IOCAS-IR  > 海洋生态与环境科学重点实验室
Landscape and dynamics of accessible chromatin during pigmentation process in green, white and purple sea cucumber Apostichopus japonicus
Xing, Lili1,2,3,4,5; Liu, Shilin1,2,3,4,5; Zhang, Libin1,2,3,4,5,6; Yang, Hongsheng1,2,3,4,5,7; Sun, Lina1,2,3,4,5
2022-04-01
Source PublicationAQUACULTURE REPORTS
ISSN2352-5134
Volume23Pages:12
Corresponding AuthorSun, Lina(sunlina@qdio.ac.cn)
AbstractCis-regulatory sequences, such as enhancers, control development and physiology by regulating gene expression. The identification and functional characterization of these distal regulatory elements remains challenging, especially in non-model aquatic organisms like sea cucumbers. Apostichopus japonicus, an important echinoderm species, exhibits diverse body colour. Pigmentation is an important stage of growth and development in this species, but the regulatory mechanism remains poorly understood, especially the extent to which epigenetic changes regulate pigmentation. Herein, we globally profiled chromatin accessibility using the assay for transposase-accessible chromatin sequencing technique during pigmentation in green, white and purple sea cucumbers. We have got 27, 817 peaks in total and discovered 1427 peaks showing differentially accessed DNA sites across the genome, which were categorized into four distinct clusters via unsupervised hierarchical clustering. Among three colour morphs, white sea cucumber exhibited the most extensive changes and the greatest differences from the other two colour morphs. Global increases in chromatin accessibility occur in the late pigmentation stage suggesting that active function in the late pigmentation stage drives body colour formation. The screened key cis-regulatory elements KIT, RPS6KB2 and IRF8 may contributed to the albinism, slow growth and poor disease resistance of white sea cucumber. In conclusion, our study provides a framework for understanding the accessible chromatin dynamics of body colour diversity during echinoderm pigmentation process and a new avenue to unravel the transcriptional regulatory mechanisms that facilitate the occurrence of relevant molecular events.
KeywordPigmentation Colour morph Apostichopus japonicus Chromatin accessibility ATAC-seq
DOI10.1016/j.aqrep.2022.101040
Indexed BySCI
Language英语
Funding ProjectNational Key Research and Development Program of China[2018YFD0901602] ; Natural Science Foundation of Shandong Province Youth Program[ZR2020QD100] ; Strategic Priority Research Program of the Chinese Academy of Sciences[XDA24030304] ; Agricultural Seed Project of Shandong Province[2020LZGC015] ; China Postdoctoral Science Foundation[2019M662457]
WOS Research AreaFisheries
WOS SubjectFisheries
WOS IDWOS:000761305200003
PublisherELSEVIER
Citation statistics
Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/178210
Collection海洋生态与环境科学重点实验室
Corresponding AuthorSun, Lina
Affiliation1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Shandong, 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.Chinese Acad Sci, Inst Oceanol, CAS Engn Lab Marine Ranching, Qingdao 266071, Peoples R China
5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
6.Shandong Prov Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China
7.Chinese Acad Sci, Innovat Seed Design, Wuhan 430071, Peoples R China
First Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences;  Center for Ocean Mega-Science, Chinese Academy of Sciences
Corresponding Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences;  Center for Ocean Mega-Science, Chinese Academy of Sciences
Recommended Citation
GB/T 7714
Xing, Lili,Liu, Shilin,Zhang, Libin,et al. Landscape and dynamics of accessible chromatin during pigmentation process in green, white and purple sea cucumber Apostichopus japonicus[J]. AQUACULTURE REPORTS,2022,23:12.
APA Xing, Lili,Liu, Shilin,Zhang, Libin,Yang, Hongsheng,&Sun, Lina.(2022).Landscape and dynamics of accessible chromatin during pigmentation process in green, white and purple sea cucumber Apostichopus japonicus.AQUACULTURE REPORTS,23,12.
MLA Xing, Lili,et al."Landscape and dynamics of accessible chromatin during pigmentation process in green, white and purple sea cucumber Apostichopus japonicus".AQUACULTURE REPORTS 23(2022):12.
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