PMID- 35831870 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20220716 IS - 2045-3701 (Print) IS - 2045-3701 (Electronic) IS - 2045-3701 (Linking) VI - 12 IP - 1 DP - 2022 Jul 12 TI - Transcriptomic analysis reveals the key role of histone deacetylation via mediating different phytohormone signalings in fiber initiation of cotton. PG - 107 LID - 10.1186/s13578-022-00840-4 [doi] LID - 107 AB - BACKGROUND: Histone deacetylation is one of the most important epigenetic modifications and plays diverse roles in plant development. However, the detailed functions and mechanisms of histone deacetylation in fiber development of cotton are still unclear. HDAC inhibitors (HDACi) have been commonly used to study the molecular mechanism underlying histone deacetylation or to facilitate disease therapy in humans through hindering the histone deacetylase catalytic activity. Trichostatin A (TSA)-the most widely used HDACi has been extensively employed to determine the role of histone deacetylation on different developmental stages of plants. RESULTS: Through in vitro culture of ovules, we observed that exogenous application of TSA was able to inhibit the fiber initiation development. Subsequently, we performed a transcriptomic analysis to reveal the underlying mechanisms. The data showed that TSA treatment resulted in 4209 differentially expressed genes, which were mostly enriched in plant hormone signal transduction, phenylpropanoid biosynthesis, photosynthesis, and carbon metabolism pathways. The phytohormone signal transduction pathways harbor the most differentially expressed genes. Deeper studies showed that some genes promoting auxin, Gibberellic Acid (GA) signaling were down-regulated, while some genes facilitating Abscisic Acid (ABA) and inhibiting Jasmonic Acid (JA) signaling were up-regulated after the TSA treatments. Further analysis of plant hormone contents proved that TSA significantly promoted the accumulation of ABA, JA and GA(3). CONCLUSIONS: Collectively, histone deacetylation can regulate some key genes involved in different phytohormone pathways, and consequently promoting the auxin, GA, and JA signaling, whereas repressing the ABA synthesis and signaling to improve the fiber cell initiation. Moreover, the genes associated with energy metabolism, phenylpropanoid, and glutathione metabolism were also regulated by histone deacetylation. The above results provided novel clues to illuminate the underlying mechanisms of epigenetic modifications as well as related different phytohormones in fiber cell differentiation, which is also very valuable for the molecular breeding of higher quality cotton. CI - (c) 2022. The Author(s). FAU - Wei, Zhenzhen AU - Wei Z AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. FAU - Li, Yonghui AU - Li Y AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. FAU - Ali, Faiza AU - Ali F AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. FAU - Wang, Ye AU - Wang Y AD - State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China. FAU - Liu, Jisheng AU - Liu J AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. AD - State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China. FAU - Yang, Zuoren AU - Yang Z AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. AD - State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China. FAU - Wang, Zhi AU - Wang Z AUID- ORCID: 0000-0002-8207-776X AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. AD - State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China. AD - National Nanfan Research Institute (Sanya), Chinese Academy of Agricultural Sciences, Sanya, 572024, Hainan, China. AD - Sanya Institute, Zhengzhou University, Sanya, 572024, Hainan, China. FAU - Xing, Yadi AU - Xing Y AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. xingyadi@zzu.edu.cn. FAU - Li, Fuguang AU - Li F AD - Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, 450001, China. aylifug@caas.cn. AD - State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China. aylifug@caas.cn. LA - eng GR - 32072022/National Natural Science Foundation of China/ GR - 31690093/National Natural Science Foundation of China/ GR - 31621005/Creative Work and Research Committee, Valparaiso University/ PT - Journal Article DEP - 20220712 PL - England TA - Cell Biosci JT - Cell & bioscience JID - 101561195 PMC - PMC9277824 OTO - NOTNLM OT - Fiber initiation OT - HDAC inhibitor OT - Histone deacetylation OT - Phytohormones OT - TSA COIS- I declare on behalf of my co-authors that no conflict of interest exists in the submission of this manuscript which is approved by all authors. EDAT- 2022/07/14 06:00 MHDA- 2022/07/14 06:01 PMCR- 2022/07/12 CRDT- 2022/07/13 23:51 PHST- 2021/12/06 00:00 [received] PHST- 2022/06/28 00:00 [accepted] PHST- 2022/07/13 23:51 [entrez] PHST- 2022/07/14 06:00 [pubmed] PHST- 2022/07/14 06:01 [medline] PHST- 2022/07/12 00:00 [pmc-release] AID - 10.1186/s13578-022-00840-4 [pii] AID - 840 [pii] AID - 10.1186/s13578-022-00840-4 [doi] PST - epublish SO - Cell Biosci. 2022 Jul 12;12(1):107. doi: 10.1186/s13578-022-00840-4.