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Genes & Genomics

, Volume 39, Issue 10, pp 1117–1127 | Cite as

Transcriptome comparative analysis between the cytoplasmic male sterile line and fertile line in soybean (Glycine max (L.) Merr.)

  • Jiajia Li
  • Shouping Yang
  • Junyi Gai
Research Article

Abstract

To further elucidate the molecular mechanism and fertility restoration of cytoplasmic male sterility (CMS) in soybean, a comparative transcriptome analysis was conducted between the CMS line NJCMS1A, restorer line NJCMS1C and their hybrid F1 progeny (NJCMS1A × NJCMS1C) using RNA-Seq strategy. After pairwise comparative analysis of these soybean lines, 294, 222, and 288 differentially expressed genes (DEGs) were identified, respectively. Further bioinformatic analysis indicated that these DEGs were involved in diverse molecular functions and metabolic pathways. qRT-PCR analysis validated that the gene expression pattern in RNA-Seq was reliable. These results significantly showed that the male sterility and fertility restoration in NJCMS1A might be related to a series of the abnormal of growth development and metabolic processes, such as pollen development, DNA methylation process, pollen viability, cell wall development, programmed cell death, as well as carbohydrate and energy metabolism. This study could facilitate our understanding of the molecular mechanisms and fertility restoration behind CMS in soybean.

Keywords

Soybean (Glycine max (L.) Merr.) Cytoplasmic male sterility (CMS) Fertility restoration Transcriptomics Differentially expressed genes (DEGs) 

Notes

Acknowledgements

This work was supported by the National Key Research and Development Program of China (2016YFD0101500, 2016YFD0101504), the National Hightech R & D Program of China (2011AA10A105), and the Program for Changjiang Scholars and Innovative Research Team in University (PCSIRT13073).

Author contributions

SPY and JYG conceived this study. JJL and SPY designed the experimental plan and drafted and revised the manuscript. JJL analyzed and interpreted the sequence data. All authors read and approved the final manuscript.

Compliance with ethical standards

Conflict of interest

All the authors declare that they have no conflict of interest.

Ethical approval

The article does not contain any studies with human subjects or animals performed by any of the authors.

Supplementary material

13258_2017_578_MOESM1_ESM.xls (234 kb)
Table S1: Number of differentially expressed genes (DEGs) between different comparison groups. Table S1-1: Number of DEGs between NJCMS1A and NJCMS1C. Table S1-2: Number of DEGs between NJCMS1A and F1. Table S1-3: Number of DEGs between NJCMS1C and F1. (XLS 233 KB)
13258_2017_578_MOESM2_ESM.xls (36 kb)
Table S2: KEGG pathways enriched of differentially expressed gene (DEGs) between different compared groups. Table S2-1: KEGG pathways enriched of DEGs between NJCMS1A and NJCMS1C. Table S2-2: KEGG pathways enriched of DEGs between NJCMS1A and F1. Table S2-3: KEGG pathways enriched of DEGs between NJCMS1C and F1. (XLS 36 KB)
13258_2017_578_MOESM3_ESM.xls (32 kb)
Table S3: Comparison of expression patterns between RNA-Seq and qRT-PCR. Table S3-1: DEGs confirmed by qRT-PCR using the same sample as that in RNA-Seq. Table S3-2: DEGs confirmed by qRT-PCR using different sample from that in RNA-Seq. Table S3-3: The compare results between qRT-PCR and RNA-Seq of DEG (Glyma.16G045100) shared in three different compared groups. (XLS 32 KB)

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Copyright information

© The Genetics Society of Korea and Springer Science+Business Media B.V. 2017

Authors and Affiliations

  1. 1.Soybean Research Institute, National Center for Soybean Improvement, Key Laboratory of Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), State Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop ProductionNanjing Agricultural UniversityNanjingChina
  2. 2.College of AgronomyAnhui Agricultural UniversityHefeiChina

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