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Dossa K, Morel A, Houngbo ME, Mota AZ, Malédon E, Irep JL, Diman JL, Mournet P, Causse S, Van KN, Cornet D, Chair H. Genome-wide association studies reveal novel loci controlling tuber flesh color and oxidative browning in Dioscorea alata. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2024; 104:4895-4906. [PMID: 37209230 DOI: 10.1002/jsfa.12721] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 03/28/2023] [Accepted: 05/20/2023] [Indexed: 05/22/2023]
Abstract
BACKGROUND Consumers' preferences for food crops are guided by quality attributes. This study aimed at deciphering the genetic basis of quality traits, especially tuber flesh color (FC) and oxidative browning (OB) in Dioscorea alata, based on the genome-wide association studies (GWAS) approach. The D. alata panel was planted at two locations in Guadeloupe. At harvest, the FC was scored visually as white, cream, or purple on longitudinally sliced mature tubers. The OB was scored visually as the presence or absence of browning after 15 min of exposure of the sliced samples to ambient air. RESULTS Phenotypic characterization for FC and OB of a diverse panel of D. alata genotypes highlighted significant variation within the panel and across two locations. The genotypes within the panel displayed a weak structure and could be classified into three subpopulations. GWAS identified 14 and 4 significant associations for tuber FC and OB, respectively, with phenotypic variance, explained values ranging from 7.18% to 18.04%. Allele segregation analysis at the significantly associated loci highlighted the favorable alleles for the desired traits, i.e., white FC and no OB. A total of 24 putative candidate genes were identified around the significant signals. A comparative analysis with previously reported quantitative trait loci indicated that numerous genomic regions control these traits in D. alata. CONCLUSION Our study provides important insights into the genetic control of tuber FC and OB in D. alata. The major and stable loci can be further utilized to improve selection in breeding programs for developing new cultivars with enhanced tuber quality. © 2023 The Authors. Journal of The Science of Food and Agriculture published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- Komivi Dossa
- CIRAD, UMR AGAP Institut, Petit Bourg, France
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Angélique Morel
- CIRAD, UMR AGAP Institut, Petit Bourg, France
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Mahugnon Ezékiel Houngbo
- CIRAD, UMR AGAP Institut, Petit Bourg, France
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- CIRAD, UMR AGAP Institut, Montpellier, France
| | - Ana Zotta Mota
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- CIRAD, UMR AGAP Institut, Montpellier, France
| | | | - Jean-Luc Irep
- UR1321 ASTRO Agrosystèmes tropicaux, INRAE, Petit-Bourg (Guadeloupe), Paris, France
| | - Jean-Louis Diman
- UR1321 ASTRO Agrosystèmes tropicaux, INRAE, Petit-Bourg (Guadeloupe), Paris, France
| | - Pierre Mournet
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- CIRAD, UMR AGAP Institut, Montpellier, France
| | - Sandrine Causse
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- CIRAD, UMR AGAP Institut, Montpellier, France
| | | | - Denis Cornet
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- CIRAD, UMR AGAP Institut, Montpellier, France
| | - Hâna Chair
- UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- CIRAD, UMR AGAP Institut, Montpellier, France
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Jiang H, Song W, Li A, Yang X, Sun D. Identification of genes differentially expressed in cauliflower associated with resistance to Xanthomonas campestris pv. campestris. Mol Biol Rep 2010; 38:621-9. [PMID: 20397055 DOI: 10.1007/s11033-010-0148-5] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2010] [Accepted: 03/23/2010] [Indexed: 01/12/2023]
Abstract
Black rot, caused by Xanthomonas campestris pv. campestris (Pammel) Dowson (Xcc), is one of the most damaging diseases of cauliflower and other crucifers. In order to investigate the molecular resistance mechanisms and to find the genes related to black rot resistance in cauliflower, a suppression subtractive hybridization (SSH) cDNA library was constructed using resistant line C712 and its susceptible near-isogenic line C731 as tester and driver, respectively. A total of 280 clones were obtained from the library by reverse northern blotting. Sequencing analysis and homology searching showed that these clones represent 202 unique sequences. The library included many defense/disease-resistant related genes, such as plant defensin gene PDF1.2, lipid transfer protein, thioredoxin h. Gene expression profiles of 12 genes corresponding to different functional categories were monitored by real-time RT-PCR. The results showed that the expression induction of these genes in the susceptible line C712 in response to Xcc was quicker and more intense, while in C731 the reaction was delayed and limited. Our results imply that these up-regulated genes might be involved in cauliflower responses against Xcc infection. Information obtained from this study could be used to understand the molecular mechanisms of disease response in cauliflower under Xcc stress.
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Affiliation(s)
- Hanmin Jiang
- College of Life Sciences, Nankai University, Tianjin, 300071, People's Republic of China
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Liu GJ, Wang LJ, Qin ZW, Meng LB. [Analysis of cDNA library of Cucumis sativus L. challenged by Pseudomonas syringae pv. Lachrymans]. YI CHUAN = HEREDITAS 2009; 31:1042-1048. [PMID: 19840927 DOI: 10.3724/sp.j.1005.2009.01042] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
A cDNA library was constructed from the leaves of the disease-resistant cucumber (Cucumis sativus L.) cultivar 'D0462' challenged by Pseudomonas syringae pv. Lachrymans for 48 h. The inserted fragment sizes ranged from 0.45 to 2.1 kb and the average inserted size was 1 kb. Sequencing analysis showed that 2 352 TUTs (Tentative unique transcripts), 282 contigs, and 2 070 singlets were identified in the 2 966 ESTs derived from the cDNA library. The result of the BlastX analysis indicated that there were 1 848 ESTs with known or unknown function, 504 ESTs with no significant similarity matching with any protein or DNA sequence in the databases. In this library, many defense/disease-resistant related genes, such as metallothionein, glutathione S-transferase, ubiquitin, b-1, 3-glucanase, zinc finger protein, and cysteine protease, which might participate in the plant and the pathogens, are inclued.
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Affiliation(s)
- Guan-Jun Liu
- College of Horticulture, Northeast Agricultural University, Harbin 150030, China.
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