Genome-Wide Analysis of the Heat Shock Transcription Factor Gene Family in Brassica juncea : Structure, Evolution, and Expression Profiles
Heat shock transcription factor (HSF) is ubiquitous in the whole biological world and plays an important role in regulating growth and development and responses to environment stress. In this study, a total of 60 HSF transcription factors in Brassica juncea genome were identified and analyzed. Phylo...
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| Veröffentlicht in: | DNA and cell biology 2020-11, Vol.39 (11), p.1990-2004 |
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| container_end_page | 2004 |
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| container_issue | 11 |
| container_start_page | 1990 |
| container_title | DNA and cell biology |
| container_volume | 39 |
| creator | Li, Mengyao Xie, Fangjie Li, Yanwen Gong, Li Luo, Ya Zhang, Yong Chen, Qing Wang, Yan Lin, Yuanxiu Zhang, Yunting Wang, Xiaorong Tang, Haoru |
| description | Heat shock transcription factor (HSF) is ubiquitous in the whole biological world and plays an important role in regulating growth and development and responses to environment stress. In this study, a total of 60 HSF transcription factors in Brassica juncea genome were identified and analyzed. Phylogenetic analysis showed that HSF genes were divided into three groups namely: A, B, and C, of which group A was further divided into nine subgroups (A1–A9). The analysis of gene structure and conserved motifs showed that some homologous genes are highly conserved. There was strong conservative microcollinearity among Brassica rapa, B. juncea, and Brassica oleracea, which provides a basis for studying the replication of gene families. Moreover, the results revealed that the promoter regions of BjuHSF genes were rich in cis-elements related to growth and development, hormone signal, and stress response. The prediction of protein interaction results showed that HSFs could interact with multiple transcription factors and proteins in the genome, while functional annotation revealed that BjuHSF genes were involved in many biological processes. The expression patterns of BjuHSF genes were analyzed by qPCR, and the results showed that these genes were closely linked to stress response, hormones, and development process. These results are a foundation for further analysis of the regulation mechanism of HSF gene family. |
| doi_str_mv | 10.1089/dna.2020.5922 |
| format | Article |
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In this study, a total of 60 HSF transcription factors in Brassica juncea genome were identified and analyzed. Phylogenetic analysis showed that HSF genes were divided into three groups namely: A, B, and C, of which group A was further divided into nine subgroups (A1–A9). The analysis of gene structure and conserved motifs showed that some homologous genes are highly conserved. There was strong conservative microcollinearity among Brassica rapa, B. juncea, and Brassica oleracea, which provides a basis for studying the replication of gene families. Moreover, the results revealed that the promoter regions of BjuHSF genes were rich in cis-elements related to growth and development, hormone signal, and stress response. The prediction of protein interaction results showed that HSFs could interact with multiple transcription factors and proteins in the genome, while functional annotation revealed that BjuHSF genes were involved in many biological processes. The expression patterns of BjuHSF genes were analyzed by qPCR, and the results showed that these genes were closely linked to stress response, hormones, and development process. These results are a foundation for further analysis of the regulation mechanism of HSF gene family.</description><identifier>ISSN: 1044-5498</identifier><identifier>EISSN: 1557-7430</identifier><identifier>DOI: 10.1089/dna.2020.5922</identifier><language>eng</language><publisher>New Rochelle: Mary Ann Liebert, Inc</publisher><subject>Annotations ; Biological activity ; Brassica ; Brassica juncea ; Gene expression ; Gene families ; Genes ; Genomes ; Heat shock ; Heat shock factors ; Homology ; Hormones ; Phylogeny ; Proteins ; Subgroups ; Transcription factors</subject><ispartof>DNA and cell biology, 2020-11, Vol.39 (11), p.1990-2004</ispartof><rights>Copyright Mary Ann Liebert, Inc. Nov 2020</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c2522-9a8425fa7f080e5d4bced824ee080d776c478c6ad9b234e480b287337224150f3</citedby><cites>FETCH-LOGICAL-c2522-9a8425fa7f080e5d4bced824ee080d776c478c6ad9b234e480b287337224150f3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids></links><search><creatorcontrib>Li, Mengyao</creatorcontrib><creatorcontrib>Xie, Fangjie</creatorcontrib><creatorcontrib>Li, Yanwen</creatorcontrib><creatorcontrib>Gong, Li</creatorcontrib><creatorcontrib>Luo, Ya</creatorcontrib><creatorcontrib>Zhang, Yong</creatorcontrib><creatorcontrib>Chen, Qing</creatorcontrib><creatorcontrib>Wang, Yan</creatorcontrib><creatorcontrib>Lin, Yuanxiu</creatorcontrib><creatorcontrib>Zhang, Yunting</creatorcontrib><creatorcontrib>Wang, Xiaorong</creatorcontrib><creatorcontrib>Tang, Haoru</creatorcontrib><title>Genome-Wide Analysis of the Heat Shock Transcription Factor Gene Family in Brassica juncea : Structure, Evolution, and Expression Profiles</title><title>DNA and cell biology</title><description>Heat shock transcription factor (HSF) is ubiquitous in the whole biological world and plays an important role in regulating growth and development and responses to environment stress. In this study, a total of 60 HSF transcription factors in Brassica juncea genome were identified and analyzed. Phylogenetic analysis showed that HSF genes were divided into three groups namely: A, B, and C, of which group A was further divided into nine subgroups (A1–A9). The analysis of gene structure and conserved motifs showed that some homologous genes are highly conserved. There was strong conservative microcollinearity among Brassica rapa, B. juncea, and Brassica oleracea, which provides a basis for studying the replication of gene families. Moreover, the results revealed that the promoter regions of BjuHSF genes were rich in cis-elements related to growth and development, hormone signal, and stress response. The prediction of protein interaction results showed that HSFs could interact with multiple transcription factors and proteins in the genome, while functional annotation revealed that BjuHSF genes were involved in many biological processes. The expression patterns of BjuHSF genes were analyzed by qPCR, and the results showed that these genes were closely linked to stress response, hormones, and development process. These results are a foundation for further analysis of the regulation mechanism of HSF gene family.</description><subject>Annotations</subject><subject>Biological activity</subject><subject>Brassica</subject><subject>Brassica juncea</subject><subject>Gene expression</subject><subject>Gene families</subject><subject>Genes</subject><subject>Genomes</subject><subject>Heat shock</subject><subject>Heat shock factors</subject><subject>Homology</subject><subject>Hormones</subject><subject>Phylogeny</subject><subject>Proteins</subject><subject>Subgroups</subject><subject>Transcription factors</subject><issn>1044-5498</issn><issn>1557-7430</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><recordid>eNpdkT1PwzAQhiMEEqUwsltiYWiK4486YStVP5AqgdQixsh1LqpLYgc7QfQv8KtxVCame0963hvuiaLbBI8TnGYPhZFjggke84yQs2iQcC5iwSg-DxkzFnOWpZfRlfcHjDEnCR5EP0swtob4XReApkZWR689siVq94BWIFu02Vv1gbZOGq-cblptDVpI1VqHQhdCrnV1RNqgJye910qiQ2cUSPSINq3rVNs5GKH5l626vjxC0hRo_t04CHQ49upsqSvw19FFKSsPN39zGL0t5tvZKl6_LJ9n03WsCCckzmTKCC-lKHGKgRdsp6BICQMIeyHERDGRqokssh2hDFiKdyQVlApCWMJxSYfR_elu4-xnB77Na-0VVJU0YDufE8YYFYImIqB3_9CD7Vz4Uk9xkQmaJTxQ8YlSznrvoMwbp2vpjnmC895MHszkvZm8N0N_AQ75gOQ</recordid><startdate>20201101</startdate><enddate>20201101</enddate><creator>Li, Mengyao</creator><creator>Xie, Fangjie</creator><creator>Li, Yanwen</creator><creator>Gong, Li</creator><creator>Luo, Ya</creator><creator>Zhang, Yong</creator><creator>Chen, Qing</creator><creator>Wang, Yan</creator><creator>Lin, Yuanxiu</creator><creator>Zhang, Yunting</creator><creator>Wang, Xiaorong</creator><creator>Tang, Haoru</creator><general>Mary Ann Liebert, Inc</general><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7QP</scope><scope>7QR</scope><scope>7TK</scope><scope>7TM</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20201101</creationdate><title>Genome-Wide Analysis of the Heat Shock Transcription Factor Gene Family in Brassica juncea : Structure, Evolution, and Expression Profiles</title><author>Li, Mengyao ; Xie, Fangjie ; Li, Yanwen ; Gong, Li ; Luo, Ya ; Zhang, Yong ; Chen, Qing ; Wang, Yan ; Lin, Yuanxiu ; Zhang, Yunting ; Wang, Xiaorong ; Tang, Haoru</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c2522-9a8425fa7f080e5d4bced824ee080d776c478c6ad9b234e480b287337224150f3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Annotations</topic><topic>Biological activity</topic><topic>Brassica</topic><topic>Brassica juncea</topic><topic>Gene expression</topic><topic>Gene families</topic><topic>Genes</topic><topic>Genomes</topic><topic>Heat shock</topic><topic>Heat shock factors</topic><topic>Homology</topic><topic>Hormones</topic><topic>Phylogeny</topic><topic>Proteins</topic><topic>Subgroups</topic><topic>Transcription factors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Mengyao</creatorcontrib><creatorcontrib>Xie, Fangjie</creatorcontrib><creatorcontrib>Li, Yanwen</creatorcontrib><creatorcontrib>Gong, Li</creatorcontrib><creatorcontrib>Luo, Ya</creatorcontrib><creatorcontrib>Zhang, Yong</creatorcontrib><creatorcontrib>Chen, Qing</creatorcontrib><creatorcontrib>Wang, Yan</creatorcontrib><creatorcontrib>Lin, Yuanxiu</creatorcontrib><creatorcontrib>Zhang, Yunting</creatorcontrib><creatorcontrib>Wang, Xiaorong</creatorcontrib><creatorcontrib>Tang, Haoru</creatorcontrib><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>DNA and cell biology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Mengyao</au><au>Xie, Fangjie</au><au>Li, Yanwen</au><au>Gong, Li</au><au>Luo, Ya</au><au>Zhang, Yong</au><au>Chen, Qing</au><au>Wang, Yan</au><au>Lin, Yuanxiu</au><au>Zhang, Yunting</au><au>Wang, Xiaorong</au><au>Tang, Haoru</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-Wide Analysis of the Heat Shock Transcription Factor Gene Family in Brassica juncea : Structure, Evolution, and Expression Profiles</atitle><jtitle>DNA and cell biology</jtitle><date>2020-11-01</date><risdate>2020</risdate><volume>39</volume><issue>11</issue><spage>1990</spage><epage>2004</epage><pages>1990-2004</pages><issn>1044-5498</issn><eissn>1557-7430</eissn><abstract>Heat shock transcription factor (HSF) is ubiquitous in the whole biological world and plays an important role in regulating growth and development and responses to environment stress. In this study, a total of 60 HSF transcription factors in Brassica juncea genome were identified and analyzed. Phylogenetic analysis showed that HSF genes were divided into three groups namely: A, B, and C, of which group A was further divided into nine subgroups (A1–A9). The analysis of gene structure and conserved motifs showed that some homologous genes are highly conserved. There was strong conservative microcollinearity among Brassica rapa, B. juncea, and Brassica oleracea, which provides a basis for studying the replication of gene families. Moreover, the results revealed that the promoter regions of BjuHSF genes were rich in cis-elements related to growth and development, hormone signal, and stress response. The prediction of protein interaction results showed that HSFs could interact with multiple transcription factors and proteins in the genome, while functional annotation revealed that BjuHSF genes were involved in many biological processes. The expression patterns of BjuHSF genes were analyzed by qPCR, and the results showed that these genes were closely linked to stress response, hormones, and development process. These results are a foundation for further analysis of the regulation mechanism of HSF gene family.</abstract><cop>New Rochelle</cop><pub>Mary Ann Liebert, Inc</pub><doi>10.1089/dna.2020.5922</doi><tpages>15</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Annotations Biological activity Brassica Brassica juncea Gene expression Gene families Genes Genomes Heat shock Heat shock factors Homology Hormones Phylogeny Proteins Subgroups Transcription factors |
| title | Genome-Wide Analysis of the Heat Shock Transcription Factor Gene Family in Brassica juncea : Structure, Evolution, and Expression Profiles |
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