Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass
Auxin response factors (ARFs) have been reported to play vital roles during plant growth and development. In order to reveal specific functions related to vegetative organs in grasses, an in-depth study of the ARF gene family was carried out in switchgrass (Panicum virgatum L.), a warm-season C4 per...
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| Format: | Article |
| Language: | English |
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Wiley
2018-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2018/7658910 |
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| author | Jianli Wang Zhenying Wu Zhongbao Shen Zetao Bai Peng Zhong Lichao Ma Duofeng Pan Ruibo Zhang Daoming Li Hailing Zhang Chunxiang Fu Guiqing Han Changhong Guo |
| author_facet | Jianli Wang Zhenying Wu Zhongbao Shen Zetao Bai Peng Zhong Lichao Ma Duofeng Pan Ruibo Zhang Daoming Li Hailing Zhang Chunxiang Fu Guiqing Han Changhong Guo |
| author_sort | Jianli Wang |
| collection | DOAJ |
| description | Auxin response factors (ARFs) have been reported to play vital roles during plant growth and development. In order to reveal specific functions related to vegetative organs in grasses, an in-depth study of the ARF gene family was carried out in switchgrass (Panicum virgatum L.), a warm-season C4 perennial grass that is mostly used as bioenergy and animal feedstock. A total of 47 putative ARF genes (PvARFs) were identified in the switchgrass genome (2n = 4x = 36), 42 of which were anchored to the seven pairs of chromosomes and found to be unevenly distributed. Sixteen PvARFs were predicted to be potential targets of small RNAs (microRNA160 and 167). Phylogenetically speaking, PvARFs were divided into seven distinct subgroups based on the phylogeny, exon/intron arrangement, and conserved motif distribution. Moreover, 15 pairs of PvARFs have different temporal-spatial expression profiles in vegetative organs (2nd, 3rd, and 4th internode and leaves), which implies that different PvARFs have specific functions in switchgrass growth and development. In addition, at least 14 pairs of PvARFs respond to naphthylacetic acid (NAA) treatment, which might be helpful for us to study on auxin response in switchgrass. The comprehensive analysis, described here, will facilitate the future functional analysis of ARF genes in grasses. |
| format | Article |
| id | doaj-art-3a98baf3a86143feb73cc8c9008d110c |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2018-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-3a98baf3a86143feb73cc8c9008d110c2025-08-20T03:55:40ZengWileyInternational Journal of Genomics2314-436X2314-43782018-01-01201810.1155/2018/76589107658910Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in SwitchgrassJianli Wang0Zhenying Wu1Zhongbao Shen2Zetao Bai3Peng Zhong4Lichao Ma5Duofeng Pan6Ruibo Zhang7Daoming Li8Hailing Zhang9Chunxiang Fu10Guiqing Han11Changhong Guo12College of Life Science and Technology of Harbin Normal University, Harbin 150080, ChinaKey Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, ChinaGrass and Science Institute of Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang 150086, ChinaKey Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, ChinaRural Energy Research Institute of Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang 150086, ChinaKey Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, ChinaGrass and Science Institute of Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang 150086, ChinaGrass and Science Institute of Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang 150086, ChinaGrass and Science Institute of Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang 150086, ChinaGrass and Science Institute of Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang 150086, ChinaKey Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, ChinaCollege of Life Science and Technology of Harbin Normal University, Harbin 150080, ChinaCollege of Life Science and Technology of Harbin Normal University, Harbin 150080, ChinaAuxin response factors (ARFs) have been reported to play vital roles during plant growth and development. In order to reveal specific functions related to vegetative organs in grasses, an in-depth study of the ARF gene family was carried out in switchgrass (Panicum virgatum L.), a warm-season C4 perennial grass that is mostly used as bioenergy and animal feedstock. A total of 47 putative ARF genes (PvARFs) were identified in the switchgrass genome (2n = 4x = 36), 42 of which were anchored to the seven pairs of chromosomes and found to be unevenly distributed. Sixteen PvARFs were predicted to be potential targets of small RNAs (microRNA160 and 167). Phylogenetically speaking, PvARFs were divided into seven distinct subgroups based on the phylogeny, exon/intron arrangement, and conserved motif distribution. Moreover, 15 pairs of PvARFs have different temporal-spatial expression profiles in vegetative organs (2nd, 3rd, and 4th internode and leaves), which implies that different PvARFs have specific functions in switchgrass growth and development. In addition, at least 14 pairs of PvARFs respond to naphthylacetic acid (NAA) treatment, which might be helpful for us to study on auxin response in switchgrass. The comprehensive analysis, described here, will facilitate the future functional analysis of ARF genes in grasses.http://dx.doi.org/10.1155/2018/7658910 |
| spellingShingle | Jianli Wang Zhenying Wu Zhongbao Shen Zetao Bai Peng Zhong Lichao Ma Duofeng Pan Ruibo Zhang Daoming Li Hailing Zhang Chunxiang Fu Guiqing Han Changhong Guo Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass International Journal of Genomics |
| title | Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass |
| title_full | Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass |
| title_fullStr | Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass |
| title_full_unstemmed | Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass |
| title_short | Genome-Wide Identification, Phylogeny, and Expression Analysis of ARF Genes Involved in Vegetative Organs Development in Switchgrass |
| title_sort | genome wide identification phylogeny and expression analysis of arf genes involved in vegetative organs development in switchgrass |
| url | http://dx.doi.org/10.1155/2018/7658910 |
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