Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus
The basic leucine zipper (bZIP) gene family is one of the largest transcription factors family in plants. These are involved in various biological processes including the regulation of light signaling, seed maturation, flower development, and the response to both biotic and abiotic stresses. Despite...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2023-12-01
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| Series: | Plant Stress |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667064X23000714 |
| _version_ | 1797422539808440320 |
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| author | Shahroz Rahman Abdul Rehman Muhammad Waqas Muhammad Salman Mubarik Khairiah Alwutayd Hamada AbdElgawad Arshad Jalal Farrukh Azeem Muhammad Rizwan |
| author_facet | Shahroz Rahman Abdul Rehman Muhammad Waqas Muhammad Salman Mubarik Khairiah Alwutayd Hamada AbdElgawad Arshad Jalal Farrukh Azeem Muhammad Rizwan |
| author_sort | Shahroz Rahman |
| collection | DOAJ |
| description | The basic leucine zipper (bZIP) gene family is one of the largest transcription factors family in plants. These are involved in various biological processes including the regulation of light signaling, seed maturation, flower development, and the response to both biotic and abiotic stresses. Despite the crucial role of this gene family, no comprehensive investigation has been carried out to characterize bZIPs in sunflower. Therefore, an in silico analysis along with a wetlab experimental approach was adopted for bZIPs in sunflower plants. During the study, 73 bZIPs were identified in sunflower. Phylogenetic analysis involving bZIPs from A. thaliana, H. annuus, C. arabica, L. sativa, and V. vinifera divided these members into 11 groups and testified using conserved motif and gene structure analysis. Protein-Protein interaction analysis identified five clusters of HabZIPs. Intron diversity ranged from 0 to 12. The cis-regulatory elements analysis predicted various stress-responsive elements. RNA-seq data analysis reveiled that clusters of bZIPs were involved in stress response in roots and leaves during early or late stages of plant growth. Similatly, qRT-PCR analysis identified that HabZIP01, 04, 18, and 48 were significantly upregulated in response to mild or svere salt stress. Conversely, HabZIP08 was downregulated in response to both levels of salinity. Overall the study provides new insights into stress-responsive HabZIP genes in sunflower and provides a foundation for further research on their role in the plant's response to abiotic stress. |
| first_indexed | 2024-03-09T07:33:46Z |
| format | Article |
| id | doaj.art-f2c811e56ffb4c7faa8131f35fc5c026 |
| institution | Directory Open Access Journal |
| issn | 2667-064X |
| language | English |
| last_indexed | 2024-03-09T07:33:46Z |
| publishDate | 2023-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Plant Stress |
| spelling | doaj.art-f2c811e56ffb4c7faa8131f35fc5c0262023-12-03T05:43:23ZengElsevierPlant Stress2667-064X2023-12-0110100204Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuusShahroz Rahman0Abdul Rehman1Muhammad Waqas2Muhammad Salman Mubarik3Khairiah Alwutayd4Hamada AbdElgawad5Arshad Jalal6Farrukh Azeem7Muhammad Rizwan8Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad 38000, PakistanDepartment of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad 38000, PakistanDepartment of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad 38000, PakistanDepartment of Biotechnology, University of Narowal, Narowal, PakistanDepartment of Biology, College of Science, Princess Nourah bint Abdulrahman University, P.O. Box 84428, Riyadh 11671, Saudi ArabiaDepartment of Botany and Microbiology, Faculty of Science, Beni-Suef University, Beni-Suef 62511, EgyptFaculty of Engineering, Sao Paulo State University, Ilha Solteira, Sao Paulo 15385-000, BrazilDepartment of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad 38000, Pakistan; Corresponding authors.Department of Environmental Sciences, Government College Univesity Faisalabad, Faisalabad 38000, Pakistan; Corresponding authors.The basic leucine zipper (bZIP) gene family is one of the largest transcription factors family in plants. These are involved in various biological processes including the regulation of light signaling, seed maturation, flower development, and the response to both biotic and abiotic stresses. Despite the crucial role of this gene family, no comprehensive investigation has been carried out to characterize bZIPs in sunflower. Therefore, an in silico analysis along with a wetlab experimental approach was adopted for bZIPs in sunflower plants. During the study, 73 bZIPs were identified in sunflower. Phylogenetic analysis involving bZIPs from A. thaliana, H. annuus, C. arabica, L. sativa, and V. vinifera divided these members into 11 groups and testified using conserved motif and gene structure analysis. Protein-Protein interaction analysis identified five clusters of HabZIPs. Intron diversity ranged from 0 to 12. The cis-regulatory elements analysis predicted various stress-responsive elements. RNA-seq data analysis reveiled that clusters of bZIPs were involved in stress response in roots and leaves during early or late stages of plant growth. Similatly, qRT-PCR analysis identified that HabZIP01, 04, 18, and 48 were significantly upregulated in response to mild or svere salt stress. Conversely, HabZIP08 was downregulated in response to both levels of salinity. Overall the study provides new insights into stress-responsive HabZIP genes in sunflower and provides a foundation for further research on their role in the plant's response to abiotic stress.http://www.sciencedirect.com/science/article/pii/S2667064X23000714BzipsHelianthus annuusGene expressionAlkali stressGenome-wideBasic-leucine-zipper |
| spellingShingle | Shahroz Rahman Abdul Rehman Muhammad Waqas Muhammad Salman Mubarik Khairiah Alwutayd Hamada AbdElgawad Arshad Jalal Farrukh Azeem Muhammad Rizwan Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus Plant Stress Bzips Helianthus annuus Gene expression Alkali stress Genome-wide Basic-leucine-zipper |
| title | Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus |
| title_full | Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus |
| title_fullStr | Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus |
| title_full_unstemmed | Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus |
| title_short | Genome-wide exploration of bZIP transcription factors and their contribution to alkali stress response in Helianthus annuus |
| title_sort | genome wide exploration of bzip transcription factors and their contribution to alkali stress response in helianthus annuus |
| topic | Bzips Helianthus annuus Gene expression Alkali stress Genome-wide Basic-leucine-zipper |
| url | http://www.sciencedirect.com/science/article/pii/S2667064X23000714 |
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