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Genome-wide identification and expression analysis of the E2 gene family in potato

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Abstract

E2 (ubiquitin conjugating enzymes) is an important part of the ubiquitin–proteasome pathway. These enzymes have a significant role to play during plant growth and development, which can response to various stresses. To date, the E2 family has been reported in some high plants, but the genome-wide characterization of this gene family in potato remains unknown. In the present study, 57 putative StUBCs were identified, which were clustered into eight subgroups based on phylogeny. The introns varied in numbers 0 to 9. The highest numbers of introns were 5, which accounted for 31.57%. The analysis of gene duplication showed that 22 StUBC genes were involved in 13 segmental duplication events, while no tandem duplication was found in StUBC genes. According to gene ontology analysis (GO), StUBC family major function is protein binding and ion binding. The RNA sequencing data revealed that 15 StUBC genes were highly expressed in different organs and tubers. 27 StUBC genes were up-regulated under 50 µM ABA treatments. Moreover, the RNA-seq data and qRT-PCR analysis indicated that 17 StUBC genes responded to heat stress. 8 StUBC genes responded to salt stress according to qRT-PCR analysis, and StUBC2, StUBC12, StUBC30 and StUBC13 were predominant expression. The result of this research could provide valuable information to insight into potato E2 family and establish a foundation for further to elucidate function of E2 genes.

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Acknowledgements

This research was supported by the National Natural Science Foundation of China (31660416, 31860399) and Discipline Construction Fund Project of Gansu Agricultural University (GSAU-XKJS-2018-169).

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Authors and Affiliations

  1. College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People’s Republic of China

    Weigang Liu, Xun Tang, Xi Zhu, Xuehong Qi, Ning Zhang & Huaijun Si

  2. Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People’s Republic of China

    Xun Tang, Xi Zhu & Huaijun Si

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  1. Weigang Liu
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  2. Xun Tang
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Correspondence to Ning Zhang.

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11033_2018_4533_MOESM1_ESM.jpg

Distribution information of E2 genes on 12 chromosomes. We renamed StUBC1-StUBC56 according to its order of appearance on the chromosome. The gene that was not located on the chromosomal location was renamed StUBC57.

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Liu, W., Tang, X., Zhu, X. et al. Genome-wide identification and expression analysis of the E2 gene family in potato. Mol Biol Rep 46, 777–791 (2019). https://doi.org/10.1007/s11033-018-4533-9

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