scholarly journals Genome wide association study reveals novel QTL for barley yellow dwarf virus resistance in wheat

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Shormin Choudhury ◽  
Philip Larkin ◽  
Rugen Xu ◽  
Matthew Hayden ◽  
Kerrie Forrest ◽  
...  
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Barley Yellow Dwarf Virus ◽  
Yellow Dwarf ◽  
Genome Wide Association ◽  
Sources Of Resistance ◽  
Favorable Alleles ◽  
Barley Yellow Dwarf ◽  
Genome Wide ◽  
Yellow Dwarf Virus

Abstract Background Barley yellow dwarf (BYD) is an important virus disease that causes significant reductions in wheat yield. For effective control of Barley yellow dwarf virus through breeding, the identification of genetic sources of resistance is key to success. In this study, 335 geographically diverse wheat accessions genotyped using an Illumina iSelect 90 K single nucleotide polymorphisms (SNPs) bead chip array were used to identify new sources of resistance to BYD in different environments. Results A genome-wide association study (GWAS) performed using all the generalised and mixed linkage models (GLM and MLM, respectively) identified a total of 36 significant marker-trait associations, four of which were consistently detected in the K model. These four novel quantitative trait loci (QTL) were identified on chromosomes 2A, 2B, 6A and 7A and associated with markers IWA3520, IWB24938, WB69770 and IWB57703, respectively. These four QTL showed an additive effect with the average visual symptom score of the lines containing resistance alleles of all four QTL being much lower than those with less favorable alleles. Several Chinese landraces, such as H-205 (Baimazha) and H-014 (Dahongmai) which have all four favorable alleles, showed consistently higher resistance in different field trials. None of them contained the previously described Bdv2, Bdv3 or Bdv4 genes for BYD resistance. Conclusions This study identified multiple novel QTL for BYD resistance and some resistant wheat genotypes. These will be useful for breeders to generate combinations with and/or without Bdv2 to achieve higher levels and more stable BYD resistance.

scholarly journals Genome-Wide Association Mapping of Barley Yellow Dwarf Virus Tolerance in Spring Oat (Avena sativa L.)

PLoS ONE ◽  
2016 ◽  
Vol 11 (5) ◽  
pp. e0155376 ◽  
Author(s):  
Bradley J. Foresman ◽  
Rebekah E. Oliver ◽  
Eric W. Jackson ◽  
Shiaoman Chao ◽  
Marcio P. Arruda ◽  
...  
Keyword(s):  
Association Mapping ◽  
Avena Sativa ◽  
Barley Yellow Dwarf Virus ◽  
Yellow Dwarf ◽  
Genome Wide Association ◽  
Dwarf Virus ◽  
Barley Yellow Dwarf ◽  
Genome Wide ◽  
Virus Tolerance ◽  
Yellow Dwarf Virus

Novel germplasm providing resistance to barley yellow dwarf virus in wheat

2001 ◽  
Vol 52 (12) ◽  
pp. 1375 ◽  
Author(s):  
M. G. Francki ◽  
M. G. Francki ◽  
H. W. Ohm ◽  
H. W. Ohm ◽  
J. M. Anderson ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Barley Yellow Dwarf Virus ◽  
Yellow Dwarf ◽  
Sources Of Resistance ◽  
Suitable Material ◽  
Wheat Germplasm ◽  
Germplasm Collections ◽  
Barley Yellow Dwarf ◽  
Yellow Dwarf Virus ◽  
Wheat Lines

The lack of suitable genes in existing wheat germplasm collections makes breeding for specific traits a difficult task. Although tolerance to barley yellow dwarf viruses (BYDV) has been reported in wheat accessions, there are no suitable levels of resistance to BYDV, so genes are sought from wild relatives. The ability for Thinopyrum species to inhibit replication of BYDV makes them attractive sources of resistance for germplasm development. Breeding programs are exploiting Thinopyrum species to develop wheat germplasm resistant to BYDV. The transfer of genes from Thinopyrum into wheat by wide crossing and selecting progeny using molecular markers identified suitable material to some strains of BYDV. The implementation of molecular marker technology has been useful for rapid selection of wheat lines with resistance to some strains of BYDV in a breeding program. However, it is now clear that Thinopyrum species contain a number of resistance genes on different genomes and homoeologous chromosomes. In order to achieve broad-spectrum resistance to the various serotypes of the BYDV complex it will be best to combine a number of these genes. Research efforts are now focussed on introgressing other genes from Thinopyrum into wheat that provide resistance to several additional strains of BYDV. Molecular markers will play an important role during selection in pyramiding genes to develop wheat germplasm with broadspectrum BYDV resistance.

scholarly journals Genome-Wide Association Study of the Genetic Basis of Effective Tiller Number in Rice

Rice ◽  
2021 ◽  
Vol 14 (1) ◽  
Author(s):  
Mengmeng Ren ◽  
Minghan Huang ◽  
Haiyang Qiu ◽  
Yan Chun ◽  
Lu Li ◽  
...  
Keyword(s):  
Grain Yield ◽  
Association Study ◽  
Candidate Genes ◽  
Genome Wide Association Study ◽  
Positive Association ◽  
Tiller Number ◽  
Genome Wide Association ◽  
Favorable Alleles ◽  
Genome Wide ◽  
A Genome

Abstract Background Effective tiller number (ETN) has a pivotal role in determination of rice (Oryza sativa L.) grain yield. ETN is a complex quantitative trait regulated by both genetic and environmental factors. Despite multiple tillering-related genes have been cloned previously, few of them have been utilized in practical breeding programs. Results In this study, we conducted a genome-wide association study (GWAS) for ETN using a panel of 490 rice accessions derived from the 3 K rice genomes project. Thirty eight ETN-associated QTLs were identified, interestingly, four of which colocalized with the OsAAP1, DWL2, NAL1, and OsWRKY74 gene previously reported to be involved in rice tillering regulation. Haplotype (Hap) analysis revealed that Hap5 of OsAAP1, Hap3 and 6 of DWL2, Hap2 of NAL1, and Hap3 and 4 of OsWRKY74 are favorable alleles for ETN. Pyramiding favorable alleles of all these four genes had more enhancement in ETN than accessions harboring the favorable allele of only one gene. Moreover, we identified 25 novel candidate genes which might also affect ETN, and the positive association between expression levels of the OsPILS6b gene and ETN was validated by RT-qPCR. Furthermore, transcriptome analysis on data released on public database revealed that most ETN-associated genes showed a relatively high expression from 21 days after transplanting (DAT) to 49 DAT and decreased since then. This unique expression pattern of ETN-associated genes may contribute to the transition from vegetative to reproductive growth of tillers. Conclusions Our results revealed that GWAS is a feasible way to mine ETN-associated genes. The candidate genes and favorable alleles identified in this study have the potential application value in rice molecular breeding for high ETN and grain yield.

Genome wide association study on memory in schizophrenia patients and unaffected probands

2009 ◽  
Vol 42 (05) ◽  
Author(s):  
B Konte ◽  
I Giegling ◽  
AM Hartmann ◽  
H Konnerth ◽  
P Muglia ◽  
...  
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
Genome Wide
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