Analysis of β-amylase gene family in soybean (Glycine max)

Bằng, Cao Phi; Huyền, Trần Thị Thanh

doi:10.15625/0866-7160/v37n1se.6106

Cited by 2 publications

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“…The BAM genes of three Brassica species could be categorized into four subfamilies (Figures 1 and 2) based on amino acid sequence alignments, which was in accordance with that of Arabidopsis, pear, banana (Musa balbisiana Colla), soybean and Triticeae Dumort. [19,[59][60][61][62], suggesting that BAM genes were evolutionarily conserved among different plants. However, based on the conservation of intron positions in the BAM family in Arabidopsis, the recent studies have divided BAM genes into two subfamilies, which help to trace the origin of each Arabidopsis BAM gene back to the early land plant ancestors [23,43].…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Analysis of the β-Amylase Gene Family in Brassica L. Crops and Expression Profiles of BnaBAM Genes in Response to Abiotic Stresses

Luo¹,

Jia²,

Cheng³

et al. 2020

Agronomy

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The β-amylase (BAM) gene family, known for their property of catalytic ability to hydrolyze starch to maltose units, has been recognized to play critical roles in metabolism and gene regulation. To date, BAM genes have not been characterized in oil crops. In this study, the genome-wide survey revealed the identification of 30 BnaBAM genes in Brassica napus L. (B. napus L.), 11 BraBAM genes in Brassica rapa L. (B. rapa L.), and 20 BoBAM genes in Brassica oleracea L. (B. oleracea L.), which were divided into four subfamilies according to the sequence similarity and phylogenetic relationships. All the BAM genes identified in the allotetraploid genome of B. napus, as well as two parental-related species (B. rapa and B. oleracea), were analyzed for the gene structures, chromosomal distribution and collinearity. The sequence alignment of the core glucosyl-hydrolase domains was further applied, demonstrating six candidate β-amylase (BnaBAM1, BnaBAM3.1-3.4 and BnaBAM5) and 25 β-amylase-like proteins. The current results also showed that 30 BnaBAMs, 11 BraBAMs and 17 BoBAMs exhibited uneven distribution on chromosomes of Brassica L. crops. The similar structural compositions of BAM genes in the same subfamily suggested that they were relatively conserved. Abiotic stresses pose one of the significant constraints to plant growth and productivity worldwide. Thus, the responsiveness of BnaBAM genes under abiotic stresses was analyzed in B. napus. The expression patterns revealed a stress-responsive behaviour of all members, of which BnaBAM3s were more prominent. These differential expression patterns suggested an intricate regulation of BnaBAMs elicited by environmental stimuli. Altogether, the present study provides first insights into the BAM gene family of Brassica crops, which lays the foundation for investigating the roles of stress-responsive BnaBAM candidates in B. napus.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide Analysis of the β-Amylase Gene Family in Brassica L. Crops and Expression Profiles of BnaBAM Genes in Response to Abiotic Stresses

Luo¹,

Jia²,

Cheng³

et al. 2020

Agronomy

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show abstract

“…Chúng tôi sử dụng các protein LEA5 và SMP của cây Arabidopsis [15] làm khuôn dò để tìm kiếm các gen tương đồng trong hệ gen của cây đậu tương nhờ chương trình TBLASTN theo phương pháp nghiên cứu đã được sử dụng bởi Cao Phi Bằng và Trần Thị Thanh Huyền (2015) [7]. Sau đó chúng tôi dùng Pfam (cơ sở dữ liệu các họ protein [10] để xác nhận sự hiện diện của các vùng bảo thủ trong trình tự protein.…”

Section: Xác địNh Các Gen Thuộc Họ Lea5 Và Smp ở Cây đậU Tươngunclassified

“…Cấu trúc exon/intron được xây dựng nhờ GSDS 2.0 [12]. Các phương pháp nghiên cứu này được miêu tả trong công trình được thực hiện bởi Cao Phi Bằng và Trần Thị Thanh Huyền (2015) [7]. Các motif bảo thủ được phát hiện nhờ MEME (Multiple EM for Motif Elicitation) [3].…”

Section: Phân Tích Tin Sinh Học Về Các Họ Gen đượC Nghiên Cứuunclassified

Characterisation and expression of two late embryogenesis abundant (lea) protein families in soybean (Glycine max)

Bằng¹

2015

V J Bio

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Late Embryogenesis Abundant proteins (LEA) are abundantly present in late embryogenesis and play an important role in the development of embryos. Many LEA subfamilies were reported to have a major role in abiotic stress tolerance in plants. According to current classification, LEA5 family and SMP family belong to the LEA superfamily. In this study, we identified five coding genes for each of these families in the genome of the soybean (Glycine max). In the case of soybean LEA5 genes, there is generally only one intron per gene, except for GmLEA5-3. This gene was not annotated in the soybean genome and had no intron. All of the soybean LEA5 predicted proteins were small in size, weakly acidic but highly hydrophilic. The SMP genes have one or more introns interspersed within the coding region. Their predicted proteins were weakly acidic and phydrophilic. All of the soybean LEA5 and SMP genes did not express in vegetative tissues while most of them were tissue-specifically expressed in seeds. The expression level increased in accordance with seed development, and arrived at the maximum level 42 days after flowering. The tissue-specific expression suggested that these genes played an important role in the development of soybean seeds. In brief, for the fist time, the characters and the expression of the soybean LEA5 and SMP genes were reported, paving the way for future gene function research about these two LEA families in Leguminosae plants.

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Analysis of β-amylase gene family in soybean (Glycine max)

Cited by 2 publications

References 0 publications

Genome-Wide Analysis of the β-Amylase Gene Family in Brassica L. Crops and Expression Profiles of BnaBAM Genes in Response to Abiotic Stresses

Genome-Wide Analysis of the β-Amylase Gene Family in Brassica L. Crops and Expression Profiles of BnaBAM Genes in Response to Abiotic Stresses

Characterisation and expression of two late embryogenesis abundant (lea) protein families in soybean (Glycine max)

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