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Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut
To investigate the potential role of phytochrome (PHY) in peanut growth and its response to environmental fluctuations, eight candidate AhPHY genes were identified via genome-wide analysis of cultivated peanut. These AhPHY polypeptides were determined to possess acidic and hydrophilic physiochemical...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10378891/ https://www.ncbi.nlm.nih.gov/pubmed/37510382 http://dx.doi.org/10.3390/genes14071478 |
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author | Shen, Yue Liu, Yonghui Liang, Man Zhang, Xuyao Chen, Zhide Shen, Yi |
author_facet | Shen, Yue Liu, Yonghui Liang, Man Zhang, Xuyao Chen, Zhide Shen, Yi |
author_sort | Shen, Yue |
collection | PubMed |
description | To investigate the potential role of phytochrome (PHY) in peanut growth and its response to environmental fluctuations, eight candidate AhPHY genes were identified via genome-wide analysis of cultivated peanut. These AhPHY polypeptides were determined to possess acidic and hydrophilic physiochemical properties and exhibit subcellular localization patterns consistent with residence in the nucleus and cytoplasm. Phylogenetic analysis revealed that the AhPHY gene family members were classified into three subgroups homologous to the PHYA/B/E progenitors of Arabidopsis. AhPHY genes within the same clade largely displayed analogous gene structure, conserved motifs, and phosphorylation sites. AhPHY exhibited symmetrical distribution across peanut chromosomes, with 7 intraspecific syntenic gene pairs in peanut, as well as 4 and 20 interspecific PHY syntenic gene pairs in Arabidopsis and soybean, respectively. A total of 42 cis-elements were predicted in AhPHY promoters, including elements implicated in phytohormone regulation, stress induction, physiology, and photoresponse, suggesting putative fundamental roles across diverse biological processes. Moreover, spatiotemporal transcript profiling of AhPHY genes in various peanut tissues revealed distinct expression patterns for each member, alluding to putative functional specialization. This study contributes novel insights into the classification, structure, molecular evolution, and expression profiles of the peanut phytochrome gene family, and also provides phototransduction gene resources for further mechanistic characterization. |
format | Online Article Text |
id | pubmed-10378891 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-103788912023-07-29 Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut Shen, Yue Liu, Yonghui Liang, Man Zhang, Xuyao Chen, Zhide Shen, Yi Genes (Basel) Article To investigate the potential role of phytochrome (PHY) in peanut growth and its response to environmental fluctuations, eight candidate AhPHY genes were identified via genome-wide analysis of cultivated peanut. These AhPHY polypeptides were determined to possess acidic and hydrophilic physiochemical properties and exhibit subcellular localization patterns consistent with residence in the nucleus and cytoplasm. Phylogenetic analysis revealed that the AhPHY gene family members were classified into three subgroups homologous to the PHYA/B/E progenitors of Arabidopsis. AhPHY genes within the same clade largely displayed analogous gene structure, conserved motifs, and phosphorylation sites. AhPHY exhibited symmetrical distribution across peanut chromosomes, with 7 intraspecific syntenic gene pairs in peanut, as well as 4 and 20 interspecific PHY syntenic gene pairs in Arabidopsis and soybean, respectively. A total of 42 cis-elements were predicted in AhPHY promoters, including elements implicated in phytohormone regulation, stress induction, physiology, and photoresponse, suggesting putative fundamental roles across diverse biological processes. Moreover, spatiotemporal transcript profiling of AhPHY genes in various peanut tissues revealed distinct expression patterns for each member, alluding to putative functional specialization. This study contributes novel insights into the classification, structure, molecular evolution, and expression profiles of the peanut phytochrome gene family, and also provides phototransduction gene resources for further mechanistic characterization. MDPI 2023-07-20 /pmc/articles/PMC10378891/ /pubmed/37510382 http://dx.doi.org/10.3390/genes14071478 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Shen, Yue Liu, Yonghui Liang, Man Zhang, Xuyao Chen, Zhide Shen, Yi Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut |
title | Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut |
title_full | Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut |
title_fullStr | Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut |
title_full_unstemmed | Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut |
title_short | Genome-Wide Identification and Characterization of the Phytochrome Gene Family in Peanut |
title_sort | genome-wide identification and characterization of the phytochrome gene family in peanut |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10378891/ https://www.ncbi.nlm.nih.gov/pubmed/37510382 http://dx.doi.org/10.3390/genes14071478 |
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