Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant
The NAC (<i>NAM</i>, <i>ATAF1/2</i>, and <i>CUC2</i>) gene family, one of the largest transcription factor families in plants, acts as positive or negative regulators in plant response and adaption to various environmental stresses, including cold stress. Multiple...
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2022-11-01
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| author | Man-Man Sun Xiu Liu Xiao-Juan Huang Jing-Jun Yang Pei-Ting Qin Hao Zhou Ming-Guo Jiang Hong-Ze Liao |
| author_facet | Man-Man Sun Xiu Liu Xiao-Juan Huang Jing-Jun Yang Pei-Ting Qin Hao Zhou Ming-Guo Jiang Hong-Ze Liao |
| author_sort | Man-Man Sun |
| collection | DOAJ |
| description | The NAC (<i>NAM</i>, <i>ATAF1/2</i>, and <i>CUC2</i>) gene family, one of the largest transcription factor families in plants, acts as positive or negative regulators in plant response and adaption to various environmental stresses, including cold stress. Multiple reports on the functional characterization of NAC genes in <i>Arabidopsis thaliana</i> and other plants are available. However, the function of the NAC genes in the typical woody mangrove (<i>Kandelia obovata</i>) remains poorly understood. Here, a comprehensive analysis of NAC genes in K. obovata was performed with a pluri-disciplinary approach including bioinformatic and molecular analyses. We retrieved a contracted NAC family with 68 genes from the <i>K. obovata</i> genome, which were unevenly distributed in the chromosomes and classified into ten classes. These <i>Ko</i>NAC genes were differentially and preferentially expressed in different organs, among which, twelve up-regulated and one down-regulated <i>Ko</i>NAC genes were identified. Several stress-related cis-regulatory elements, such as LTR (low-temperature response), STRE (stress response element), ABRE (abscisic acid response element), and WUN (wound-responsive element), were identified in the promoter regions of these 13 <i>Ko</i>NAC genes. The expression patterns of five selected <i>Ko</i>NAC genes (<i>Ko</i>NAC6, <i>Ko</i>NAC15, <i>Ko</i>NAC20, <i>Ko</i>NAC38, and <i>Ko</i>NAC51) were confirmed by qRT-PCR under cold treatment. These results strongly implied the putative important roles of <i>Ko</i>NAC genes in response to chilling and other stresses. Collectively, our findings provide valuable information for further investigations on the function of <i>Ko</i>NAC genes. |
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| spelling | doaj.art-e75fdf667fc340469462387f4bc96c0e2023-11-24T08:01:02ZengMDPI AGCurrent Issues in Molecular Biology1467-30371467-30452022-11-0144115622563710.3390/cimb44110381Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove PlantMan-Man Sun0Xiu Liu1Xiao-Juan Huang2Jing-Jun Yang3Pei-Ting Qin4Hao Zhou5Ming-Guo Jiang6Hong-Ze Liao7Guangxi Key Laboratory of Polysaccharide Materials and Modification, School of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaGuangxi Key Laboratory of Special Non-Wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, 23 Yongwu Road, Nanning 530002, ChinaGuangxi Key Laboratory of Polysaccharide Materials and Modification, School of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaGuangxi Key Laboratory of Special Non-Wood Forest Cultivation and Utilization, Guangxi Forestry Research Institute, 23 Yongwu Road, Nanning 530002, ChinaGuangxi Key Laboratory of Polysaccharide Materials and Modification, School of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaGuangxi Key Laboratory of Polysaccharide Materials and Modification, School of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaGuangxi Key Laboratory of Polysaccharide Materials and Modification, School of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaGuangxi Key Laboratory of Polysaccharide Materials and Modification, School of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaThe NAC (<i>NAM</i>, <i>ATAF1/2</i>, and <i>CUC2</i>) gene family, one of the largest transcription factor families in plants, acts as positive or negative regulators in plant response and adaption to various environmental stresses, including cold stress. Multiple reports on the functional characterization of NAC genes in <i>Arabidopsis thaliana</i> and other plants are available. However, the function of the NAC genes in the typical woody mangrove (<i>Kandelia obovata</i>) remains poorly understood. Here, a comprehensive analysis of NAC genes in K. obovata was performed with a pluri-disciplinary approach including bioinformatic and molecular analyses. We retrieved a contracted NAC family with 68 genes from the <i>K. obovata</i> genome, which were unevenly distributed in the chromosomes and classified into ten classes. These <i>Ko</i>NAC genes were differentially and preferentially expressed in different organs, among which, twelve up-regulated and one down-regulated <i>Ko</i>NAC genes were identified. Several stress-related cis-regulatory elements, such as LTR (low-temperature response), STRE (stress response element), ABRE (abscisic acid response element), and WUN (wound-responsive element), were identified in the promoter regions of these 13 <i>Ko</i>NAC genes. The expression patterns of five selected <i>Ko</i>NAC genes (<i>Ko</i>NAC6, <i>Ko</i>NAC15, <i>Ko</i>NAC20, <i>Ko</i>NAC38, and <i>Ko</i>NAC51) were confirmed by qRT-PCR under cold treatment. These results strongly implied the putative important roles of <i>Ko</i>NAC genes in response to chilling and other stresses. Collectively, our findings provide valuable information for further investigations on the function of <i>Ko</i>NAC genes.https://www.mdpi.com/1467-3045/44/11/381abiotic stresscold stress<i>Kandelia obovata</i>mangroveNAC transcription factor |
| spellingShingle | Man-Man Sun Xiu Liu Xiao-Juan Huang Jing-Jun Yang Pei-Ting Qin Hao Zhou Ming-Guo Jiang Hong-Ze Liao Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant Current Issues in Molecular Biology abiotic stress cold stress <i>Kandelia obovata</i> mangrove NAC transcription factor |
| title | Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant |
| title_full | Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant |
| title_fullStr | Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant |
| title_full_unstemmed | Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant |
| title_short | Genome-Wide Identification and Expression Analysis of the NAC Gene Family in <i>Kandelia obovata</i>, a Typical Mangrove Plant |
| title_sort | genome wide identification and expression analysis of the nac gene family in i kandelia obovata i a typical mangrove plant |
| topic | abiotic stress cold stress <i>Kandelia obovata</i> mangrove NAC transcription factor |
| url | https://www.mdpi.com/1467-3045/44/11/381 |
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