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Identification of genes alternatively spliced in developing maize endosperm

文献类型： 外文期刊

作者： Xie, S. 1 ; Zhang, X. 2 ; Zhou, Z. 2 ; Li, X. 2 ; Huang, Y. 3 ; Zhang, J. 1 ; Weng, J. 2 ;

作者机构： 1.Sichuan Agr Univ, Coll Life Sci, Yaan 625014, Peoples R China

2.Chinese Acad Agr Sci, Inst Crop Sci, Beijing 100081, Peoples R China

3.Sichuan Agr Univ, Coll Agron, Chengdu, Sichuan, Peoples R China

关键词： Alternative splicing;endosperm development;intron retention;maize;RNA sequencing

期刊名称：PLANT BIOLOGY （ 影响因子：3.081； 五年影响因子：2.972 ）

ISSN： 1435-8603

年卷期： 2018 年 20 卷 1 期

页码：

收录情况： SCI

摘要： The process of alternative splicing is critical for the regulation of growth and development of plants. Thus far, little is known about the role of alternative splicing in the regulation of maize (Zea mays L.) endosperm development. RNA sequencing (RNA-seq) data of endosperms from two maize inbred lines, Mo17 and Ji419, at 15 and 25days after pollination (DAP), respectively, were used to identify genes that were alternatively spliced during endosperm development. Intron retention (IR) in GRMZM2G005887 was further validated using PCR and re-sequencing technologies. In total, 49,000 alternatively spliced events and ca. 20,000 alternatively spliced genes were identified in the two maize inbred lines. Of these, 30 genes involved in amino acid biosynthesis and starch biosynthesis were identified, with IR occurring only in a specific sample, and were significantly co-expressed with ten well-known genes related to maize endosperm development. Moreover, IR in GRMZM2G005887, which encodes a cysteine synthase, was confirmed to occur only in the endosperm of Mo17 at 15 DAP, resulting in the retention of a 121-bp fragment in its 5 untranslated region. Two cis-acting regulatory elements, CAAT-box and TATA-box were observed in the retained fragment in Mo17 at 15 DAP; this could regulate the expression of this gene and influence endosperm development. The results suggest that the 30 genes with IR identified herein might be associated with maize endosperm development, and are likely to play important roles in the developing maize endosperm.

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