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. 2023 Nov 14;14(11):2077.
doi: 10.3390/genes14112077.

Genome-Wide Identification and Preliminary Functional Analysis of BAM (β-Amylase) Gene Family in Upland Cotton

Yanlong Yang  1   2 , Fenglei Sun  3 , Penglong Wang  2 , Mayila Yusuyin  1 , Wumaierjiang Kuerban  2 , Chengxia Lai  1 , Chunping Li  1 , Jun Ma  1 , Fei Xiao  4
Affiliations

Genome-Wide Identification and Preliminary Functional Analysis of BAM (β-Amylase) Gene Family in Upland Cotton

Yanlong Yang et al. Genes (Basel). .

Abstract

The β-amylase (BAM) gene family encodes important enzymes that catalyze the conversion of starch to maltose in various biological processes of plants and play essential roles in regulating the growth and development of multiple plants. So far, BAMs have been extensively studied in Arabidopsis thaliana (A. thaliana). However, the characteristics of the BAM gene family in the crucial economic crop, cotton, have not been reported. In this study, 27 GhBAM genes in the genome of Gossypium hirsutum L (G. hirsutum) were identified by genome-wide identification, and they were divided into three groups according to sequence similarity and phylogenetic relationship. The gene structure, chromosome distribution, and collinearity of all GhBAM genes identified in the genome of G. hirsutum were analyzed. Further sequence alignment of the core domain of glucosyl hydrolase showed that all GhBAM family genes had the glycosyl hydrolase family 14 domain. We identified the BAM gene GhBAM7 and preliminarily investigated its function by transcriptional sequencing analysis, qRT-PCR, and subcellular localization. These results suggested that the GhBAM7 gene may influence fiber strength during fiber development. This systematic analysis provides new insight into the transcriptional characteristics of BAM genes in G. hirsutum. It may lay the foundation for further study of the function of these genes.

Keywords: fiber development; genome-wide identification; starch metabolism; upland cotton; β-amylase (BAM) gene family.

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Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Evolutionary analysis of BAM gene family in upland cotton, Sea Island cotton, and A. thaliana.
Figure 2
Figure 2
Analysis of motif and gene structure of BAM gene family in upland cotton.
Figure 3
Figure 3
Analysis of promoter cis-acting elements of BAM gene family in upland cotton.
Figure 4
Figure 4
Chromosome localization analysis of BAM gene family. (A) A. thaliana BAM gene mapping, (B) Sea Island cotton At subgenomic BAM gene mapping, (C) Sea Island cotton Dt subgenomic BAM gene mapping (D) Upland cotton At subgenomic BAM gene mapping, (E) Upland cotton Dt subgenomic BAM gene mapping.
Figure 5
Figure 5
Collinearity analysis of BAM gene family. (A) BAM gene family analysis in upland cotton; (B) Collinearity analysis among Arabidopsis thaliana, upland cotton, and Sea Island cotton (collinear blocks of other plant genomes in the gray background). In contrast, the red line indicates the gene pairs of the BAM gene.
Figure 6
Figure 6
Transcriptional expression analysis of BAM gene family in ovule and fiber tissues of upland cotton.
Figure 7
Figure 7
Transcriptional expression analysis of extreme materials with different fibers at day 15 and day 20 (T1_H: 15 days Xinluzhong 60 fiber; T2_H: 20 days Xinluzhong 60 fiber; T1_L: 15 days Xinhai 20 fiber; T2_L: 20 days Xinhai 20 fiber).
Figure 8
Figure 8
qRT-PCR analysis of GhBAM7 gene from four extreme materials at 20 days (20 d) of fiber development (BS2, BS18, BS34 and BS38: extreme materials for hybrid progeny). ** are significantly different at the 0.05 level of significance.
Figure 9
Figure 9
Subcellular localization analysis of GhBAM7.
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