Comparison of colonial volvocine algae based on phylotranscriptomic analysis of gene family evolution and natural selection

doi:10.1080/09670262.2019.1663269

	Comparison of colonial volvocine algae based on phylotranscriptomic analysis of gene family evolution and natural selection
	Hu, Yuxin 1,2; Xing, Weiyue 1,2; Song, Huiyin 3; Hu, Zhengyu 4; Liu, Guoxiang 1
	2020-01-02
发表期刊	EUROPEAN JOURNAL OF PHYCOLOGY
ISSN	0967-0262
卷号	55 期号:1 页码:100-112
通讯作者	Liu, Guoxiang([email protected])
摘要	This study is the first to determine the transcriptomes of eight colonial volvocine algae: Pandorina morum, P. colemaniae, Volvulina compacta, Eudorina elegans, E. cylindrica, Yamagishiella unicocca, Colemanosphaera charkowiensis and C. angeleri. By analysing these data together with the whole-genome data of Chlamydomonas reinhardtii and other colonial volvocine algae, we determined 26 979 gene families and 105 single-copy orthogroups. Using the single-copy orthogroups, we adopted a supermatrix and coalescent-based approach to perform phylotranscriptomic analysis of colonial volvocine algae. The phylogenetic relationships of most species were consistent with those of a previous study, and the results showed paraphyly of the genus Pandorina. Then, we analysed gene family expansion and contraction in colonial volvocine algae and found that they exhibited a large number of expanded and contracted gene families. In particular, the common ancestor of the Volvocaceae had the largest number of expanded gene families, which may be associated with the increased volume of extracellular matrix. Finally, using the ML method to analyse the substitution rates among colonial volvocine algae based on single-copy orthogroups, we showed a significantly higher non-synonymous substitution (dN) rate in Tetrabaena socialis. By analysing the differences in the dN/dS ratio, we found that more orthogroups exhibited a significantly higher dN/dS in T. socialis; we speculate that the higher dN/dS could indicate relaxed selection pressure and that this lower constraint allows the accumulation of more non-synonymous mutations in T. socialis.
关键词	Coalescent-based approach colonial volvocine algae gene family evolution phylotranscriptomic relaxed purifying selection substitution rates
DOI	10.1080/09670262.2019.1663269
收录类别	SCI
语种	英语
资助项目	Special Foundation of Science and Technology Basic Work of China[2014FY210700]; National Natural Science Foundation of China[31670202]; China Agriculture Research System[CARS-50]
WOS研究方向	Plant Sciences ; Marine & Freshwater Biology
WOS类目	Plant Sciences ; Marine & Freshwater Biology
WOS记录号	WOS:000520076900010
出版者	TAYLOR & FRANCIS LTD
引用统计	被引频次：1[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/337002/164935
专题	海洋生态与环境科学重点实验室
通讯作者	Liu, Guoxiang
作者单位	1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Algal Biol, Wuhan 430072, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 3.Chinese Acad Sci, Inst Oceanol, Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China 4.Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Peoples R China
推荐引用方式 GB/T 7714	Hu, Yuxin,Xing, Weiyue,Song, Huiyin,et al. Comparison of colonial volvocine algae based on phylotranscriptomic analysis of gene family evolution and natural selection[J]. EUROPEAN JOURNAL OF PHYCOLOGY,2020,55(1):100-112.
APA	Hu, Yuxin,Xing, Weiyue,Song, Huiyin,Hu, Zhengyu,&Liu, Guoxiang.(2020).Comparison of colonial volvocine algae based on phylotranscriptomic analysis of gene family evolution and natural selection.EUROPEAN JOURNAL OF PHYCOLOGY,55(1),100-112.
MLA	Hu, Yuxin,et al."Comparison of colonial volvocine algae based on phylotranscriptomic analysis of gene family evolution and natural selection".EUROPEAN JOURNAL OF PHYCOLOGY 55.1(2020):100-112.

条目包含的文件
文件名称/大小	文献类型	版本类型	开放类型	使用许可
Comparison of coloni（1733KB）	期刊论文	出版稿	限制开放	CC BY-NC-SA	浏览