Transcriptome Analysis of Sesame ( Sesamum indicum L.) Reveals the LncRNA and mRNA Regulatory Network Responding to Low Nitrogen Stress.

Publisher: MDPI Country of Publication: Switzerland NLM ID: 101092791 Publication Model: Electronic Cited Medium: Internet ISSN: 1422-0067 (Electronic) Linking ISSN: 14220067 NLM ISO Abbreviation: Int J Mol Sci Subsets: MEDLINE

Original Publication: Basel, Switzerland : MDPI, [2000-

Sesamum*/genetics ; Sesamum*/metabolism ; RNA, Long Noncoding*/genetics ; RNA, Long Noncoding*/metabolism ; Nitrogen*/metabolism ; Gene Expression Regulation, Plant* ; Gene Regulatory Networks* ; Stress, Physiological*/genetics ; RNA, Messenger*/genetics ; RNA, Messenger*/metabolism ; Gene Expression Profiling*/methods; Transcriptome ; Plant Proteins/genetics ; Plant Proteins/metabolism

Nitrogen is one of the important factors restricting the development of sesame planting and industry in China. Cultivating sesame varieties tolerant to low nitrogen is an effective way to solve the problem of crop nitrogen deficiency. To date, the mechanism of low nitrogen tolerance in sesame has not been elucidated at the transcriptional level. In this study, two sesame varieties Zhengzhi HL05 (ZZ, nitrogen efficient) and Burmese prolific (MD, nitrogen inefficient) in low nitrogen were used for RNA-sequencing. A total of 3964 DEGs (differentially expressed genes) and 221 DELs (differentially expressed lncRNAs) were identified in two sesame varieties at 3d and 9d after low nitrogen stress. Among them, 1227 genes related to low nitrogen tolerance are mainly located in amino acid metabolism, starch and sucrose metabolism and secondary metabolism, and participate in the process of transporter activity and antioxidant activity. In addition, a total of 209 pairs of lncRNA-mRNA were detected, including 21 pairs of trans and 188 cis. WGCNA (weighted gene co-expression network analysis) analysis divided the obtained genes into 29 modules; phenotypic association analysis identified three low-nitrogen response modules; through lncRNA-mRNA co-expression network, a number of hub genes and cis/trans-regulatory factors were identified in response to low-nitrogen stress including GS1-2 (glutamine synthetase 1-2), PAL (phenylalanine ammonia-lyase), CHS (chalcone synthase, CHS), CAB21 (chlorophyll a-b binding protein 21) and transcription factors MYB54 , MYB88 and NAC75 and so on. As a trans regulator, lncRNA MSTRG.13854.1 affects the expression of some genes related to low nitrogen response by regulating the expression of MYB54, thus responding to low nitrogen stress. Our research is the first to provide a more comprehensive understanding of DEGs involved in the low nitrogen stress of sesame at the transcriptome level. These results may reveal insights into the molecular mechanisms of low nitrogen tolerance in sesame and provide diverse genetic resources involved in low nitrogen tolerance research.

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242102110173 the Key Project of development and extension of Henan Province-Science and technology; 2022YQ01 Excellent Youth Fund of Henan Academy of Agricultural Sciences; CARS-14-1-14 The China Agriculture Research System; 2023ZC082 Independent Innovation Project of Henan Academy of Agricultural Sciences; 2024ZC039 Independent Innovation Project of Henan Academy of Agricultural Sciences

Keywords: low nitrogen stress; regulatory network; sesame; transcriptome analysis

0 (RNA, Long Noncoding)
N762921K75 (Nitrogen)
0 (RNA, Messenger)
0 (Plant Proteins)

Date Created: 20240525 Date Completed: 20240525 Latest Revision: 20240527

20240527

PMC11122487

10.3390/ijms25105501

38791539