scholarly journals Genome-wide association mapping for wheat blast resistance in CIMMYT’s international screening nurseries evaluated in Bolivia and Bangladesh

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Philomin Juliana ◽  
Xinyao He ◽  
Muhammad R. Kabir ◽  
Krishna K. Roy ◽  
Md. Babul Anwar ◽  
...  
Keyword(s):  
Association Mapping ◽  
Blast Resistance ◽  
Genome Wide Association ◽  
Aegilops Ventricosa ◽  
Wheat Blast ◽  
Genome Wide ◽  
Large Panel ◽  
The Mean ◽  
Association Mapping Study ◽  
Genomic Regions

Abstract Wheat blast caused by the fungus Magnaporthe oryzae pathotype Triticum (MoT) is an emerging threat to wheat production. To identify genomic regions associated with blast resistance against MoT isolates in Bolivia and Bangladesh, we performed a large genome-wide association mapping study using 8607 observations on 1106 lines from the International Maize and Wheat Improvement Centre’s International Bread Wheat Screening Nurseries (IBWSNs) and Semi-Arid Wheat Screening Nurseries (SAWSNs). We identified 36 significant markers on chromosomes 2AS, 3BL, 4AL and 7BL with consistent effects across panels or site-years, including 20 markers that were significant in all the 49 datasets and tagged the 2NS translocation from Aegilops ventricosa. The mean blast index of lines with and without the 2NS translocation was 2.7 ± 4.5 and 53.3 ± 15.9, respectively, that substantiates its strong effect on blast resistance. Furthermore, we fingerprinted a large panel of 4143 lines for the 2NS translocation that provided excellent insights into its frequency over years and indicated its presence in 94.1 and 93.7% of lines in the 2019 IBWSN and SAWSN, respectively. Overall, this study reinforces the effectiveness of the 2NS translocation for blast resistance and emphasizes the urgent need to identify novel non-2NS sources of blast resistance.

Genome-wide association mapping of genomic regions associated with phenotypic traits in Canadian western spring wheat

2017 ◽  
Vol 37 (11) ◽  
Author(s):  
Hua Chen ◽  
Kassa Semagn ◽  
Muhammad Iqbal ◽  
Neshat Pazooki Moakhar ◽  
Teketel Haile ◽  
...  
Keyword(s):  
Association Mapping ◽  
Spring Wheat ◽  
Genome Wide Association ◽  
Phenotypic Traits ◽  
Genome Wide ◽  
Genomic Regions

scholarly journals Genome-wide association study (GWAS) for morphological and yield-related traits in an oil palm hybrid (Elaeis oleifera x Elaeis guineensis) population

2019 ◽  
Author(s):  
Jaime Osorio ◽  
Gina Garzón ◽  
Paola Delgadillo ◽  
Silvio Bastidas ◽  
Leidy Moreno ◽  
...  
Keyword(s):  
Association Mapping ◽  
Candidate Genes ◽  
Oil Palm ◽  
Plant Architecture ◽  
Elaeis Guineensis ◽  
Genotyping By Sequencing ◽  
Genome Wide Association ◽  
Elaeis Oleifera ◽  
Genome Wide ◽  
Genomic Regions

Abstract Background The genus Elaeis has two species of economic importance for the oil palm agroindustry: Elaeis oleifera (O), native to the Americas, and Elaeis guineensis (G), native to Africa. This work provides to our knowledge, the first association mapping study in an interspecific OxG oil palm population, which shows tolerance to pests and diseases, high oil quality, and acceptable fruit bunch production. Results Using genotyping-by-sequencing (GBS), we identified a total of 3,776 single nucleotide polymorphisms (SNPs) that were used to perform a genome-wide association analysis (GWAS) in 378 OxG hybrid population for 10 agronomic traits. Twelve genomic regions (SNPs) were located near candidate genes implicated in multiple functional categories, such as tissue growth, cellular trafficking, and physiological processes. Conclusions We provide new insights on genomic regions that mapped on candidate genes involved in plant architecture and yield. These potential candidate genes need to be confirmed for future targeted functional analyses. Associated markers to the traits of interest may be valuable resources for the development of marker-assisted selection in oil palm breeding. Keywords: Association mapping, Elaeis guineensis , Elaeis oleifera , genotyping-by-sequencing, plant architecture, yield.

scholarly journals Genomic Regions Associated with Virulence in Pyrenophora teres f. teres Identified by Genome-Wide Association Analysis and Biparental Mapping

2020 ◽  
Vol 110 (4) ◽  
pp. 881-891 ◽  
Author(s):  
Anke Martin ◽  
Paula Moolhuijzen ◽  
Yongfu Tao ◽  
Judy McIlroy ◽  
Simon R. Ellwood ◽  
...  
Keyword(s):  
Association Mapping ◽  
Population Level ◽  
Genome Wide Association ◽  
Pyrenophora Teres ◽  
Barley Cultivars ◽  
Genome Wide ◽  
A Genome ◽  
Sexual Recombination ◽  
Parastagonospora Nodorum ◽  
Genomic Regions

Net form net blotch (NFNB), caused by the fungal pathogen Pyrenophora teres f. teres, is an important foliar disease present in all barley-producing regions of the world. This fungus is a hemibiotrophic and heterothallic ascomycete, where sexual recombination can lead to changes in disease expression in the host. Knowledge of the genetic architecture and genes involved in virulence is vital to increase the durability of NFNB resistance in barley cultivars. We used a genome-wide association mapping approach to characterize P. teres f. teres genomic regions associated with virulence in Australian barley cultivars. One hundred eighty-eight P. teres f. teres isolates collected across five Australian states were genotyped using Diversity Arrays Technology sequence markers and phenotyped across 20 different barley genotypes. Association mapping identified 14 different genomic regions associated with virulence, with the majority located on P. teres f. teres chromosomes 3 and 5 and one each present on chromosomes 1, 6, and 9. Four of the regions identified were confirmed by quantitative trait loci (QTL) mapping. The QTL regions are discussed in the context of their genomic architecture together with examination of their gene contents, which identified 20 predicted effectors. The number of QTL shown in this study at the population level clearly illustrates a complex genetic basis of P. teres f. teres virulence compared with pure necrotrophs, such as the wheat pathogens Parastagonospora nodorum and Parastagonospora tritici-repentis.

Genome-wide association analyses of common wheat (Triticum aestivum L.) germplasm identifies multiple loci for aluminium resistanceThis article is one of a selection of papers from the conference “Exploiting Genome-wide Association in Oilseed Brassicas: a model for genetic improvement of major OECD crops for sustainable farming”

Genome ◽  
2010 ◽  
Vol 53 (11) ◽  
pp. 957-966 ◽  
Author(s):  
Harsh Raman ◽  
Benjamin Stodart ◽  
Peter R. Ryan ◽  
Emmanuel Delhaize ◽  
Livinus Emebiri ◽  
...  
Keyword(s):  
Triticum Aestivum ◽  
Association Mapping ◽  
Common Wheat ◽  
Acid Soils ◽  
Triticum Aestivum L ◽  
Genome Wide Association ◽  
Phenotypic Variance ◽  
Association Analyses ◽  
Genome Wide ◽  
Genomic Regions

Aluminium (Al3+) toxicity restricts productivity and profitability of wheat ( Triticum aestivum L.) crops grown on acid soils worldwide. Continued gains will be obtained by identifying superior alleles and novel Al3+ resistance loci that can be incorporated into breeding programs. We used association mapping to identify genomic regions associated with Al3+ resistance using 1055 accessions of common wheat from different geographic regions of the world and 178 polymorphic diversity arrays technology (DArT) markers. Bayesian analyses based on genetic distance matrices classified these accessions into 12 subgroups. Genome-wide association analyses detected markers that were significantly associated with Al3+ resistance on chromosomes 1A, 1B, 2A, 2B, 2D, 3A, 3B, 4A, 4B, 4D, 5B, 6A, 6B, 7A, and 7B. Some of these genomic regions correspond to previously identified loci for Al3+ resistance, whereas others appear to be novel. Among the markers targeting TaALMT1 (the major Al3+-resistance gene located on chromosome 4D), those that detected alleles in the promoter explained most of the phenotypic variance for Al3+ resistance, which is consistent with this region controlling the level of TaALMT1 expression. These results demonstrate that genome-wide association mapping cannot only confirm known Al3+-resistance loci, such as those on chromsomes 4D and 4B, but they also highlight the utility of this technique in identifying novel resistance loci.

scholarly journals Tolerance to mild salinity stress in japonica rice: A genome-wide association mapping study highlights calcium signaling and metabolism genes

PLoS ONE ◽  
2018 ◽  
Vol 13 (1) ◽  
pp. e0190964 ◽  
Author(s):  
Julien Frouin ◽  
Antoine Languillaume ◽  
Justine Mas ◽  
Delphine Mieulet ◽  
Arnaud Boisnard ◽  
...  
Keyword(s):  
Association Mapping ◽  
Calcium Signaling ◽  
Salinity Stress ◽  
Genome Wide Association ◽  
Japonica Rice ◽  
Mapping Study ◽  
Genome Wide ◽  
A Genome ◽  
Association Mapping Study

scholarly journals Genome-wide association mapping for seed protein and oil contents using a large panel of soybean accessions

Genomics ◽  
2019 ◽  
Vol 111 (1) ◽  
pp. 90-95 ◽  
Author(s):  
Dongmei Li ◽  
Xue Zhao ◽  
Yingpeng Han ◽  
Wenbin Li ◽  
Futi Xie
Keyword(s):  
Association Mapping ◽  
Seed Protein ◽  
Genome Wide Association ◽  
Genome Wide ◽  
Large Panel

Genome-wide association mapping for key seed metabolites using a large panel of natural and derived forms of Brassica rapa L.

2021 ◽  
Vol 159 ◽  
pp. 113073
Author(s):  
Snehdeep Kaur ◽  
Javed Akhatar ◽  
Harjeevan Kaur ◽  
Chhaya Atri ◽  
Meenakshi Mittal ◽  
...  
Keyword(s):  
Association Mapping ◽  
Brassica Rapa ◽  
Genome Wide Association ◽  
Genome Wide ◽  
Large Panel

scholarly journals Genome wide association study (GWAS) for morphological and yield-related traits in oil palm hybrids (Elaeis oleifera x Elaeis guineensis)

2019 ◽  
Author(s):  
Jaime Osorio ◽  
Gina Garzón ◽  
Paola Delgadillo ◽  
Silvio Bastidas ◽  
Leidy Moreno ◽  
...  
Keyword(s):  
Association Mapping ◽  
Candidate Genes ◽  
Oil Palm ◽  
Plant Architecture ◽  
Elaeis Guineensis ◽  
Genotyping By Sequencing ◽  
Genome Wide Association ◽  
Elaeis Oleifera ◽  
Genome Wide ◽  
Genomic Regions

Abstract Abstract Background The genus Elaeis has two species of economic importance for the oil palm agroindustry: Elaeis oleifera (O), native to the Americas, and Elaeis guineensis (G), native to Africa. The work presented herein provides, to our knowledge, the first association mapping study in an interspecific OxG hybrid population of oil palm which presents tolerance to pests and diseases, high oil quality, and acceptable fruit bunch production. Results Using genotyping-by-sequencing (GBS), we identified a total of 3,776 single nucleotide polymorphisms (SNPs) that were used to perform a genome-wide association analysis (GWAS) in 378 OxG hybrids for 10 agronomic traits. Twelve genomic regions were located near candidate genes implicated in multiple functional categories, such as tissue growth, cellular trafficking, and physiological processes. Conclusions We provide new insights on candidate genes that mapped on genomic regions involved in plant architecture and yield; however, these potential candidate genes need to be confirmed for future targeted functional analysis. The associated markers may be valuable resources for the development of marker-assisted selection in oil palm breeding. Keywords: Association mapping, Elaeis guineensis, Elaeis oleifera, genotyping-by-sequencing, plant architecture, yield.

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