Genome-wide identification and expression analysis of the <i>β</i>-amylase gene family in <i>Ipomoea batatas</i>

HUANG Xiaofang; BI Chuyun; HUANG Weiqun; LIU Jianghong; HU Yunzhuo; HUANG Bifang; LIN Shiqiang; CHEN Xuanyang

doi:10.7671/j.issn.1001-411X.202011031

Journal of South China Agricultural University > 2021 > 42(5): 50-59. > DOI: 10.7671/j.issn.1001-411X.202011031

HUANG Xiaofang, BI Chuyun, HUANG Weiqun, et al. Genome-wide identification and expression analysis of the β-amylase gene family in Ipomoea batatas[J]. Journal of South China Agricultural University, 2021, 42(5): 50-59. DOI: 10.7671/j.issn.1001-411X.202011031

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Genome-wide identification and expression analysis of the β-amylase gene family in Ipomoea batatas

HUANG Xiaofang^{1, 2,},
BI Chuyun^{1, 2},
HUANG Weiqun³,
LIU Jianghong¹,
HU Yunzhuo¹,
HUANG Bifang⁴,
LIN Shiqiang^{1, 4, 5, ,},
CHEN Xuanyang^{1, 2, 6, ,}

1.
Key Laboratory of Crop Biotechnology in Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou 350002, China
2.
College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
3.
Seed Centre of Fujian, Fuzhou 350003, China
4.
College of Life Science, Fujian Agriculture and Forestry University, Fuzhou 350002, China
5.
Fujian Engineering and Technology Research Center of Breeding and Utilization for Special Crop, Fuzhou 350002, China
6.
Key Laboratory of Genetics, Breeding and Multiple Application of Crops, Ministry of Education, Fujian Agriculture and Forestry University, Fuzhou 350002, China

More Information

Received Date: November 24, 2020
Available Online: May 17, 2023

Graphical Abstract

Abstract

Abstract

Objective
To mine the sequence information of the β-amylase gene family of Ipomoea batatas genome, and analyze the structure and function of genes.

Method
Based on the whole genome sequence data of I. batatas cultivar ‘Taizhong 6’, the bioinformatic methods were applied to analyze the identified 12 members of the β-amylase gene family and conduct the domain conservation analysis, chromosomal localization, screening of potential duplication genes, conservative motif analysis, phylogenetic tree construction. The gene expression under low temperature stress was analyzed using the transcriptomics data.

Result
Twelve β-amylase genes were located on chromosomes No. 2, 4, 5, 6, 11, 12, 13 and 14 of I. batatas, and eight pairs showed potential duplication relationship. Multiple sequence alignment and functional domain search indicated that there were three highly conserved domains and 10 conservative motifs in the amino acid sequences of I. batatas β-amylase family. Phylogenetic trees of β-amylase proteins in I. batatas and other species showed that 62 β-amylase family members were divided into seven subgroups of S1−S7. The β-amylases of I. batatas were mainly distributed in the subgroups of S2, S4, S5, S6 and S7, most of which belonged to the same branches with Arabidopsis thaliana, Solanum tuberosum and S. lycopersicum. The results of transcriptomics data showed that six β-amylase genes expressed differentially during the low temperature storage period, of which two were up-regulated and four were down-regulated in ‘Xushu 15-1’, while only two genes were down-regulated in ‘Xushu 15-4’.

Conclusion
The β-amylases are a key class of starch hydrolyzing enzymes that play important roles in the degradation of starch into reducing sugars during the process of I. batatas growth, development and tuber storage stages. The sequences of the identified 12 sweet potato β-amylase genes provide data reference for further study on the biological functions of I. batatas β-amylase gene family.
- Ipomoea batatas,
- β-amylase,
- gene family,
- systematic evolution,
- differential expression analysis

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References (31)

References

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