Development of a Multipurpose Core Collection of Bread Wheat Based on High-Throughput Genotyping Data

Pascual, Laura; Fernández, Mario; Aparicio, Nieves; López-Fernández, Matilde; Fité, Rosario; Giraldo, Patricia; Ruíz, Magdalena

doi:10.3390/agronomy10040534

Cited by 20 publications

(16 citation statements)

References 51 publications

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“…The higher value of H' is indicative of fair representation of the existing diversity and similar findings have been reported by Pascual et al. (2020) in the Spanish wheat core.…”

Section: Resultssupporting

confidence: 89%

“…Thus, the total diversity represented in bread wheat, durum wheat, and emmer wheat cores was 133.27, 137.58, and 116.38%, respectively, of the entire set. The higher value of H' is indicative of fair representation of the existing diversity and similar findings have been reported by Pascual et al (2020) in the Spanish wheat core.…”

Section: Validation Of Core Set and Sampling Strategysupporting

confidence: 85%

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Characterization of wheat germplasm conserved in the Indian National Genebank and establishment of a composite core collection

et al. 2020

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The use of untapped plant genetic resources of wheat (Triticum spp.) can enhance its productivity. In the present study, we characterized 22,416 accessions of three different species of wheat conserved in the Indian National Genebank using 23 qualitative and 12 quantitative traits to develop a core set. These accessions were highly diverse on the basis of range, coefficient of variation, and Shannon–Weaver diversity index. Initial grouping was done on the bases of species and origin, and thereafter, agromorphological data were used to develop core sets for each species group using the heuristic approach with PowerCore. Finally, a composite core set was constituted comprising 2,226 accessions, which included 1,779 accessions of bread wheat (T. aestivum L.), 394 of durum wheat [T. turgidum L. subsp. durum (Desf.) van Slageren], and 53 of emmer wheat [T. dicoccon Schrank; syn. T. turgidum L. subsp. dicoccon (Schrank) Thell]. The core set was validated under field conditions. Also, the coincidence rate of range (CR) (bread wheat, 85.78%; durum wheat, 87.52%; and emmer wheat, 95.34%) and variable rate of the coefficient of variation (VR) (bread wheat, 174.9%; durum wheat, 136.5%; and emmer wheat, 105.81%) were more than the threshold values of 80 and 100%, respectively. The phenotypic correlations among different traits attributable to coadapted gene complexes and total variation shown by principal components in the entire set were also mostly preserved in the core set. The composite wheat core and the trait‐specific germplasm sets identified would serve as valuable resources for global wheat improvement programs.

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“…The higher value of H' is indicative of fair representation of the existing diversity and similar findings have been reported by Pascual et al. (2020) in the Spanish wheat core.…”

Section: Resultssupporting

confidence: 89%

Section: Validation Of Core Set and Sampling Strategysupporting

confidence: 85%

Characterization of wheat germplasm conserved in the Indian National Genebank and establishment of a composite core collection

et al. 2020

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“…They have accelerated the development of tea plant genomics, genetics, and breeding [ 57 – 61 ]. Here, the core set was used to detect novel variations, select superior varieties, and furnish optimal germplasms because it consists of relatively smaller populations with comparatively higher genetic diversity [ 62 ]. Core collection development has been applied for cowpea [ 63 ], alpine plum [ 64 ], walnut [ 65 ], tea [ 50 , 57 ] and other plants.…”

Section: Discussionmentioning

confidence: 99%

Population structure analysis to explore genetic diversity and geographical distribution characteristics of cultivated-type tea plant in Guizhou Plateau

et al. 2022

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Background Tea plants originated in southwestern China. Guizhou Plateau is an original center of tea plants, and is rich in germplasm resources. However, the genetic diversity, population structure and distribution characteristics of cultivated-type tea plants in the region are unknown. In this study, we explored the genetic diversity and geographical distribution of cultivated-type tea accessions in Guizhou Plateau. Results We used 112,072 high-quality genotyping-by-sequencing to analyze the genetic diversity, principal components, phylogeny, population structure, and linkage disequilibrium, and develop a core collection of 253 cultivated-type tea plant accessions from Guizhou Plateau. The results showed Genetic diversity of the cultivated-type tea accessions of the Pearl River Basin was significantly higher than that of the cultivated-type tea accessions of the Yangtze River Basin. Three inferred pure groups (CG-1, CG-2 and CG-3) and one inferred admixture group (CG-4), were identified by a population structure analysis, and verified by principal component and phylogenetic analyses. The highest genetic distance and differentiation coefficients were determined for CG-2 vs CG-3. The lower genetic distance and differentiation coefficients were determined for CG-4 vs CG-2 and CG-4 vs CG-3, respectively. We developed a core set and a primary set. The primary and core sets contained 77.0 and 33.6% of all individuals in the initial set, respectively. The primary set may serve as the primary population in genome-wide association studies, while the core collection may serve as the core population in multiple treatment setting studies. Conclusions The present study demonstrated the genetic diversity and geographical distribution characteristics of cultivated-type tea plants in Guizhou Plateau. Significant differences in genetic diversity and evolutionary direction were detected between the ancient landraces of the Pearl River Basin and the those of the Yangtze River Basin. Major rivers and ancient hubs were largely responsible for the genetic exchange between the Pearl River Basin and the Yangtze River Basin ancient landraces as well as the formation of the ancient hubs evolutionary group. Genetic diversity, population structure and core collection elucidated by this study will facilitate further genetic studies, germplasm protection, and breeding of tea plants.

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“…maintained in Spanish National Plant Genetic Resources Centre (Centro de Recursos Fitogenéticos, CRF-INIA, Alcalá de Henares). All these accessions were homozygous lines derived from GenBank-original accessions, chosen based on their collection site data and agro-morphological characteristics to represent all of the different ecological and geographical areas of Spain [ 96 ]. This set was previously analyzed at the genomic level, and the accessions were clustered into four genetic populations, representing different gene pools [ 41 ].…”

Section: Methodsmentioning

confidence: 99%

Exploring the End-Use Quality Potential of a Collection of Spanish Bread Wheat Landraces

López-Fernández

Pascual

Faci

et al. 2021

Plants

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Modern plant-breeding practices have narrowed the genetic base of wheat, such that there is a need to introduce new germplasms with underexploited diversity into breeding programs. Wheat landraces are a very valuable resource when searching for genetic variation, which not only possess increased adaptability, but also quality-related traits. Several studies have shown a wide genetic diversity in Spanish wheat landraces compared to other germplasm collections; therefore, the main objective of this study is to analyze the variability in a collection of 189 landraces from the Spanish National Plant Genetic Resources Centre (Centro de Recursos Fitogenéticos, CRF-INIA, Alcalá de Henares), in relation to end-use quality traits. We characterized the whole collection for high-molecular-weight glutenin and puroindoline allelic composition, and for gluten strength. In addition, grain protein content, grains per spike, and thousand kernel weight were evaluated in samples from four-year field trials. The relationship between glutenin composition and quality was evaluated, and some alleles strongly associated with high quality were identified in the collection, some of them specific for Iberian landraces. The results also show the presence of novel variability within high-molecular-weight glutenin and puroindolines, which needs to be characterized further in order to assess its influence on wheat quality. In addition, a set of landraces showing outstanding values for gluten quality and a good agronomic performance was selected for testing in field trials in order to evaluate the suitability of their direct use in cropping systems.

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Development of a Multipurpose Core Collection of Bread Wheat Based on High-Throughput Genotyping Data

Cited by 20 publications

References 51 publications

Characterization of wheat germplasm conserved in the Indian National Genebank and establishment of a composite core collection

Characterization of wheat germplasm conserved in the Indian National Genebank and establishment of a composite core collection

Population structure analysis to explore genetic diversity and geographical distribution characteristics of cultivated-type tea plant in Guizhou Plateau

Exploring the End-Use Quality Potential of a Collection of Spanish Bread Wheat Landraces

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