中文版 | English
Title

Evolutionarily distinct and sperm-specific supersized chromatin loops are marked by Helitron transposons in Xenopus tropicalis

Author
Corresponding AuthorHuang,Kai; Chen,Yonglong; Li,Li; Hou,Chunhui
Joint first authorShi,Zhaoying; Xu,Jinsheng; Niu,Longjian; Shen,Wei; Yan,Shuting
Publication Years
2023-03-28
DOI
Source Title
EISSN
2211-1247
Volume42Issue:3
Abstract

Transposable elements (TEs) are abundant in metazoan genomes and have multifaceted effects on host fitness. However, the mechanisms underlying the functions of TEs are still not fully understood. Here, we combine Hi-C, ATAC-seq, and ChIP-seq assays to report the existence of multimegabase supersized loop (SSL) clusters in the Xenopus tropicalis sperm. We show that SSL anchors are inaccessible and devoid of the architectural protein CTCF, RNA polymerase II, and modified histones. Nearly all SSL anchors are marked by Helitrons, a class II DNA transposon. Molecular dynamics simulations indicate that SSL clusters are likely formed via a molecular agent-mediated chromatin condensation process. However, only slightly more SSL anchor-associated genes are expressed at late embryo development stages, suggesting that SSL anchors might only function in sperm. Our work shows an evolutionarily distinct and sperm-specific genome structure marked by a subset of Helitrons, whose establishment and function remain to be explored.

Keywords
URL[Source Record]
Indexed By
Language
English
SUSTech Authorship
First ; 共同第一 ; Corresponding
Scopus EID
2-s2.0-85148667788
Data Source
Scopus
Citation statistics
Cited Times [WOS]:0
Document TypeJournal Article
Identifierhttp://kc.sustech.edu.cn/handle/2SGJ60CL/497241
DepartmentDepartment of Biology
生命科学学院
南方科技大学医学院_公共卫生及应急管理学院
Affiliation
1.Department of Biology,Southern University of Science and Technology,Shenzhen,518055,China
2.Department of Bioinformatics,Huazhong Agricultural University,Wuhan,430070,China
3.China State Key Laboratory of Genetic Resources and Evolution,Kunming Institute of Zoology,Chinese Academy of Sciences,Kunming,650223,China
4.Institute of Systems and Physical Biology,Shenzhen Bay Laboratory,Shenzhen,518132,China
5.School of Public Health and Emergency Management,Southern University of Science and Technology,Shenzhen,518055,China
6.Shenzhen Key Laboratory of Cardiovascular Health and Precision Medicine,Southern University of Science and Technology,Shenzhen,518055,China
7.Hubei Key Laboratory of Agricultural Bioinformatics,Huazhong Agricultural University,Wuhan,430070,China
8.Cancer Centre,Faculty of Health Sciences,University of Macau,Taipa,Macau,999078,China
9.Frontier Science Centre for Precision Oncology of Ministry of Education,University of Macau,Taipa,Macau,999078,China
First Author AffilicationDepartment of Biology;  School of Life Sciences
Corresponding Author AffilicationDepartment of Biology;  School of Life Sciences
First Author's First AffilicationDepartment of Biology;  School of Life Sciences
Recommended Citation
GB/T 7714
Shi,Zhaoying,Xu,Jinsheng,Niu,Longjian,et al. Evolutionarily distinct and sperm-specific supersized chromatin loops are marked by Helitron transposons in Xenopus tropicalis[J]. Cell Reports,2023,42(3).
APA
Shi,Zhaoying.,Xu,Jinsheng.,Niu,Longjian.,Shen,Wei.,Yan,Shuting.,...&Hou,Chunhui.(2023).Evolutionarily distinct and sperm-specific supersized chromatin loops are marked by Helitron transposons in Xenopus tropicalis.Cell Reports,42(3).
MLA
Shi,Zhaoying,et al."Evolutionarily distinct and sperm-specific supersized chromatin loops are marked by Helitron transposons in Xenopus tropicalis".Cell Reports 42.3(2023).
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