| 引用本文: | 申欣,孙松,王海青,王敏晓,任建峰,张光涛,刘斌.南极磷虾(Euphausia superba)线粒体基因组特征及其分子标记应用.海洋与湖沼,2008,39(5):446-454. |
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| 南极磷虾(Euphausia superba)线粒体基因组特征及其分子标记应用 |
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申欣1,2, 孙松1,2, 王海青1,2, 王敏晓1,2, 任建峰1,2, 张光涛1, 刘斌1,3,2
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1.中国科学院海洋研究所 青岛266071;2.中国科学院研究生院 北京100039;3.中国科学院北京基因组研究所 北京100029
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| 摘要: |
| 为揭示南极磷虾(Eupahusia superba)(甲壳动物:软甲纲:磷虾目)线粒体基因组特征,及通过比较不同海域南极磷虾的线粒体基因组探讨潜在的分子标记,采用Long PCR扩增技术获得采自普里兹湾(Prydz Bay)南极磷虾线粒体基因组DNA,综合Primers-walking和Shotgun方法进行测序;通过生物信息学软件(DOGMA、tRNAscan-SE1.21和DnaSP4.10.7等)进行基因预测及序列分析。南极磷虾线粒体基因组全长15498 bp以上(部分非编码区未测定),包含13个蛋白编码基因、2个核糖体RNA基因和23个转运RNA基因。与后生动物线粒体基因组标准的基因组成相比,存在1个trnN基因的重复。南极磷虾线粒体基因组的基因排列与泛甲壳动物线粒体基因组的原始排列相比,出现4个转运RNA基因的易位: trnL1、trnL2、trnW和trnI以及1个trnN的重复。比较采自普里兹湾(Prydz Bay)和威德尔海(Weddell Sea)南极磷虾的线粒体基因组,作者发现在南极磷虾线粒体基因组的主编码基因中,变异最大的是nad2基因,差异位点高达61个,其次是nad5基因,差异位点有12个；而cox1基因的变异位点仅有3个。Nad2基因和nad5基因可作为cox1基因辅助的分子标记，用于分析南极磷虾不同地理种群之间的遗传多样性，为合理利用南极磷虾生物资源提供保障。 |
| 关键词: 南极磷虾 线粒体基因组 海洋生态 浮游动物 分子标记 |
| DOI：10.11693/hyhz200805003 |
| 分类号: |
| 基金项目:中国科学院百人计划项目:052417101Q |
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| MITOCHONDRIAL GENOMIC CHARACTERISTICS OF EUPHAUSIA SUPERBA AND ITS APPLICATION AS MOLECULAR MARKERS |
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SHEN Xin1,2, SUN Song1,2, WANG Hai-Qing1,2, WANG Min-Xiao1,2, REN Jian-Feng1,2, ZHANG Guang-Tao1, LIU Bin1,3,2
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1.Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071;2.Graduate University, Chinese Academy of Sciences, Beijing, 100039;3.Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100029
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| Abstract: |
| To reveal mitochondrial genomic characteristics of Euphausia superba (Crustacea: Malacostraca: Euphausiacea) and potential molecular markers, the mitochondrial genomes of E. superba sampled from different marine areas of the Antarctica were compared. The mitochondrial genomic DNA of E. superba sampled from Prydz Bay, was obtained with Long PCR technique, and then was sequenced using primer-walking and shotgun strategies. Sequence analysis and gene annotation were carried out with bioinforrnatic software DOGMA, tRNAscan-SE 1.21, and DnaSP 4.10.7 etc. Having its partial non-coding region completely determined, more than 15498 bp long mitochondrial genome of the Antarctic E. superba was revealed, containing a set of 13 protein-coding genes, 2 ribosomal RNA genes, and 23 transfer RNA genes. An extra trnN gene was also found by comparing it with the standard set of metazoan mitochondrial genomes. Translocation of four tRNAs (trnL1, trnL2, trnW and trnI) and one duplication of trnN were found in the mitochondrial genome. After compared two populations of E. superba in Prydz Bay and the Weddell Sea in mitochondrial genome, it was found that nad2 gene has maximal variation in 61 different sites, followed by nad5 gene for 12, while cox1 gene has only 3. Thereby, nad2 gene and nad5 gene are accessory molecular markers to cox1 gene, and be used to study the inherited diversity among different E. superba populations for better exploitation and management ofthis bio-resource.
Abbreviations: atp6, and 8, ATPase subunits 6 and 8; bp, base pair (s); cox1-3, cytochrome c oxidase subunits I-III; PCGs, protein coding genes; nCR, non coding region; cob, cytochrome b; mtDNA, mitochondrial DNA; nad1-6, and 4L, NADH dehydrogenase subunits 1-6 and 4L; srRNA, and lrRNA, small and large subunits ribosomal RNA; tRNA, transfer
RNA; L1, tRNALeu(CUN); L2, tRNALeu(UUR), S1, RNASer(AGN), S2, tRNASer(UCN). |
| Key words: Euphausia superba, Mitochondrial genome, Marine ecology, Zooplankton, Molecular marker |
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