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Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing

Soybeans are an important cash crop and are widely used as a source of vegetable protein and edible oil. MicroRNAs (miRNA) are endogenous small RNA that play an important regulatory role in the evolutionarily conserved system of gene expression. In this study, we selected four lines with extreme phe...

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Detalles Bibliográficos
Autores principales: Yu, Jing-Yao, Zhang, Zhan-Guo, Huang, Shi-Yu, Han, Xue, Wang, Xin-Yu, Pan, Wen-Jing, Qin, Hong-Tao, Qi, Hui-Dong, Yin, Zhen-Gong, Qu, Ke-Xin, Zhang, Ze-Xin, Liu, Shan-Shan, Jiang, Hong-Wei, Liu, Chun-Yan, Hu, Zhen-Bang, Wu, Xiao-Xia, Chen, Qing-Shan, Xin, Da-Wei, Qi, Zhao-Ming
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6628032/
https://www.ncbi.nlm.nih.gov/pubmed/31142023
http://dx.doi.org/10.3390/genes10060408
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author Yu, Jing-Yao
Zhang, Zhan-Guo
Huang, Shi-Yu
Han, Xue
Wang, Xin-Yu
Pan, Wen-Jing
Qin, Hong-Tao
Qi, Hui-Dong
Yin, Zhen-Gong
Qu, Ke-Xin
Zhang, Ze-Xin
Liu, Shan-Shan
Jiang, Hong-Wei
Liu, Chun-Yan
Hu, Zhen-Bang
Wu, Xiao-Xia
Chen, Qing-Shan
Xin, Da-Wei
Qi, Zhao-Ming
author_facet Yu, Jing-Yao
Zhang, Zhan-Guo
Huang, Shi-Yu
Han, Xue
Wang, Xin-Yu
Pan, Wen-Jing
Qin, Hong-Tao
Qi, Hui-Dong
Yin, Zhen-Gong
Qu, Ke-Xin
Zhang, Ze-Xin
Liu, Shan-Shan
Jiang, Hong-Wei
Liu, Chun-Yan
Hu, Zhen-Bang
Wu, Xiao-Xia
Chen, Qing-Shan
Xin, Da-Wei
Qi, Zhao-Ming
author_sort Yu, Jing-Yao
collection PubMed
description Soybeans are an important cash crop and are widely used as a source of vegetable protein and edible oil. MicroRNAs (miRNA) are endogenous small RNA that play an important regulatory role in the evolutionarily conserved system of gene expression. In this study, we selected four lines with extreme phenotypes, as well as high or low protein and oil content, from the chromosome segment substitution line (CSSL) constructed from suinong (SN14) and ZYD00006, and planted and sampled at three stages of grain development for small RNA sequencing and expression analysis. The sequencing results revealed the expression pattern of miRNA in the materials, and predicted miRNA-targeted regulatory genes, including 1967 pairs of corresponding relationships between known-miRNA and their target genes, as well as 597 pairs of corresponding relationships between novel-miRNA and their target genes. After screening and annotating genes that were targeted for regulation, five specific genes were identified to be differentially expressed during seed development and subsequently analyzed for their regulatory relationship with miRNAs. The expression pattern of the targeted gene was verified by Real-time Quantitative PCR (RT-qPCR). Our research provides more information about the miRNA regulatory network in soybeans and further identifies useful genes that regulate storage during soy grain development, providing a theoretical basis for the regulation of soybean quality traits.
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spelling pubmed-66280322019-07-23 Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing Yu, Jing-Yao Zhang, Zhan-Guo Huang, Shi-Yu Han, Xue Wang, Xin-Yu Pan, Wen-Jing Qin, Hong-Tao Qi, Hui-Dong Yin, Zhen-Gong Qu, Ke-Xin Zhang, Ze-Xin Liu, Shan-Shan Jiang, Hong-Wei Liu, Chun-Yan Hu, Zhen-Bang Wu, Xiao-Xia Chen, Qing-Shan Xin, Da-Wei Qi, Zhao-Ming Genes (Basel) Article Soybeans are an important cash crop and are widely used as a source of vegetable protein and edible oil. MicroRNAs (miRNA) are endogenous small RNA that play an important regulatory role in the evolutionarily conserved system of gene expression. In this study, we selected four lines with extreme phenotypes, as well as high or low protein and oil content, from the chromosome segment substitution line (CSSL) constructed from suinong (SN14) and ZYD00006, and planted and sampled at three stages of grain development for small RNA sequencing and expression analysis. The sequencing results revealed the expression pattern of miRNA in the materials, and predicted miRNA-targeted regulatory genes, including 1967 pairs of corresponding relationships between known-miRNA and their target genes, as well as 597 pairs of corresponding relationships between novel-miRNA and their target genes. After screening and annotating genes that were targeted for regulation, five specific genes were identified to be differentially expressed during seed development and subsequently analyzed for their regulatory relationship with miRNAs. The expression pattern of the targeted gene was verified by Real-time Quantitative PCR (RT-qPCR). Our research provides more information about the miRNA regulatory network in soybeans and further identifies useful genes that regulate storage during soy grain development, providing a theoretical basis for the regulation of soybean quality traits. MDPI 2019-05-28 /pmc/articles/PMC6628032/ /pubmed/31142023 http://dx.doi.org/10.3390/genes10060408 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Yu, Jing-Yao
Zhang, Zhan-Guo
Huang, Shi-Yu
Han, Xue
Wang, Xin-Yu
Pan, Wen-Jing
Qin, Hong-Tao
Qi, Hui-Dong
Yin, Zhen-Gong
Qu, Ke-Xin
Zhang, Ze-Xin
Liu, Shan-Shan
Jiang, Hong-Wei
Liu, Chun-Yan
Hu, Zhen-Bang
Wu, Xiao-Xia
Chen, Qing-Shan
Xin, Da-Wei
Qi, Zhao-Ming
Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing
title Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing
title_full Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing
title_fullStr Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing
title_full_unstemmed Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing
title_short Analysis of miRNAs Targeted Storage Regulatory Genes during Soybean Seed Development Based on Transcriptome Sequencing
title_sort analysis of mirnas targeted storage regulatory genes during soybean seed development based on transcriptome sequencing
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6628032/
https://www.ncbi.nlm.nih.gov/pubmed/31142023
http://dx.doi.org/10.3390/genes10060408
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