Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L.
Background Cotton is the primary source of renewable natural fiber in the textile industry and an important biodiesel crop. Growth regulating factors (GRFs) are involved in regulating plant growth and development. Methods Using genome-wide analysis, we identified 35 GRF genes in Gossypium hirsutum....
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PeerJ Inc.
2022-05-01
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| author | Kun Liu Nosheen Kabir Zhenzhen Wei Zhuojing Sun Jian Wang Jing Qi Miaoyang Liu Ji Liu Kehai Zhou |
| author_facet | Kun Liu Nosheen Kabir Zhenzhen Wei Zhuojing Sun Jian Wang Jing Qi Miaoyang Liu Ji Liu Kehai Zhou |
| author_sort | Kun Liu |
| collection | DOAJ |
| description | Background Cotton is the primary source of renewable natural fiber in the textile industry and an important biodiesel crop. Growth regulating factors (GRFs) are involved in regulating plant growth and development. Methods Using genome-wide analysis, we identified 35 GRF genes in Gossypium hirsutum. Results Chromosomal location information revealed an uneven distribution of GhGRF genes, with maximum genes on chromosomes A02, A05, and A12 from the At sub-genome and their corresponding D05 and D12 from the Dt sub-genome. In the phylogenetic tree, 35 GRF genes were divided into five groups, including G1, G2, G3, G4, and G5. The majority of GhGRF genes have two to three introns and three to four exons, and their deduced proteins contained conserved QLQ and WRC domains in the N-terminal end of GRFs in Arabidopsis and rice. Sequence logos revealed that GRF genes were highly conserved during the long-term evolutionary process. The CDS of the GhGRF gene can complement MiRNA396a. Moreover, most GhGRF genes transcripts developed high levels of ovules and fibers. Analyses of promoter cis-elements and expression patterns indicated that GhGRF genes play an essential role in regulating plant growth and development by coordinating the internal and external environment and multiple hormone signaling pathways. Our analysis indicated that GhGRFs are ideal target genes with significant potential for improving the molecular structure of cotton. |
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| language | English |
| last_indexed | 2024-03-09T06:25:39Z |
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| spelling | doaj.art-3226619fe8d74a88a2ceee79050a3c802023-12-03T11:20:27ZengPeerJ Inc.PeerJ2167-83592022-05-0110e1337210.7717/peerj.13372Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L.Kun Liu0Nosheen Kabir1Zhenzhen Wei2Zhuojing Sun3Jian Wang4Jing Qi5Miaoyang Liu6Ji Liu7Kehai Zhou8Henan Key Laboratory of Crop Molecular Breeding and Bioreactor, Key Laboratory of Plant Genetics and Molecular Breeding, Zhoukou Normal University, Zhoukou, Henan, ChinaState Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, ChinaState Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, ChinaDevelopment Center for Science and Technology, Ministry of Agriculture and Rural Affairs, Beijing, ChinaHenan Key Laboratory of Crop Molecular Breeding and Bioreactor, Key Laboratory of Plant Genetics and Molecular Breeding, Zhoukou Normal University, Zhoukou, Henan, ChinaHenan Key Laboratory of Crop Molecular Breeding and Bioreactor, Key Laboratory of Plant Genetics and Molecular Breeding, Zhoukou Normal University, Zhoukou, Henan, ChinaHenan Key Laboratory of Crop Molecular Breeding and Bioreactor, Key Laboratory of Plant Genetics and Molecular Breeding, Zhoukou Normal University, Zhoukou, Henan, ChinaState Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, ChinaState Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, ChinaBackground Cotton is the primary source of renewable natural fiber in the textile industry and an important biodiesel crop. Growth regulating factors (GRFs) are involved in regulating plant growth and development. Methods Using genome-wide analysis, we identified 35 GRF genes in Gossypium hirsutum. Results Chromosomal location information revealed an uneven distribution of GhGRF genes, with maximum genes on chromosomes A02, A05, and A12 from the At sub-genome and their corresponding D05 and D12 from the Dt sub-genome. In the phylogenetic tree, 35 GRF genes were divided into five groups, including G1, G2, G3, G4, and G5. The majority of GhGRF genes have two to three introns and three to four exons, and their deduced proteins contained conserved QLQ and WRC domains in the N-terminal end of GRFs in Arabidopsis and rice. Sequence logos revealed that GRF genes were highly conserved during the long-term evolutionary process. The CDS of the GhGRF gene can complement MiRNA396a. Moreover, most GhGRF genes transcripts developed high levels of ovules and fibers. Analyses of promoter cis-elements and expression patterns indicated that GhGRF genes play an essential role in regulating plant growth and development by coordinating the internal and external environment and multiple hormone signaling pathways. Our analysis indicated that GhGRFs are ideal target genes with significant potential for improving the molecular structure of cotton.https://peerj.com/articles/13372.pdfGossypium hirsutumGrowth regulating factorMicroRNA396Gene editingMolecular improvementCollinearity |
| spellingShingle | Kun Liu Nosheen Kabir Zhenzhen Wei Zhuojing Sun Jian Wang Jing Qi Miaoyang Liu Ji Liu Kehai Zhou Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L. PeerJ Gossypium hirsutum Growth regulating factor MicroRNA396 Gene editing Molecular improvement Collinearity |
| title | Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L. |
| title_full | Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L. |
| title_fullStr | Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L. |
| title_full_unstemmed | Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L. |
| title_short | Genome-wide identification and expression profile of GhGRF gene family in Gossypium hirsutum L. |
| title_sort | genome wide identification and expression profile of ghgrf gene family in gossypium hirsutum l |
| topic | Gossypium hirsutum Growth regulating factor MicroRNA396 Gene editing Molecular improvement Collinearity |
| url | https://peerj.com/articles/13372.pdf |
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