal Application population analysis molecular marker Discussion inconsistency output result RAPD different mitochondrial rDNA data significant divergence distributed variance AMOVA |
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