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Liu J, Wang L, Jiang S, Wang Z, Li H, Wang H. Mining of Minor Disease Resistance Genes in V. vinifera Grapes Based on Transcriptome. Int J Mol Sci 2023; 24:15311. [PMID: 37894991 PMCID: PMC10607095 DOI: 10.3390/ijms242015311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Revised: 10/09/2023] [Accepted: 10/10/2023] [Indexed: 10/29/2023] Open
Abstract
Intraspecific recurrent selection in V. vinifera is an effective method for grape breeding with high quality and disease resistance. The core theory of this method is the substitution accumulation of multi-genes with low disease resistance. The discovery of multi-genes for disease resistance in V. vinifera may provide a molecular basis for breeding for disease resistance in V. vinifera. In this study, resistance to downy mildew was identified, and genetic analysis was carried out in the intraspecific crossing population of V. vinifera (Ecolly × Dunkelfelder) to screen immune, highly resistant and disease-resistant plant samples; transcriptome sequencing and differential expression analysis were performed using high-throughput sequencing. The results showed that there were 546 differential genes (194 up-regulated and 352 down-regulated) in the immune group compared to the highly resistant group, and 199 differential genes (50 up-regulated and 149 down-regulated) in the highly resistant group compared to the resistant group, there were 103 differential genes (54 up-regulated and 49 down-regulated) in the immune group compared to the resistant group. KEGG analysis of differentially expressed genes in the immune versus high-resistance group. The pathway is mainly concentrated in phenylpropanoid biosynthesis, starch and sucrose metabolism, MAPK signaling pathway-plant, carotenoid biosyn-thesis and isoquinoline alkaloid biosynthesis. The differential gene functions of immune and resistant, high-resistant and resistant combinations were mainly enriched in plant-pathogen interaction pathway. Through the analysis of disease resistance-related genes in each pathway, the potential minor resistance genes in V. vinifera were mined, and the accumulation of minor resistance genes was analyzed from the molecular level.
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Affiliation(s)
- Junli Liu
- College of Enology, Northwest A&F University, Xianyang 712100, China; (J.L.); (L.W.); (S.J.); (Z.W.)
| | - Liang Wang
- College of Enology, Northwest A&F University, Xianyang 712100, China; (J.L.); (L.W.); (S.J.); (Z.W.)
| | - Shan Jiang
- College of Enology, Northwest A&F University, Xianyang 712100, China; (J.L.); (L.W.); (S.J.); (Z.W.)
| | - Zhilei Wang
- College of Enology, Northwest A&F University, Xianyang 712100, China; (J.L.); (L.W.); (S.J.); (Z.W.)
| | - Hua Li
- College of Enology, Northwest A&F University, Xianyang 712100, China; (J.L.); (L.W.); (S.J.); (Z.W.)
- China Wine Industry Technology Institute, Yinchuan 750021, China
- Shaanxi Engineering Research Center for Viti-Viniculture, Xianyang 712100, China
- Engineering Research Center for Viti-Viniculture, National Forestry and Grassland Administration, Xianyang 712100, China
| | - Hua Wang
- College of Enology, Northwest A&F University, Xianyang 712100, China; (J.L.); (L.W.); (S.J.); (Z.W.)
- China Wine Industry Technology Institute, Yinchuan 750021, China
- Shaanxi Engineering Research Center for Viti-Viniculture, Xianyang 712100, China
- Engineering Research Center for Viti-Viniculture, National Forestry and Grassland Administration, Xianyang 712100, China
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Neto VG, de Castro RD, Lima BLS, Vieira CJB, Rosário NL, Fernandez LG, Goudsmit E, Ligterink W, Hilhorst HWM, Ribeiro PR. Modulation of NF-YB genes in Ricinus communis L. in response to different temperatures and developmental stages and functional characterization of RcNF-YB8 as an important regulator of flowering time in Arabidopsis thaliana. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 166:20-30. [PMID: 34087742 DOI: 10.1016/j.plaphy.2021.05.014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2021] [Accepted: 05/08/2021] [Indexed: 06/12/2023]
Abstract
We have characterized the NF-YB gene family in R. communis using bioinformatics, ecotopic expression, and transcriptomics. A total of 14 RcNF-YB genes were identified in R. communis genome using the conserved NF-YB region. This number is similar to what is found in A. thaliana (13 genes) and O. sativa (11 genes), whereas it is considerably lower to what is found in P. trichocarpa (21 genes) and S. lycopersycum (29 genes). Several regulatory cis-elements were identified in the promoter region, including low temperature, defense and stress, MIC, MYB, and abscisic acid. RcNF-YB is strongly modulated by temperature and it is dependent on the stage of germination. In general, RcNF-YB genes showed higher expression levels in dry seeds and early imbibition (EI) samples as compared to later stages of seedling development. Ectopic expression of RcNF-YB8 reduced flowering time in Arabidopsis reducing the time required for the formation of the first visible bud, the time required to open the first flower, and the time required for the formation of the first visible silique. At the end of the life cycle, ectopic expression of RcNF-YB8 affected plant height (PH), silique length (SL), the total number of silique per plant, 1000-seed weight, and seed size. Our data demonstrated the role of RcNF-YB8 in flowering time, plant height and seed production, and it shows that it may constitute a key target gene for breeding superior R. communis genotypes.
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Affiliation(s)
- Valdir G Neto
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil; Metabolomics Research Group, Departamento de Química Orgânica, Instituto de Química, Universidade Federal da Bahia, Rua Barão de Jeremoabo s/n, 40170-115, Salvador, Brazil
| | - Renato D de Castro
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil.
| | - Bianca L S Lima
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil
| | - Camilo J B Vieira
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil
| | - Neucastle L Rosário
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil
| | - Luzimar G Fernandez
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil
| | - Eva Goudsmit
- Wageningen Seed Lab, Laboratory of Plant Physiology, Wageningen University (WU), Droevendaalsesteeg 1, NL-6708 PB, Wageningen, the Netherlands
| | - Wilco Ligterink
- Wageningen Seed Lab, Laboratory of Plant Physiology, Wageningen University (WU), Droevendaalsesteeg 1, NL-6708 PB, Wageningen, the Netherlands
| | - Henk W M Hilhorst
- Wageningen Seed Lab, Laboratory of Plant Physiology, Wageningen University (WU), Droevendaalsesteeg 1, NL-6708 PB, Wageningen, the Netherlands
| | - Paulo R Ribeiro
- Laboratório de Bioquímica, Biotecnologia e Bioprodutos, Departamento de Bioquímica e Biofísica, Universidade Federal da Bahia, Reitor Miguel Calmon s/n, 40160-100, Salvador, Brazil; Metabolomics Research Group, Departamento de Química Orgânica, Instituto de Química, Universidade Federal da Bahia, Rua Barão de Jeremoabo s/n, 40170-115, Salvador, Brazil.
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