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Comparative Transcriptomic Analysis of Two Rice (Oryza sativa L.) Male Sterile Line Seed Embryos Under Accelerated Aging

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Abstract

Seed aging is a complex and irreversible process during seed development and storage. The quality of parental seeds affects yield and quality of hybrid rice seeds directly. However, little is known about the mechanism of the accelerated aging seeds in hybrid rice photoperiod-thermo-sensitive genic male sterile (PTGMS) lines. RNA-Seq technique was performed by using seed embryos of two PTGMS lines, Y58S (YS) and Zhun S (ZS), under the restrictive conditions (95% relative humidity and 45 °C) for 0 day, 5 days, 7 days, and 10 days. In total, 1198, 487, 1308, 396, and 669 differentially expressed genes (DEGs) were identified between adjacent time periods of accelerated aging treatment in the ZS and YS. Gene Ontology (GO) analysis revealed the DEGs enriched in the starch catabolic process and sucrose catabolic process. It also showed that many genes were enriched in the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways such as starch and sucrose metabolism, plant-pathogen interaction, and plant hormone signal transduction. In addition, 34 candidate genes were selected to the following phylogenetic analysis and different gene expression profiles. Finally, several key candidate genes of seed aging were identified, containing a rice sucrose synthase Os07g0616800 and an unknown gene Os12g0161500, by quantitative real-time PCR. Together, these results established a good foundation for studying the molecular mechanism of rice seed storability and also provide new insights into the PTMGS line seed storage.

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Abbreviations

ABA:

abscisic acid

AKR:

analdo-ketoreductase

DEGs:

differentially expressed genes

FC:

fold change

FPKM:

fragments per kilobase of transcript per million fragments

GC:

guanine + cytosine

GO:

Gene Ontology

Hsfs:

heat shock transcription factors

IsoAsp:

isoaspartyl

JA:

jasmonic acid

KEGG:

Kyoto Encyclopedia of Genes and Genomes

PIMT:

protein-l-isoaspartyl methyltransferase

PTGMS:

photoperiod-thermo-sensitive genic male sterile

qRT-PCR:

quantitative real-time polymerase chain reaction

QTL:

quantitative trait loci

ROS:

reactive oxygen species

TFs:

transcription factors

UDP:

uridine 5′-diphosphate

YS:

Y58S

ZS:

Zhun S

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Funding

The project has been funded by the National Key Research and Development Program of China (2018YFD0100900), Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance Project (SYKB201705), and Crop Cultivation and Farming Foundation for the Talents of Hunan Agricultural University (YXQN2018-9).

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Authors and Affiliations

  1. College of Agronomy, Hunan Agricultural University, Changsha, People’s Republic of China

    Ye Liu, Jiwai He, Yuntao Yan & Haiqing Zhang

  2. Hunan Provincial Key Laboratory of Rice and Rapeseed Breeding for Disease Resistance, Changsha, People’s Republic of China

    Ye Liu, Jiwai He & Haiqing Zhang

  3. Yuan Longping High-Tech Agricultural Co., Ltd., Changsha, People’s Republic of China

    Aimin Liu

  4. State Key Laboratory of Hybrid Rice, Changsha, People’s Republic of China

    Aimin Liu & Haiqing Zhang

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  1. Ye Liu
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  2. Jiwai He
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  3. Yuntao Yan
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  4. Aimin Liu
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Correspondence to Haiqing Zhang.

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Key Message

The team found that DEGs identified from seed embryos were clustered into different processes and metabolisms. Meanwhile, several key candidate genes of seed aging were identified, containing Os07g0616800 and Os12g0161500, by quantitative real-time PCR. Together, these results established a good foundation for studying the molecular mechanism of rice seed storability and also provide new insights into the PTMGS line seed storage.

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Liu, Y., He, J., Yan, Y. et al. Comparative Transcriptomic Analysis of Two Rice (Oryza sativa L.) Male Sterile Line Seed Embryos Under Accelerated Aging. Plant Mol Biol Rep 38, 282–293 (2020). https://doi.org/10.1007/s11105-020-01198-y

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