Comparative analysis of full-length mitochondrial genomes of five Skeletonema species reveals conserved genome organization and recent speciation

doi:10.1186/s12864-021-07999-z

	Comparative analysis of full-length mitochondrial genomes of five Skeletonema species reveals conserved genome organization and recent speciation
	Liu, Shuya 1,2,3; Wang, Yichao1,2,3,4 ; Xu, Qing 1,2,3,5; Zhang, Mengjia1,2,3,4 ; Chen, Nansheng 1,2,3,6
	2021-10-15
发表期刊	BMC GENOMICS
ISSN	1471-2164
卷号	22 期号:1 页码:14
通讯作者	Chen, Nansheng([email protected])
摘要	Background Skeletonema species are prominent primary producers, some of which can also cause massive harmful algal blooms (HABs) in coastal waters under specific environmental conditions. Nevertheless, genomic information of Skeletonema species is currently limited, hindering advanced research on their role as primary producers and as HAB species. Mitochondrial genome (mtDNA) has been extensively used as "super barcode" in the phylogenetic analyses and comparative genomic analyses. However, of the 21 accepted Skeletonema species, full-length mtDNAs are currently available only for a single species, S. marinoi. Results In this study, we constructed full-length mtDNAs for six strains of five Skeletonema species, including S. marinoi, S. tropicum, S. grevillei, S. pseudocostatum and S. costatum (with two strains), which were isolated from coastal waters in China. The mtDNAs of all of these Skeletonema species were compact with short intergenic regions, no introns, and no repeat regions. Comparative analyses of these Skeletonema mtDNAs revealed high conservation, with a few discrete regions of high variations, some of which could be used as molecular markers for distinguishing Skeletonema species and for tracking the biogeographic distribution of these species with high resolution and specificity. We estimated divergence times among these Skeletonema species using 34 mtDNAs genes with fossil data as calibration point in PAML, which revealed that the Skeletonema species formed the independent clade diverging from Thalassiosira species approximately 48.30 Mya. Conclusions The availability of mtDNAs of five Skeletonema species provided valuable reference sequences for further evolutionary studies including speciation time estimation and comparative genomic analysis among diatom species. Divergent regions could be used as molecular markers for tracking different Skeletonema species in the fields of coastal regions.
关键词	Harmful algal blooms Skeletonema species Mitochondrial genome Comparative genomics Molecular marker Divergence time
DOI	10.1186/s12864-021-07999-z
收录类别	SCI
语种	英语
资助项目	Strategic Priority Research Program of Chinese Academy of Sciences[XDB42000000]; Natural Science Foundation of China[41906118]; Chinese Academy of Sciences Pioneer Hundred Talents Program; Taishan Scholar Project Special Fund; Qingdao Innovation and Creation Plan[19-3-2-16-zhc]; National Key Research and Development Program of china[2017YFC1404300]
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS类目	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS记录号	WOS:000707592800004
出版者	BMC
引用统计	被引频次：6[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/176700
专题	海洋生态与环境科学重点实验室
通讯作者	Chen, Nansheng
作者单位	1.Chinese Acad Sci, Inst Oceanol, Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China 2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266237, Peoples R China 3.Chinese Acad Sci, Ctr Ocean Megasci, Qingdao 266071, Peoples R China 4.Univ Chinese Acad Sci, Beijing 10039, Peoples R China 5.Huazhong Agr Univ, Coll Life Sci & Technol, Wuhan 430070, Peoples R China 6.Simon Fraser Univ, Dept Mol Biol & Biochem, 8888 Univ Dr, Columbia, BC V5A 1S6, Canada
第一作者单位	中国科学院海洋研究所; 中国科学院海洋大科学研究中心
通讯作者单位	中国科学院海洋研究所; 中国科学院海洋大科学研究中心
推荐引用方式 GB/T 7714	Liu, Shuya,Wang, Yichao,Xu, Qing,et al. Comparative analysis of full-length mitochondrial genomes of five Skeletonema species reveals conserved genome organization and recent speciation[J]. BMC GENOMICS,2021,22(1):14.
APA	Liu, Shuya,Wang, Yichao,Xu, Qing,Zhang, Mengjia,&Chen, Nansheng.(2021).Comparative analysis of full-length mitochondrial genomes of five Skeletonema species reveals conserved genome organization and recent speciation.BMC GENOMICS,22(1),14.
MLA	Liu, Shuya,et al."Comparative analysis of full-length mitochondrial genomes of five Skeletonema species reveals conserved genome organization and recent speciation".BMC GENOMICS 22.1(2021):14.

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