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Parallel Bud Mutation Sequencing Reveals that Fruit Sugar and Acid Metabolism Potentially Influence Stress in Malus

文献类型： 外文期刊

作者： Zhao, Jirong 1 ; Shen, Fei 3 ; Gao, Yuan 1 ; Wang, Dajiang 1 ; Wang, Kun 1 ;

作者机构： 1.Chinese Acad Agr Sci, Res Inst Pomol, Key Lab Biol & Genet Improvement Hort Crops Germp, Minist Agr, Xingcheng 125100, Peoples R China

2.Yanan Univ, Shanxi Key Lab Chinese Jujube, Coll Life Sci, Yanan 716000, Peoples R China

3.Beijing Acad Agr & Forestry Sci, Beijing Agrobiotechnol Res Ctr, Beijing 100193, Peoples R China

关键词： RNA-seq; resequencing; co-expression module; Malus domestica Borkh; sugar; acid; plant stress; fruit development

期刊名称：INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES （ 影响因子：5.923； 五年影响因子：6.132 ）

ISSN：

年卷期： 2019 年 20 卷 23 期

页码：

收录情况： SCI

摘要： Apple sugar and acid are the most important traits of apple fruit. Bud sport cultivars can provide abundant research materials for functional gene studies in apple. In this study, using bud sport materials with a rather different sugar and acid flavor, i.e., "Jonathan" and "Sweet Jonathan", we profiled the whole genome variations and transcriptional regulatory network during fruit developmental stages using whole genome sequencing and RNA-sequencing. Variation analysis identified 4,198,955 SNPs, 319,494 InDels, and 32,434 SVs between the two cultivars. In total, 4313 differentially expressed genes among all of the d 44,399 genes expressed were identified between the two cultivars during fruit development, and functional analysis revealed stress response and signal transduction related genes were enriched. Using 24,047 genes with a more variable expression value, we constructed 28 co-expression modules by weighted correlation network analysis. Deciphering of 14 co-expression modules associated with sugar or acid accumulation during fruit development revealed the hub genes associated with sugar and acid metabolism, e.g., MdDSP4, MdINVE, and MdSTP7. Furthermore, exploration of the intra network of the co-expression module indicated the close relationship between sugar and acid metabolism or sugar and stress. Motif-based sequence analysis of the 17 differentially expressed ATP-binding cassette transporter genes and Yeast one-hybrid assay identified and confirmed a transcription factor, MdBPC6, regulating the ATP-binding cassette (ABC) transporter genes and potentially participating in the apple fruit development or stress response. Collectively, all of the results demonstrated the use of parallel bud mutation sequencing and identified hub genes, and inferred regulatory relationships providing new information about apple fruit sugar and acid accumulation or stress response.

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