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Distinctive mitochondrial genome of Calanoid copepod Calanus sinicus with multiple large non-coding regions and reshuffled gene order: Useful molecular markers for phylogenetic and population studies

文献类型：期刊论文

作者Wang Minxiao1,2,3; Sun Song1,2; Li Chaolun1,2; Shen Xin4
刊名BMC GENOMICS
出版日期2011-01-27
卷号12页码:73
ISSN号1471-2164
DOI10.1186/1471-2164-12-73
文献子类Article
英文摘要Background: Copepods are highly diverse and abundant, resulting in extensive ecological radiation in marine ecosystems. Calanus sinicus dominates continental shelf waters in the northwest Pacific Ocean and plays an important role in the local ecosystem by linking primary production to higher trophic levels. A lack of effective molecular markers has hindered phylogenetic and population genetic studies concerning copepods. As they are genome-level informative, mitochondrial DNA sequences can be used as markers for population genetic studies and phylogenetic studies.; Background: Copepods are highly diverse and abundant, resulting in extensive ecological radiation in marine ecosystems. Calanus sinicus dominates continental shelf waters in the northwest Pacific Ocean and plays an important role in the local ecosystem by linking primary production to higher trophic levels. A lack of effective molecular markers has hindered phylogenetic and population genetic studies concerning copepods. As they are genome-level informative, mitochondrial DNA sequences can be used as markers for population genetic studies and phylogenetic studies. Results: The mitochondrial genome of C. sinicus is distinct from other arthropods owing to the concurrence of multiple non-coding regions and a reshuffled gene arrangement. Further particularities in the mitogenome of C. sinicus include low A + T-content, symmetrical nucleotide composition between strands, abbreviated stop codons for several PCGs and extended lengths of the genes atp6 and atp8 relative to other copepods. The monophyletic Copepoda should be placed within the Vericrustacea. The close affinity between Cyclopoida and Poecilostomatoida suggests reassigning the latter as subordinate to the former. Monophyly of Maxillopoda is rejected. Within the alignment of 11 C. sinicus mitogenomes, there are 397 variable sites harbouring three 'hotspot' variable sites and three microsatellite loci. Conclusion: The occurrence of the circular subgenomic fragment during laboratory assays suggests that special caution should be taken when sequencing mitogenomes using long PCR. Such a phenomenon may provide additional evidence of mitochondrial DNA recombination, which appears to have been a prerequisite for shaping the present mitochondrial profile of C. sinicus during its evolution. The lack of synapomorphic gene arrangements among copepods has cast doubt on the utility of gene order as a useful molecular marker for deep phylogenetic analysis. However, mitochondrial genomic sequences have been valuable markers for resolving phylogenetic issues concerning copepods. The variable site maps of C. sinicus mitogenomes provide a solid foundation for population genetic studies.
学科主题Biotechnology & Applied Microbiology ; Genetics & Heredity
URL标识查看原文
语种英语
WOS记录号WOS:000287480600001
公开日期2012-07-03
源URL[http://ir.qdio.ac.cn/handle/337002/11658]  
专题海洋研究所_海洋生态与环境科学重点实验室
作者单位1.Chinese Acad Sci, KLMEES, Qingdao 266071, Peoples R China
2.Chinese Acad Sci, JBMERS, Inst Oceanol, Qingdao 266071, Peoples R China
3.Chinese Acad Sci, Grad Univ, Beijing 100039, Peoples R China
4.Huaihai Inst Technol, Lianyungang 222005, Peoples R China
推荐引用方式
GB/T 7714		 Wang Minxiao,Sun Song,Li Chaolun,et al. Distinctive mitochondrial genome of Calanoid copepod Calanus sinicus with multiple large non-coding regions and reshuffled gene order: Useful molecular markers for phylogenetic and population studies[J]. BMC GENOMICS,2011,12:73.
APA Wang Minxiao,Sun Song,Li Chaolun,&Shen Xin.(2011).Distinctive mitochondrial genome of Calanoid copepod Calanus sinicus with multiple large non-coding regions and reshuffled gene order: Useful molecular markers for phylogenetic and population studies.BMC GENOMICS,12,73.
MLA Wang Minxiao,et al."Distinctive mitochondrial genome of Calanoid copepod Calanus sinicus with multiple large non-coding regions and reshuffled gene order: Useful molecular markers for phylogenetic and population studies".BMC GENOMICS 12(2011):73.

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来源：海洋研究所

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