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Mechanisms governing melon fruit skin pigmentation: Insights from transcriptome sequencing and whole-genome bisulfite sequencing analyses

文献类型： 外文期刊

作者： Wu, Ting 1 ; Liu, Bin 1 ; Xiong, Tao 1 ; Yan, Miao 1 ; Zhang, Jun-Ling 2 ; Yang, Yong 1 ; Hu, Guo-Zhi 1 ;

作者机构： 1.Xinjiang Acad Agr Sci, Hami Melon Res Ctr, Urumqi 830091, Peoples R China

2.China Agr Univ, Coll Resources & Environm Sci, Beijing 100193, Peoples R China

关键词： Chlorophyll metabolism; Cytosine methylation; Fruit skin color; Melon

期刊名称：SCIENTIA HORTICULTURAE （ 影响因子：3.9； 五年影响因子：4.3 ）

ISSN： 0304-4238

年卷期： 2024 年 333 卷

页码：

收录情况： SCI

摘要： Fruit skin color is a critical agronomic trait determining fruit quality, but the mechanisms governing melon (Cucumis melo L.) fruit skin pigmentation remain inadequately characterized. We performed cytological, transcriptomic, and whole-genome bisulfite sequencing (WGBS) comparative analyses on two near-isogenic lines (NILs) at different developmental stages: the green-skinned (GS) and white-skinned (WS) melon. The enriched functions among the 536 identified differentially expressed genes (DEGs) were related to chloroplast development, pigment metabolism, and photosynthetic pathway. The genes in these pathways were downregulated in the WS line, potentially contributing to the decreased chlorophyll content and abnormal chloroplast development in WS. WGBS analysis revealed that the levels of genomic DNA methylation in WS progressively exceeded those in GS as the fruits developed. The integrated analysis of the transcriptome and methylome identified DMRassociated DEGs (CHLI, CRD1, PORA, and HCAR) involved in chlorophyll metabolism. Notably, PORA exhibited downregulated expression and was hypermethylated in WS fruits during two developmental stages, showing a coordinated expression with the chlorophyll contents in developing WS and GS fruits. Furthermore, we identified a transcription factor gene, MELO3C011576, that was closely associated with the expression of PORA and chlorophyll levels across three developmental stages in both NILs. We speculate that PORA positively regulates chlorophyll biosynthesis in the two NILs, with its expression may be co-controlled by DNA methylation and transcription factors.

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