Journal
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
Volume 21, Issue 8, Pages -Publisher
MDPI
DOI: 10.3390/ijms21082800
Keywords
chromatin accessibility; transcription factor; sex reversal; Epinephelus coioides
Funding
- National Key Research and Development Program [2018YFD0900203]
- China Agriculture Research System [ARS-47]
- Program of the China-ASEAN Maritime Cooperation Fund of the Chinese government [42000-41170002]
- Yang Fan Innovative & Entrepreneurial Research Team Project [201312H10]
- National Natural Science Foundation of China [31672631]
- Natural Science Foundation of China [u1401213, 31802266]
- Special Fund for Agro-scientific Research in the Public Interest [201403011]
- Huizhou Swan Project [2017021402310220]
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Chromatin structure plays a pivotal role in maintaining the precise regulation of gene expression. Accessible chromatin regions act as the binding sites of transcription factors (TFs) and cis-elements. Therefore, information from these open regions will enhance our understanding of the relationship between TF binding, chromatin status and the regulation of gene expression. We employed an assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) and RNA-seq analyses in the gonads of protogynous hermaphroditic orange-spotted groupers during sex reversal to profile open chromatin regions and TF binding sites. We focused on several crucial TFs, including ZNF263, SPIB, and KLF9, and analyzed the networks of TF-target genes. We identified numerous transcripts exhibiting sex-preferred expression among their target genes, along with their associated open chromatin regions. We then investigated the expression patterns of sex-related genes as well as the mRNA localization of certain genes during sex reversal. We found a set of sex-related genes that-upon further study-might be identified as the sex-specific or cell-specific marker genes that trigger sex reversal. Moreover, we discovered the core genes (gnas, ccnb2, and cyp21a) of several pathways related to sex reversal that provide the guideposts for future study.
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