Genome-Wide Identification and Evolution of HECT Genes in Soybean

Proteins containing domains homologous to the E6-associated protein (E6-AP) carboxyl terminus (HECT) are an important class of E3 ubiquitin ligases involved in the ubiquitin proteasome pathway. HECT-type E3s play crucial roles in plant growth and development. However, current understanding of plant...

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Autores principales: Meng, Xianwen, Wang, Chen, Rahman, Siddiq Ur, Wang, Yaxu, Wang, Ailan, Tao, Shiheng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4425094/
https://www.ncbi.nlm.nih.gov/pubmed/25894222
http://dx.doi.org/10.3390/ijms16048517
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author Meng, Xianwen
Wang, Chen
Rahman, Siddiq Ur
Wang, Yaxu
Wang, Ailan
Tao, Shiheng
author_facet Meng, Xianwen
Wang, Chen
Rahman, Siddiq Ur
Wang, Yaxu
Wang, Ailan
Tao, Shiheng
author_sort Meng, Xianwen
collection PubMed
description Proteins containing domains homologous to the E6-associated protein (E6-AP) carboxyl terminus (HECT) are an important class of E3 ubiquitin ligases involved in the ubiquitin proteasome pathway. HECT-type E3s play crucial roles in plant growth and development. However, current understanding of plant HECT genes and their evolution is very limited. In this study, we performed a genome-wide analysis of the HECT domain-containing genes in soybean. Using high-quality genome sequences, we identified 19 soybean HECT genes. The predicted HECT genes were distributed unevenly across 15 of 20 chromosomes. Nineteen of these genes were inferred to be segmentally duplicated gene pairs, suggesting that in soybean, segmental duplications have made a significant contribution to the expansion of the HECT gene family. Phylogenetic analysis showed that these HECT genes can be divided into seven groups, among which gene structure and domain architecture was relatively well-conserved. The Ka/Ks ratios show that after the duplication events, duplicated HECT genes underwent purifying selection. Moreover, expression analysis reveals that 15 of the HECT genes in soybean are differentially expressed in 14 tissues, and are often highly expressed in the flowers and roots. In summary, this work provides useful information on which further functional studies of soybean HECT genes can be based.
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spelling pubmed-44250942015-05-20 Genome-Wide Identification and Evolution of HECT Genes in Soybean Meng, Xianwen Wang, Chen Rahman, Siddiq Ur Wang, Yaxu Wang, Ailan Tao, Shiheng Int J Mol Sci Article Proteins containing domains homologous to the E6-associated protein (E6-AP) carboxyl terminus (HECT) are an important class of E3 ubiquitin ligases involved in the ubiquitin proteasome pathway. HECT-type E3s play crucial roles in plant growth and development. However, current understanding of plant HECT genes and their evolution is very limited. In this study, we performed a genome-wide analysis of the HECT domain-containing genes in soybean. Using high-quality genome sequences, we identified 19 soybean HECT genes. The predicted HECT genes were distributed unevenly across 15 of 20 chromosomes. Nineteen of these genes were inferred to be segmentally duplicated gene pairs, suggesting that in soybean, segmental duplications have made a significant contribution to the expansion of the HECT gene family. Phylogenetic analysis showed that these HECT genes can be divided into seven groups, among which gene structure and domain architecture was relatively well-conserved. The Ka/Ks ratios show that after the duplication events, duplicated HECT genes underwent purifying selection. Moreover, expression analysis reveals that 15 of the HECT genes in soybean are differentially expressed in 14 tissues, and are often highly expressed in the flowers and roots. In summary, this work provides useful information on which further functional studies of soybean HECT genes can be based. MDPI 2015-04-16 /pmc/articles/PMC4425094/ /pubmed/25894222 http://dx.doi.org/10.3390/ijms16048517 Text en © 2015 by the authors; licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Meng, Xianwen
Wang, Chen
Rahman, Siddiq Ur
Wang, Yaxu
Wang, Ailan
Tao, Shiheng
Genome-Wide Identification and Evolution of HECT Genes in Soybean
title Genome-Wide Identification and Evolution of HECT Genes in Soybean
title_full Genome-Wide Identification and Evolution of HECT Genes in Soybean
title_fullStr Genome-Wide Identification and Evolution of HECT Genes in Soybean
title_full_unstemmed Genome-Wide Identification and Evolution of HECT Genes in Soybean
title_short Genome-Wide Identification and Evolution of HECT Genes in Soybean
title_sort genome-wide identification and evolution of hect genes in soybean
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4425094/
https://www.ncbi.nlm.nih.gov/pubmed/25894222
http://dx.doi.org/10.3390/ijms16048517
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