Comparative analysis of Thalassionema chloroplast genomes revealed hidden biodiversity

doi:10.1186/s12864-022-08532-6

CORC > 海洋研究所 > 中国科学院海洋研究所 > 海洋生态与环境科学重点实验室

	Comparative analysis of Thalassionema chloroplast genomes revealed hidden biodiversity
	Zhang, Mengjia 1,2,4,5; Chen, Nansheng 2,3,4,5
刊名	BMC GENOMICS
	2022-04-27
卷号	23 期号:1 页码:17
关键词	Thalassionema species Chloroplast genome Comparative genomics Divergence time
ISSN号	1471-2164
DOI	10.1186/s12864-022-08532-6
通讯作者	Chen, Nansheng(chenn@qdio.ac.cn)
英文摘要	The cosmopolitan Thalassionema species are often dominant components of the plankton diatom flora and sediment diatom assemblages in all but the Polar regions, making important ecological contribution to primary productivity. Historical studies concentrated on their indicative function for the marine environment based primarily on morphological features and essentially ignored their genomic information, hindering in-depth investigation on Thalassionema biodiversity. In this project, we constructed the complete chloroplast genomes (cpDNAs) of seven Thalassionema strains representing three different species, which were also the first cpDNAs constructed for any species in the order Thalassionematales that includes 35 reported species and varieties. The sizes of these Thalassionema cpDNAs, which showed typical quadripartite structures, varied from 124,127 bp to 140,121 bp. Comparative analysis revealed that Thalassionema cpDNAs possess conserved gene content inter-species and intra-species, along with several gene losses and transfers. Besides, their cpDNAs also have expanded inverted repeat regions (IRs) and preserve large intergenic spacers compared to other diatom cpDNAs. In addition, substantial genome rearrangements were discovered not only among different Thalassionema species but also among strains of a same species T. frauenfeldii, suggesting much higher diversity than previous reports. In addition to confirming the phylogenetic position of Thalassionema species, this study also estimated their emergence time at approximately 38 Mya. The availability of the Thalassionema species cpDNAs not only helps understand the Thalassionema species, but also facilitates phylogenetic analysis of diatoms.
资助项目	Strategic Priority Research Program of Chinese Academy of Sciences[XDB42000000] ; Chinese Academy of Sciences Pioneer Hundred Talents Program ; Taishan Scholar Project Special Fund ; Qingdao Innovation and Creation Plan (Talent Development Program - 5th Annual Pioneer and Innovator Leadership Award)[19-3-2-16-zhc]
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
出版者	BMC
WOS记录号	WOS:000788306800001
内容类型	期刊论文
源URL	[http://ir.qdio.ac.cn/handle/337002/178867]
专题	海洋研究所_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.Univ Chinese Acad Sci, Coll Marine Sci, Beijing 10039, Peoples R China 2.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Peoples R China 3.Simon Fraser Univ, Dept Mol Biol & Biochem, 8888 Univ Dr, Burnaby, BC V5A 1S6, Canada 4.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China 5.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266200, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Mengjia,Chen, Nansheng. Comparative analysis of Thalassionema chloroplast genomes revealed hidden biodiversity[J]. BMC GENOMICS,2022,23(1):17.
APA	Zhang, Mengjia,&Chen, Nansheng.(2022).Comparative analysis of Thalassionema chloroplast genomes revealed hidden biodiversity.BMC GENOMICS,23(1),17.
MLA	Zhang, Mengjia,et al."Comparative analysis of Thalassionema chloroplast genomes revealed hidden biodiversity".BMC GENOMICS 23.1(2022):17.