Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli
Systematic genome-wide analysis of Sorghum bicolor revealed the identification of a total of 48 homologous genes comprising 21 proline-rich proteins (PRPs) and 27 hybrid proline-rich proteins (HyPRPs). Comprehensive scrutiny of these gene homologs was conducted for gene structure, phylogenetic inves...
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| Format: | Article |
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Frontiers Media S.A.
2022-09-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2022.952732/full |
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| author | Guddimalli Rajasheker Marka Nagaraju Rinku Polachirakkal Varghese Rinku Polachirakkal Varghese Naravula Jalaja Anil Kumar Somanaboina Prashant Singam Chintala Ramakrishna Suprasanna Penna Nese Sreenivasulu P. B. Kavi Kishor |
| author_facet | Guddimalli Rajasheker Marka Nagaraju Rinku Polachirakkal Varghese Rinku Polachirakkal Varghese Naravula Jalaja Anil Kumar Somanaboina Prashant Singam Chintala Ramakrishna Suprasanna Penna Nese Sreenivasulu P. B. Kavi Kishor |
| author_sort | Guddimalli Rajasheker |
| collection | DOAJ |
| description | Systematic genome-wide analysis of Sorghum bicolor revealed the identification of a total of 48 homologous genes comprising 21 proline-rich proteins (PRPs) and 27 hybrid proline-rich proteins (HyPRPs). Comprehensive scrutiny of these gene homologs was conducted for gene structure, phylogenetic investigations, chromosome mapping, and subcellular localization of proteins. Promoter analysis uncovered the regions rich with phosphorous- (BIHD), ammonium-, sulfur-responsive (SURE), and iron starvation-responsive (IRO2) along with biotic, abiotic, and development-specific cis-elements. Further, PRPs exhibit more methylation and acetylation sites in comparison with HyPRPs. miRNAs have been predicted which might play a role in cleavage and translation inhibition. Several of the SbPRP genes were stimulated in a tissue-specific manner under drought, salt, heat, and cold stresses. Additionally, exposure of plants to abscisic acid (ABA) and zinc (Zn) also triggered PRP genes in a tissue-dependent way. Among them, SbPRP17 has been found upregulated markedly in all tissues irrespective of the stress imposed. The expressions of SbHyPRPs, especially SbHyPRP2, SbHyPRP6, and SbHyPRP17 were activated under all stresses in all three tissues. On the other hand, SbHyPRP8 (root only) and SbHyPRP12 (all three tissues) were highly responsive to cold stress and ABA while SbHyPRP26 was induced by drought and Zn in the stem. Taken together, this study indicates the critical roles that SbPRPs and SbHyPRPs play during diverse abiotic stress conditions and notably the plausible roles that these genes play upon exposure to zinc, the crucial micronutrient in plants. |
| first_indexed | 2024-04-12T18:18:26Z |
| format | Article |
| id | doaj.art-0ce6c547adfd4d8bb01af94f18305cde |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-12T18:18:26Z |
| publishDate | 2022-09-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-0ce6c547adfd4d8bb01af94f18305cde2022-12-22T03:21:31ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2022-09-011310.3389/fpls.2022.952732952732Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuliGuddimalli Rajasheker0Marka Nagaraju1Rinku Polachirakkal Varghese2Rinku Polachirakkal Varghese3Naravula Jalaja4Anil Kumar Somanaboina5Prashant Singam6Chintala Ramakrishna7Suprasanna Penna8Nese Sreenivasulu9P. B. Kavi Kishor10Department of Genetics and Biotechnology, Osmania University, Hyderabad, IndiaBiochemistry Division, ICMR-National Institute of Nutrition, Hyderabad, IndiaDepartment of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Vadlamudi, IndiaSchool of Biosciences and Technology, Vellore Institute of Technology, Vellore, IndiaDepartment of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Vadlamudi, IndiaDepartment of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Vadlamudi, IndiaDepartment of Genetics and Biotechnology, Osmania University, Hyderabad, IndiaDepartment of Environmental Sciences, GITAM University, Visakhapatnam, IndiaNuclear Agriculture and Biotechnology, Bhabha Atomic Research Center, Mumbai, IndiaConsumer-driven Grain Quality and Nutrition Research Unit, International Rice Research Institute, Los Baños, PhilippinesDepartment of Biotechnology, Vignan’s Foundation for Science, Technology & Research (Deemed to be University), Vadlamudi, IndiaSystematic genome-wide analysis of Sorghum bicolor revealed the identification of a total of 48 homologous genes comprising 21 proline-rich proteins (PRPs) and 27 hybrid proline-rich proteins (HyPRPs). Comprehensive scrutiny of these gene homologs was conducted for gene structure, phylogenetic investigations, chromosome mapping, and subcellular localization of proteins. Promoter analysis uncovered the regions rich with phosphorous- (BIHD), ammonium-, sulfur-responsive (SURE), and iron starvation-responsive (IRO2) along with biotic, abiotic, and development-specific cis-elements. Further, PRPs exhibit more methylation and acetylation sites in comparison with HyPRPs. miRNAs have been predicted which might play a role in cleavage and translation inhibition. Several of the SbPRP genes were stimulated in a tissue-specific manner under drought, salt, heat, and cold stresses. Additionally, exposure of plants to abscisic acid (ABA) and zinc (Zn) also triggered PRP genes in a tissue-dependent way. Among them, SbPRP17 has been found upregulated markedly in all tissues irrespective of the stress imposed. The expressions of SbHyPRPs, especially SbHyPRP2, SbHyPRP6, and SbHyPRP17 were activated under all stresses in all three tissues. On the other hand, SbHyPRP8 (root only) and SbHyPRP12 (all three tissues) were highly responsive to cold stress and ABA while SbHyPRP26 was induced by drought and Zn in the stem. Taken together, this study indicates the critical roles that SbPRPs and SbHyPRPs play during diverse abiotic stress conditions and notably the plausible roles that these genes play upon exposure to zinc, the crucial micronutrient in plants.https://www.frontiersin.org/articles/10.3389/fpls.2022.952732/fullproline-rich proteinshybrid proline-rich proteinsgene expressionsabiotic stressesSorghum bicolor |
| spellingShingle | Guddimalli Rajasheker Marka Nagaraju Rinku Polachirakkal Varghese Rinku Polachirakkal Varghese Naravula Jalaja Anil Kumar Somanaboina Prashant Singam Chintala Ramakrishna Suprasanna Penna Nese Sreenivasulu P. B. Kavi Kishor Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli Frontiers in Plant Science proline-rich proteins hybrid proline-rich proteins gene expressions abiotic stresses Sorghum bicolor |
| title | Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli |
| title_full | Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli |
| title_fullStr | Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli |
| title_full_unstemmed | Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli |
| title_short | Identification and analysis of proline-rich proteins and hybrid proline-rich proteins super family genes from Sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli |
| title_sort | identification and analysis of proline rich proteins and hybrid proline rich proteins super family genes from sorghum bicolor and their expression patterns to abiotic stress and zinc stimuli |
| topic | proline-rich proteins hybrid proline-rich proteins gene expressions abiotic stresses Sorghum bicolor |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2022.952732/full |
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