文献类型： 外文期刊

作者： Ouyang, Kai ¹ ; Liang, Qifu ² ; Miao, Li ¹ ; Zhang, Zhiliang ¹ ; Li, Zhanjie ¹ ;

作者机构： 1.Fujian Agr & Forestry Univ, Ctr Genom & Biotechnol, Fujian Prov Key Lab Haixia Appl Plant Syst Biol, Key Lab Genet Breeding & Multiple Utilizat Crops,K, Fuzhou, Peoples R China

2.Fujian Acad Agr Sci, Inst Qual Stand & Testing Technol Agroprod, Fujian Key Lab Agroprod Qual & Safety, Fuzhou, Fujian, Peoples R China

3.Chinese Acad Sci, Inst Genet & Dev Biol, Innovat Acad Seed Design, State Key Lab Plant Cell & Chromosome Engn, Beijing, Peoples R China

关键词： crassulacean acid metabolism; Ananas comosus; DNase I hypersensitive sites; cis-regulatory elements; circadian

期刊名称：FRONTIERS IN GENETICS （ 影响因子：3.7； 五年影响因子：4.3 ）

ISSN：

年卷期： 2023 年 14 卷

页码：

收录情况： SCI

摘要： Pineapple [Ananas comosus (L.) Merr.] is the most economically important crop possessing crassulacean acid metabolism (CAM) photosynthesis which has a higher water use efficiency by control of nocturnal opening and diurnal closure of stomata. To provide novel insights into the diel regulatory landscape in pineapple leaves, we performed genome-wide mapping of DNase I hypersensitive sites (DHSs) in pineapple leaves at day (2a.m.) and night (10a.m.) using a simplified DNase-seq method. As a result, totally 33340 and 28753 DHSs were found in green-tip tissue, and 29597 and 40068 were identified in white-base tissue at 2a.m. and 10a.m., respectively. We observed that majority of the pineapple genes occupied less than two DHSs with length shorter than 1 kb, and the promotor DHSs showed a proximal trend to the transcription start site (>77% promotor DHSs within 1 kb). In addition, more intergenic DHSs were identified around transcription factors or transcription co-regulators (TFs/TCs) than other functional genes, indicating complex regulatory contexts around TFs/TCs. Through combined analysis of tissue preferential DHSs and genes, we respectively found 839 and 888 coordinately changed genes in green-tip at 2a.m. and 10a.m. (AcG2 and AcG10). Furthermore, AcG2-specific, AcG10-specific and common accessible DHSs were dissected from the total photosynthetic preferential DHSs, and the regulatory networks indicated dynamic regulations with multiple cis-regulatory elements occurred to genes preferentially expressed in photosynthetic tissues. Interestingly, binding motifs of several cycling TFs were identified in the DHSs of key CAM genes, revealing a circadian regulation to CAM coordinately diurnal expression. Our results provide a chromatin regulatory landscape in pineapple leaves during the day and night. This will provide important information to assist with deciphering the circadian regulation of CAM photosynthesis.