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Comparative analysis of Thalassionema chloroplast genomes revealed hidden biodiversity
Zhang, Mengjia1,2,3,4; Chen, Nansheng1,2,4,5
2022-04-27
Source PublicationBMC GENOMICS
ISSN1471-2164
Volume23Issue:1Pages:17
Corresponding AuthorChen, Nansheng(chenn@qdio.ac.cn)
AbstractThe 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.
KeywordThalassionema species Chloroplast genome Comparative genomics Divergence time
DOI10.1186/s12864-022-08532-6
Indexed BySCI
Language英语
Funding ProjectStrategic 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 Research AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS SubjectBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS IDWOS:000788306800001
PublisherBMC
Citation statistics
Cited Times:3[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/178868
Collection海洋生态与环境科学重点实验室
Corresponding AuthorChen, Nansheng
Affiliation1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China
2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266200, Peoples R China
3.Univ Chinese Acad Sci, Coll Marine Sci, Beijing 10039, Peoples R China
4.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Peoples R China
5.Simon Fraser Univ, Dept Mol Biol & Biochem, 8888 Univ Dr, Burnaby, BC V5A 1S6, Canada
First Author AffilicationKey Laboratory of Marine Ecology & Environmental Sciences, CAS
Corresponding Author AffilicationKey Laboratory of Marine Ecology & Environmental Sciences, CAS
Recommended Citation
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.
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