scholarly journals High resolution mapping and candidate gene identification of downy mildew race 16 resistance in spinach

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Gehendra Bhattarai ◽  
Wei Yang ◽  
Ainong Shi ◽  
Chunda Feng ◽  
Braham Dhillon ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Downy Mildew ◽  
Association Analysis ◽  
Spinacia Oleracea ◽  
Genotyping By Sequencing ◽  
Significant Snps ◽  
Snp Markers ◽  
Resistance Locus ◽  
Downy Mildew Resistance ◽  
Mildew Resistance

Abstract Background Downy mildew, the most devastating disease of spinach (Spinacia oleracea L.), is caused by the oomycete Peronospora effusa [=P. farinosa f. sp. spinaciae]. The P. effusa shows race specificities to the resistant host and comprises 19 reported races and many novel isolates. Sixteen new P. effusa races were identified during the past three decades, and the new pathogen races are continually overcoming the genetic resistances used in commercial cultivars. A spinach breeding population derived from the cross between cultivars Whale and Lazio was inoculated with P. effusa race 16 in an environment-controlled facility; disease response was recorded and genotyped using genotyping by sequencing (GBS). The main objective of this study was to identify resistance-associated single nucleotide polymorphism (SNP) markers from the cultivar Whale against the P. effusa race 16. Results Association analysis conducted using GBS markers identified six significant SNPs (S3_658,306, S3_692697, S3_1050601, S3_1227787, S3_1227802, S3_1231197). The downy mildew resistance locus from cultivar Whale was mapped to a 0.57 Mb region on chromosome 3, including four disease resistance candidate genes (Spo12736, Spo12784, Spo12908, and Spo12821) within 2.69–11.28 Kb of the peak SNP. Conclusions Genomewide association analysis approach was used to map the P. effusa race 16 resistance loci and identify associated SNP markers and the candidate genes. The results from this study could be valuable in understanding the genetic basis of downy mildew resistance, and the SNP marker will be useful in spinach breeding to select resistant lines.

scholarly journals A Novel Grape Downy Mildew Resistance Locus from Vitis rupestris

2020 ◽  
Vol 72 (1) ◽  
pp. 12-20
Author(s):  
Gaurab Bhattarai ◽  
Anne Fennell ◽  
Jason P. Londo ◽  
Courtney Coleman ◽  
Laszlo G. Kovacs
Keyword(s):  
Downy Mildew ◽  
Resistance Locus ◽  
Downy Mildew Resistance ◽  
Mildew Resistance ◽  
Vitis Rupestris ◽  
Grape Downy Mildew

QTLs and candidate genes for downy mildew resistance conferred by interspecific grape (V. vinifera L. × V. amurensis Rupr.) crossing

2019 ◽  
Vol 244 ◽  
pp. 200-207 ◽  
Author(s):  
Hong Lin ◽  
Huan Leng ◽  
Yinshan Guo ◽  
Satoru Kondo ◽  
Yuhui Zhao ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Downy Mildew ◽  
Downy Mildew Resistance ◽  
Mildew Resistance

scholarly journals Genetic diversity and association analysis of leafminer (Liriomyza langei) resistance in spinach (Spinacia oleracea)

Genome ◽  
2016 ◽  
Vol 59 (8) ◽  
pp. 581-588 ◽  
Author(s):  
Ainong Shi ◽  
Beiquan Mou
Keyword(s):  
Association Analysis ◽  
Spinacia Oleracea ◽  
Insect Pest ◽  
Genetic Resistance ◽  
Genotyping By Sequencing ◽  
Complex Trait ◽  
Snp Markers ◽  
Minor Effect ◽  
Single Nucleotide ◽  
Wide Range

Leafminer (Liriomyza langei) is a major insect pest of many important agricultural crops, including spinach (Spinacia oleracea). Use of genetic resistance is an efficient, economic, and environment-friendly method to control this pest. The objective of this research was to conduct association analysis and identify single nucleotide polymorphism (SNP) markers associated with leafminer resistance in spinach germplasm. A total of 300 USDA spinach germplasm accessions were used for the association analysis of leafminer resistance. Genotyping by sequencing (GBS) was used for genotyping and 783 SNPs from GBS were used for association analysis. The leafminer resistance showed a near normal distribution with a wide range from 1.1 to 11.7 stings per square centimeter leaf area, suggesting that the leafminer resistance in spinach is a complex trait controlled by multiple genes with minor effect in this spinach panel. Association analysis indicated that five SNP markers, AYZV02040968_7171, AYZV02076752_412, AYZV02098618_4615, AYZV02147304_383, and AYZV02271373_398, were associated with the leafminer resistance with LOD 2.5 or higher. The SNP markers may be useful for breeders to select plants and lines for leafminer resistance in spinach breeding programs through marker-assisted selection.

The downy mildew resistance locus Pp523 is located on chromosome C8 of Brassica oleracea L.

2011 ◽  
Vol 131 (1) ◽  
pp. 170-175 ◽  
Author(s):  
Jorge D. Carlier ◽  
Claudia A. Alabaça ◽  
Paula S. Coelho ◽  
António A. Monteiro ◽  
José M. Leitão
Keyword(s):  
Brassica Oleracea ◽  
Downy Mildew ◽  
Resistance Locus ◽  
Downy Mildew Resistance ◽  
Mildew Resistance ◽  
Brassica Oleracea L

scholarly journals Structural and molecular characterization of the Rpv3 locus towards the development of KASP markers for downy mildew resistance in grapevine (Vitis spp.)

2021 ◽  
Author(s):  
Andriele Wairich ◽  
Jaiana Malabarba ◽  
Vanessa Buffon ◽  
Diogo Denardi Porto ◽  
Roberto Togawa ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Downy Mildew ◽  
Plasmopara Viticola ◽  
Functional Enrichment ◽  
Downy Mildew Resistance ◽  
Differential Analysis ◽  
Mildew Resistance ◽  
Grapevine Cultivar ◽  
Genomic Characterization

AbstractPlasmopara viticola is the oomycete that causes downy mildew in grapevine. Varying levels of resistance to P. viticola across grape cultivars allowed quantitative trait loci to be identified. The Rpv3 locus is located at chromosome 18, in a region enriched in TIR-NBS-LRR genes, and the phenotype associated is a high hypersensitive response. In this work, we aimed to identify candidate genes associated with resistance to downy mildew on the Rpv3 locus and to evaluate their transcriptional profiles in a susceptible and a resistant grapevine cultivar after challenging with P. viticola. Candidate genes were identified by representational differential analysis and also by functional enrichment tests. Many predicted genes associated with resistance to diseases were found at the Rpv3 locus. In total, seventeen genes were evaluated by RT-qPCR. Differences in the steady-state expression of these genes were observed between the two cultivars. Four genes were found to be expressed only in Villard Blanc, suggesting their association to the hypersensitivity reaction. Concerning marker assisted-selection for downy mildew resistance, we show the efficient use of a haplotype of SSR markers. Furthermore, based on Rpv3-located SNPs between grapevine cultivars contrasting in downy mildew resistance, we developed and tested forty-one new markers for assisted selection. After genotypic and phenotypic evaluations on segregant populations, two markers, Rpv3_15 and Rpv3_33, were considered efficient for downy mildew resistance identification. This study constitutes an in-depth genomic characterization of the Rpv3 locus, confirms its involvement in resistance against P. viticola infection and presents promising biotechnological tools for the selection of young resistant individuals.

scholarly journals Development of Sequence Characterized Amplified Region Markers Linked to Downy Mildew Resistance in Broccoli

2002 ◽  
Vol 127 (4) ◽  
pp. 597-601 ◽  
Author(s):  
Janel L. Giovannelli ◽  
Mark W. Farnham ◽  
Min Wang ◽  
Allan E. Strand
Keyword(s):  
Downy Mildew ◽  
Genetic Markers ◽  
Resistance Genes ◽  
Rapd Markers ◽  
Dominant Gene ◽  
Screening Tools ◽  
Resistance Locus ◽  
Downy Mildew Resistance ◽  
Scar Markers ◽  
Mildew Resistance

Downy mildew, caused by the fungal parasite Peronospora parasitica (Pers.: Fr.) Fr., is a destructive disease of Brassica oleracea L. crops, including broccoli (B. oleracea, Italica Group). The development and deployment of downy mildew resistant broccoli cultivars is a priority for breeders and producers. Identification of genetic markers linked to downy mildew resistance genes should facilitate selection for resistance and pyramiding of resistance genes into cultivars. The objectives of this study were to 1) identify RAPD markers linked to a single dominant gene for resistance in broccoli, 2) clone and sequence the linked RAPD markers, and 3) develop and evaluate SCAR markers as screening tools for resistance. Bulked segregant analysis led to the identification of eight linked RAPD markers following a screen of 848 decamers. Two of the linked RAPD fragments, UBC359620 and OPM16750, were converted to dominant SCAR markers linked in coupling to the resistance locus at 6.7 and 3.3 cM, respectively. The SCAR marker based on UBC359620 sequence exhibited less accuracy (94%) than the original RAPD (96%) in differentiating resistant and susceptible plants, but the accuracy (97%) of the OPM16750-SCAR was not different than the original RAPD. These SCAR markers are among the first genetic markers found linked to a gene conferring cotyledon-stage downy mildew resistance in B. oleracea. Results of this work provide breeders with useful information and tools for the systematic development of resistant cultivars.

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