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Identification and functional deciphering suggested the regulatory roles of long intergenic ncRNAs (lincRNAs) in increasing grafting pepper resistance to Phytophthora capsici

文献类型： 外文期刊

作者： Yin, Junliang 1 ; Yan, Jiahui 1 ; Hou, Lu 1 ; Jiang, Liling 1 ; Xian, Wenrong 1 ; Guo, Qingyun 1 ;

作者机构： 1.Qinghai Univ, State Key Lab Plateau Ecol & Agr, Qinghai Acad Agr & Forestry Sci, Key Lab Agr Integrated Pest Management, Xining 810016, Qinghai, Peoples R China

2.Yangtze Univ, Coll Agr, Hubei Key Lab Waterlogging Disaster & Agr Use Wet, Jingzhou 434000, Hubei, Peoples R China

3.Qinghai Univ, Qinghai Acad Agr & Forestry Sci, Xining 810016, Peoples R China

关键词： ncRNAs; Capsicum annuum; cis-regulating; lincRNA-miRNA-mRNA network

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2021 年 22 卷 1 期

页码：

收录情况： SCI

摘要： Background As a popular and valuable technique, grafting is widely used to protect against soil-borne diseases and nematodes in vegetable production. Growing evidences have revealed that long intergenic ncRNAs (lincRNAs) are strictly regulated and play essential roles in plants development and stress responses. Nevertheless, genome-wide identification and function deciphering of pepper lincRNAs, especially for their roles in improving grafting pepper resistance to Phytophthora capsici is largely unknown. Results In this study, RNA-seq data of grafting and control pepper plants with or without P. capsici inoculation were used to identify lincRNAs. In total, 2,388 reliable lincRNAs were identified. They were relatively longer and contained few exons than protein-coding genes. Similar to coding genes, lincRNAs had higher densities in euchromatin regions; and longer chromosome transcribed more lincRNAs. Expression pattern profiling suggested that lincRNAs commonly had lower expression than mRNAs. Totally, 607 differentially expressed lincRNAs (DE-lincRANs) were identified, of which 172 were found between P. capsici resistance grafting pepper sample GR and susceptible sample LDS. The neighboring genes of DE-lincRNAs and miRNAs competitively sponged by DE-lincRNAs were identified. Subsequently, the expression level of DE-lincRNAs was further confirmed by qRT-PCR and regulation patterns between DE-lincRNAs and neighboring mRNAs were also validated. Function annotation revealed that DE-lincRNAs increased the resistance of grafting prepper to P. capsici by modulating the expression of disease-defense related genes through cis-regulating and/or lincRNA-miRNA-mRNA interaction networks. Conclusions This study identified pepper lincRNAs and suggested their potential roles in increasing the resistance level of grafting pepper to P. capsici.

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