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| Comparative Analysis of Bacillariophyceae Chloroplast Genomes Uncovers Extensive Genome Rearrangements Associated with Speciation | |
Wang, Yichao1,2,3,4 ; Wang, Jing1,2,4; Chen, Yang1,2,3,4; Liu, Shuya1,2,4; Zhao, Yongfang2,5; Chen, Nansheng1,2,4,6
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| 2022-08-01 | |
| Source Publication | INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH
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| Volume | 19Issue:16Pages:20 |
| Corresponding Author | Chen, Nansheng(chenn@qdio.ac.cn) |
| Abstract | The Bacillariophyceae is a species-rich, ecologically significant class of Bacillariophyta. Despite their critical importance in marine ecosystems as primary producers and in the development of harmful algal blooms (HABs), taxonomic research on Bacillariophyceae species has been hindered because of their limited morphological features, plasticity of morphologies, and the low resolution of common molecular markers. Hence molecular markers with improved resolution are urgently needed. Organelle genomes, which can be constructed efficiently with the recent development of high throughput DNA sequencing technologies and the advancement of bioinformatics tools, have been proposed as super barcodes for their higher resolution for distinguishing different species and intra-species genomic variations. In this study, we tested the value of full-length chloroplast genomes (cpDNAs) as super barcodes for distinguishing diatom species, by constructing cpDNAs of 11 strains of the class Bacillariophyceae, including Nitzschia ovalis, Nitzschia traheaformis, Cylindrotheca spp., Psammodictyon constrictum, Bacillaria paxillifer, two strains of Haslea tsukamotoi, Haslea avium, Navicula arenaria, and Pleurosigma sp. Comparative analysis of cpDNAs revealed that cpDNAs were not only adequate for resolving different species, but also for enabling recognition of high levels of genome rearrangements between cpDNAs of different species, especially for species of the genera Nitzschia, Cylindrotheca, Navicula and Haslea. Additionally, comparative analysis suggested that the positioning of species in the genus Haslea should be transferred to the genus Navicula. Chloroplast genome-based evolutionary analysis suggested that the Bacillariophyceae species first appeared during the Cretaceous period and the diversity of species rose after the mass extinction about 65 Mya. This study highlighted the value of cpDNAs in research on the biodiversity and evolution of Bacillariophyceae species, and, with the construction of more cpDNAs representing additional genera, deeper insight into the biodiversity and evolutionary relationships of Bacillariophyceae species will be gained. |
| Keyword | diatom class Bacillariophyceae chloroplast genome phylogenetic analysis super barcode |
| DOI | 10.3390/ijerph191610024 |
| Indexed By | SCI |
| Language | 英语 |
| Funding Project | Natural Science Foundation of China[42176162] ; Strategic Priority Research Program of the 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] ; National Key Research and Development Program of China[2017YFC1404300] |
| WOS Research Area | Environmental Sciences & Ecology ; Public, Environmental & Occupational Health |
| WOS Subject | Environmental Sciences ; Public, Environmental & Occupational Health |
| WOS ID | WOS:000845862000001 |
| Publisher | MDPI |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.qdio.ac.cn/handle/337002/180841 |
| Collection | 海洋生态与环境科学重点实验室 胶州湾海洋生态系统国家野外研究站 |
| Corresponding Author | Chen, Nansheng |
| Affiliation | 1.Chinese Acad Sci, CAS Key Lab Marine Ecol & Environm Sci, Inst Oceanol, Qingdao 266071, Peoples R China 2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266237, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 4.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Peoples R China 5.Chinese Acad Sci, Inst Oceanol, Jiaozhou Bay Natl Marine Ecosyst Res Stn, Qingdao 266071, Peoples R China 6.Simon Fraser Univ, Dept Mol Biol & Biochem, 8888 Univ Dr, Burnaby, BC V5A 1S6, Canada |
| First Author Affilication | Institute of Oceanology, Chinese Academy of Sciences |
| Corresponding Author Affilication | Institute of Oceanology, Chinese Academy of Sciences |
| Recommended Citation GB/T 7714 | Wang, Yichao,Wang, Jing,Chen, Yang,et al. Comparative Analysis of Bacillariophyceae Chloroplast Genomes Uncovers Extensive Genome Rearrangements Associated with Speciation[J]. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH,2022,19(16):20. |
| APA | Wang, Yichao,Wang, Jing,Chen, Yang,Liu, Shuya,Zhao, Yongfang,&Chen, Nansheng.(2022).Comparative Analysis of Bacillariophyceae Chloroplast Genomes Uncovers Extensive Genome Rearrangements Associated with Speciation.INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH,19(16),20. |
| MLA | Wang, Yichao,et al."Comparative Analysis of Bacillariophyceae Chloroplast Genomes Uncovers Extensive Genome Rearrangements Associated with Speciation".INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 19.16(2022):20. |
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