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N'Goran, Jeanne A.K.; Laurent, V.; Risterucci, Ange-Marie; Lanaud, Claire

doi:10.1023/a:1003980411485

Cited by 34 publications

(3 citation statements)

References 15 publications

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“…The significant F ST among the clusters indicate a real variation in these clusters, and attempt to pyramid the QTLs governing the trait may improve further tolerance for seedling stage cold tolerance. Similar suggestion was also provided by earlier workers for increasing heterosis for grain yield in rice (N'Goran et al, 2000). …”

Section: Discussionsupporting

confidence: 88%

Genome-Wide Association Mapping Reveals Multiple QTLs Governing Tolerance Response for Seedling Stage Chilling Stress in Indica Rice

et al. 2017

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Rice crop is sensitive to cold stress at seedling stage. A panel of population representing 304 shortlisted germplasm lines was studied for seedling stage chilling tolerance in indica rice. Six phenotypic classes were exposed to six low temperature stress regimes under control phenotyping facility to investigate response pattern. A panel of 66 genotypes representing all phenotypic classes was used for ensuring genetic diversity, population structure and association mapping for the trait using 58 simple sequence repeat (SSR) and 2 direct trait linked markers. A moderate level of genetic diversity was detected in the panel population for the trait. Deviation of Hardy-Weinberg's expectation was detected in the studied population using Wright's F statistic. The panel showed 30% variation among population and 70% among individuals. The entire population was categorized into three sub-populations through STRUCTURE analysis. This revealed tolerance for the trait had a common primary ancestor for each sub-population with few admix individuals. The panel population showed the presence of many QTLs for cold stress tolerance in the individuals representing like genome-wide expression of the trait. Nineteen SSR markers were significantly associated at chilling stress of 8°C to 4°C for 7–21 days duration. Thus, the primers linked to the seedling stage cold tolerance QTLs namely qCTS9, qCTS-2, qCTS6.1, qSCT2, qSCT11, qSCT1a, qCTS-3.1, qCTS11.1, qCTS12.1, qCTS-1b, and CTB2 need to be pyramided for development of strongly chilling tolerant variety.

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Section: Discussionsupporting

confidence: 88%

Genome-Wide Association Mapping Reveals Multiple QTLs Governing Tolerance Response for Seedling Stage Chilling Stress in Indica Rice

et al. 2017

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“…This kind of clear differentiation among genotypes of any subspecies may be because of their different growth environments, adaptive traits and evolutionary patterns. The allelic fixation (F st ) values were different among the three subgroups and varied from 0.194 to 0.277, suggesting higher genome compatibility among the genotypes, indicating that crosses made between the genotypes from these distinct subgroups would generate superior lines with better adaptability to moderate to severe drought conditions (N’Goran et al 2000; Raju et al 2016). The expected heterozygosity was higher in all the three subgroups and it was more than 0.544 among the three subgroups.…”

Section: Discussionmentioning

confidence: 99%

Association Mapping of Yield and Yield-related Traits Under Reproductive Stage Drought Stress in Rice (Oryza sativa L.)

Swamy

Shamsudin

Rahman

et al. 2017

Rice

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BackgroundThe identification and introgression of major-effect QTLs for grain yield under drought are some of the best and well-proven approaches for improving the drought tolerance of rice varieties. In the present study, we characterized Malaysian rice germplasm for yield and yield-related traits and identified significant trait marker associations by structured association mapping.ResultsThe drought screening was successful in screening germplasm with a yield reduction of up to 60% and heritability for grain yield under drought was up to 78%. There was a wider phenotypic and molecular diversity within the panel, indicating the suitability of the population for quantitative trait loci (QTL) mapping. Structure analyses clearly grouped the accessions into three subgroups with admixtures. Linkage disequilibrium (LD) analysis revealed that LD decreased with an increase in distance between marker pairs and the LD decay varied from 5–20 cM. The Mixed Linear model-based structured association mapping identified 80 marker trait associations (MTA) for grain yield (GY), plant height (PH) and days to flowering (DTF). Seven MTA were identified for GY under drought stress, four of these MTA were consistently identified in at least two of the three analyses. Most of these MTA identified were on chromosomes 2, 5, 10, 11 and 12, and their phenotypic variance (PV) varied from 5% to 19%. The in silico analysis of drought QTL regions revealed the association of several drought-responsive genes conferring drought tolerance. The major-effect QTLs are useful in marker-assisted QTL pyramiding to improve drought tolerance.ConclusionThe results have clearly shown that structured association mapping is one of the feasible options to identify major-effect QTLs for drought tolerance-related traits in rice.Electronic supplementary materialThe online version of this article (doi:10.1186/s12284-017-0161-6) contains supplementary material, which is available to authorized users.

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“…However, these values were more pronounced in the (BA + T)2 group than in the HA2. This could be explained by the fact that many of the parent genotypes used as the base population for the recurrent and reciprocal selection program in Côte d'Ivoire are quite diverse, as they originate from international surveys and quarantine centers (Besse, 1976;1977;Lachenaud et al, 2001;Laurent et al, 1994, N'Goran et al, 1994, 2000. This allelic richness could also be attributed to the gametosporophytic selfincompatibility system that characterizes T. cacao (Royaert et al, 2011;Lanaud et al, 2017;Lanaud, 1987).…”

Section: Discussionmentioning

confidence: 99%

Genotyping of cocoa trees (Theobroma cacao L.) from first and second cycle of reccurent and reciprocal selection program in Côte d'Ivoire

GUIRAUD,

TAHI,

POKOU

et al. 2024

Preprint

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The recurrent and reciprocal cocoa breeding program in Côte d'Ivoire is in its 2nd cycle of crossing High Amazon Forastero (HA)2 and a mixture of Low Amazon Forastero and Trinitario (LA + T)2. It was created with the aim of improving the characteristics of these genetic groups. This study was carried out to evaluate the identity and genetic structure of cocoa trees selected on index for production and rotted pod rate, with a view to better assessing the genetic conformity of individuals within each genetic group. 152 cocoa trees were genotyped with 99 SNPs markers. These samples included 53 HA2 genotypes, 26 (BA + T)2 genotypes, 30 parents genotypes and 43 progenies from crosses between HA2 and (BA + T)2. Results indicate that observed heterozygosity (Ho = 0.35) is higher than expected heterozygosity (He = 0.31), showing an excess of heterozygotes. Strong genetic differentiation (Fst = 0.90) was revealed between HA2 and (BA + T)2 and weak genetic differentiation between these groups and their offspring (Fst = 0.03). Multivariate analysis revealed two main phylogenetic groups. Group 1 containing almost all HA2 individuals and group 2 comprising almost all (BA + T)2 genotypes. Indeed, genetic conformity of individuals was revealed within each group, with 94% of HA2 genotypes and 81% of (BA + T)2 genotypes. These results are a good indicator for avoiding errors when selecting the best cocoa trees within each genetic group, with a view to starting a new selection cycle.

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Untitled

Cited by 34 publications

References 15 publications

Genome-Wide Association Mapping Reveals Multiple QTLs Governing Tolerance Response for Seedling Stage Chilling Stress in Indica Rice

Genome-Wide Association Mapping Reveals Multiple QTLs Governing Tolerance Response for Seedling Stage Chilling Stress in Indica Rice

Association Mapping of Yield and Yield-related Traits Under Reproductive Stage Drought Stress in Rice (Oryza sativa L.)

Genotyping of cocoa trees (Theobroma cacao L.) from first and second cycle of reccurent and reciprocal selection program in Côte d'Ivoire

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