Transcriptome Analysis of a New Peanut Seed Coat Mutant for the Physiological Regulatory Mechanism Involved in Seed Coat Cracking and Pigmentation

Wan, L and Li, B and Pandey, M K and Wu, Y and Lei, Y and Yan, L and Dai, X and Jiang, H and Zhang, J and Wei, G and Varshney, R K and Liao, B (2016) Transcriptome Analysis of a New Peanut Seed Coat Mutant for the Physiological Regulatory Mechanism Involved in Seed Coat Cracking and Pigmentation. Frontiers in Plant Science, 7 (1491). 01-15. ISSN 1664-462X

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Seed-coat cracking and undesirable color of seed coat highly affects external appearance and commercial value of peanuts (Arachis hypogaea L.). With an objective to find genetic solution to the above problems, a peanut mutant with cracking and brown colored seed coat (testa) was identified from an EMS treated mutant population and designated as “peanut seed coat crack and brown color mutant line (pscb).” The seed coat weight of the mutant was almost twice of the wild type, and the germination time was significantly shorter than wild type. Further, the mutant had lower level of lignin, anthocyanin, proanthocyanidin content, and highly increased level of melanin content as compared to wild type. Using RNA-Seq, we examined the seed coat transcriptome in three stages of seed development in the wild type and the pscb mutant. The RNA-Seq analysis revealed presence of highly differentially expressed phenylpropanoid and flavonoid pathway genes in all the three seed development stages, especially at 40 days after flowering (DAF40). Also, the expression of polyphenol oxidases and peroxidase were found to be activated significantly especially in the late seed developmental stage. The genome-wide comparative study of the expression profiles revealed 62 differentially expressed genes common across all the three stages. By analyzing the expression patterns and the sequences of the common differentially expressed genes of the three stages, three candidate genes namely c36498_g1 (CCoAOMT1), c40902_g2 (kinesin), and c33560_g1 (MYB3) were identified responsible for seed-coat cracking and brown color phenotype. Therefore, this study not only provided candidate genes but also provided greater insights and molecular genetic control of peanut seed-coat cracking and color variation. The information generated in this study will facilitate further identification of causal gene and diagnostic markers for breeding improved peanut varieties with smooth and desirable seed coat color.

Item Type: Article
Divisions: Research Program : Genetic Gains
CRP: CGIAR Research Program on Grain Legumes
Uncontrolled Keywords: Peanut(Arachishypogaea), Seed-coat cracking, Pigmentation, RNA-seq, Flavonoid pathway, Groundnut
Subjects: Mandate crops > Groundnut
Depositing User: Mr Ramesh K
Date Deposited: 07 Jan 2017 13:37
Last Modified: 07 Jan 2017 13:37
Official URL:
Acknowledgement: This work was funded by the National Basic Research Program of China (2013CB127803), the National Natural Science Foundation of China (No. 31461143022, 31371662, 31301256), and the China Agriculture Research System (No. CARS-14). This work has been also undertaken as part of the CGIAR Research Program on Grain Legumes and the China-CGIAR research collaborative project. ICRISAT is a member of CGIAR Consortium.This article is part of the research topic, Advances in legume research.
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