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Combined gene family characterization and RNA-Seq to study the response of β-ketoacyl-CoA synthase to abiotic stress in rice (Oryza sativa L.)

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Abstract

β-ketoacyl-CoA synthase is a key enzyme in the biosynthesis of over-long-chain fattty acids; thus, it plays a crucial role in plant resistance to stress. Herein, 33 OsKCSs were classified into five subfamilies based on phylogenetic analysis and domain structure in rice. Nonsynonymous to synonymous substitution ratio (Ka/Ks) analysis showed that duplicated genes were possibly under strong purifying selection pressure. Cis-element analysis revealed that OsKCSs may be regulated by different transcription factors. SNP distribution of OsKCSs in 295 germplasm accessions seemed associated with functional disparity under environmental stress. Additionally, 10 of the 33 OsKCSs were not expressed in different rice tissues. RNA-Seq and qRT-PCR analysis demonstrated that seven OsKCSs (OsKCS5, OsKCS6, OsKCS14, OsKCS15, OsKCS4, OsKCS30, and OsKCS21) had significantly different expression levels under 0.5% NaCl, 0.5% Na2CO3, and a 10-day incubation at 17 °C. Our results provide a solid foundation for understanding the roles of OsKCS genes and the mechanism by which they regulate stress resistance.

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Acknowledgements

We thank Editage (www.editage.cn) for English language editing.

Funding

This research was financially supported by the Major Science and Technology Project of Heilongjiang Province, China (Grant No. 2020ZX16B010) and by the China Postdoctoral Science Foundation (Grant No. 2019M651249).

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  1. Lei Lei, Luomiao Yang and Bowen Cui contributed equally to the article.

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  1. Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China

    Lei Lei, Luomiao Yang, Bowen Cui, HuaLong Liu, Jingguo Wang, Hongliang Zheng, Wei Xin & Detang Zou

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Contributions

Data curation, LL and HZ; Formal analysis, LY and WX; Funding acquisition, HL; Software, LL, and JW; Supervision, DZ; Writing—original draft, LL and LY; Writing—review and editing, BC and DZ.

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Correspondence to Detang Zou.

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Supplementary material 1 (PNG 432 kb) Fig. S1. Motif sequences of KCS genes in rice

10725_2021_728_MOESM2_ESM.jpg

Supplementary material 2 (JPEG 229 kb) Fig. S2. Chromosomal location of OsKCS genes in rice. Blue bars represent the chromosomes. Chromosome numbers are shown at the top of the bar. OsKCS genes are labeled at the right of the chromosomes; Group I to Group V genes are marked with green, blue, orange, light blue, and yellow, respectively. The position of every OsKCS gene is labeled on the left of the chromosomes.

10725_2021_728_MOESM3_ESM.tif

Supplementary material 3 (TIFF 270 kb) Fig. S3. Expression patterns of rice OsKCS genes in various tissues. The expression level of OsKCS genes is shown by different colors on the right scale.

10725_2021_728_MOESM4_ESM.tif

Supplementary material 4 (TIFF 200 kb) Fig. S4. Expression patterns of rice OsKCS genes under various conditions of abiotic stress conditions. The expression levels of OsKCS genes are shown by different colors on the right scale. The color scale represents the log2(-FoldChange) value from high (red) to low (blue).

Supplementary material 5 (XLSX 341 kb)

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Lei, L., Yang, L., Cui, B. et al. Combined gene family characterization and RNA-Seq to study the response of β-ketoacyl-CoA synthase to abiotic stress in rice (Oryza sativa L.). Plant Growth Regul 95, 97–110 (2021). https://doi.org/10.1007/s10725-021-00728-2

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