Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought
The NAC (NAM, ATAF1/2 and CUC2) is a large gene family of plant-specific transcription factors that play a pivotal role in various physiological processes and abiotic stresses. Due to the lack of genome-wide characterization, intraspecific and interspecific synteny, and drought-responsive expression...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-12-01
|
| Series: | International Journal of Molecular Sciences |
| Subjects: | |
| Online Access: | https://www.mdpi.com/1422-0067/24/1/253 |
| _version_ | 1797625670800506880 |
|---|---|
| author | Lu Meng Siyuan Chen Dawei Li Minren Huang Sheng Zhu |
| author_facet | Lu Meng Siyuan Chen Dawei Li Minren Huang Sheng Zhu |
| author_sort | Lu Meng |
| collection | DOAJ |
| description | The NAC (NAM, ATAF1/2 and CUC2) is a large gene family of plant-specific transcription factors that play a pivotal role in various physiological processes and abiotic stresses. Due to the lack of genome-wide characterization, intraspecific and interspecific synteny, and drought-responsive expression pattern of <i>NAC</i> genes in poplar, the functional characterization of drought-related <i>NAC</i> genes have been scarcely reported in <i>Populus</i> species. Here, we identified a total of 170 <i>NAC</i> domain-containing genes in the <i>P. trichocarpa</i> genome, 169 of which were unevenly distributed on its nineteen chromosomes. These <i>NAC</i> genes were phylogenetically divided into twenty subgroups, some of which exhibited a similar pattern of exon–intron architecture. The synteny and Ka/Ks analysis indicated that the expansion of <i>NAC</i> genes in poplar was mainly due to gene duplication events occurring before and after the divergence of <i>Populus</i> and <i>Salix</i>. Ten <i>PdNAC</i> (<i>P. deltoids × P. euramericana</i> cv.’Nanlin895’) genes were randomly selected and cloned. Their drought-responsive expression profiles showed a tissue-specific pattern. The transcription factor PdNAC013 was verified to be localized in the nucleus. Our research results provide genomic information for the expansion of <i>NAC</i> genes in the poplar genome, and for further characterizing putative poplar <i>NAC</i> genes associated with water-deficit. |
| first_indexed | 2024-03-11T09:59:35Z |
| format | Article |
| id | doaj.art-1fdcef8fe812482cb288b734ca29319d |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-11T09:59:35Z |
| publishDate | 2022-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-1fdcef8fe812482cb288b734ca29319d2023-11-16T15:30:44ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-12-0124125310.3390/ijms24010253Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under DroughtLu Meng0Siyuan Chen1Dawei Li2Minren Huang3Sheng Zhu4College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, ChinaCollege of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, ChinaCollege of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, ChinaKey Laboratory of Forest Genetics and Biotechnology, Ministry of Education of China, Co-Innovation Center for the Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaCollege of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, ChinaThe NAC (NAM, ATAF1/2 and CUC2) is a large gene family of plant-specific transcription factors that play a pivotal role in various physiological processes and abiotic stresses. Due to the lack of genome-wide characterization, intraspecific and interspecific synteny, and drought-responsive expression pattern of <i>NAC</i> genes in poplar, the functional characterization of drought-related <i>NAC</i> genes have been scarcely reported in <i>Populus</i> species. Here, we identified a total of 170 <i>NAC</i> domain-containing genes in the <i>P. trichocarpa</i> genome, 169 of which were unevenly distributed on its nineteen chromosomes. These <i>NAC</i> genes were phylogenetically divided into twenty subgroups, some of which exhibited a similar pattern of exon–intron architecture. The synteny and Ka/Ks analysis indicated that the expansion of <i>NAC</i> genes in poplar was mainly due to gene duplication events occurring before and after the divergence of <i>Populus</i> and <i>Salix</i>. Ten <i>PdNAC</i> (<i>P. deltoids × P. euramericana</i> cv.’Nanlin895’) genes were randomly selected and cloned. Their drought-responsive expression profiles showed a tissue-specific pattern. The transcription factor PdNAC013 was verified to be localized in the nucleus. Our research results provide genomic information for the expansion of <i>NAC</i> genes in the poplar genome, and for further characterizing putative poplar <i>NAC</i> genes associated with water-deficit.https://www.mdpi.com/1422-0067/24/1/253<i>Populus</i><i>NAC</i> genesdrought-responsivegene duplication events |
| spellingShingle | Lu Meng Siyuan Chen Dawei Li Minren Huang Sheng Zhu Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought International Journal of Molecular Sciences <i>Populus</i> <i>NAC</i> genes drought-responsive gene duplication events |
| title | Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought |
| title_full | Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought |
| title_fullStr | Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought |
| title_full_unstemmed | Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought |
| title_short | Genome-Wide Characterization and Evolutionary Expansion of Poplar NAC Transcription Factors and Their Tissue-Specific Expression Profiles under Drought |
| title_sort | genome wide characterization and evolutionary expansion of poplar nac transcription factors and their tissue specific expression profiles under drought |
| topic | <i>Populus</i> <i>NAC</i> genes drought-responsive gene duplication events |
| url | https://www.mdpi.com/1422-0067/24/1/253 |
| work_keys_str_mv | AT lumeng genomewidecharacterizationandevolutionaryexpansionofpoplarnactranscriptionfactorsandtheirtissuespecificexpressionprofilesunderdrought AT siyuanchen genomewidecharacterizationandevolutionaryexpansionofpoplarnactranscriptionfactorsandtheirtissuespecificexpressionprofilesunderdrought AT daweili genomewidecharacterizationandevolutionaryexpansionofpoplarnactranscriptionfactorsandtheirtissuespecificexpressionprofilesunderdrought AT minrenhuang genomewidecharacterizationandevolutionaryexpansionofpoplarnactranscriptionfactorsandtheirtissuespecificexpressionprofilesunderdrought AT shengzhu genomewidecharacterizationandevolutionaryexpansionofpoplarnactranscriptionfactorsandtheirtissuespecificexpressionprofilesunderdrought |