scholarly journals Genotyping by Sequencing-Based Discovery of SNP Markers and Construction of Linkage Map from F5 Population of Pepper with Contrasting Powdery Mildew Resistance Trait

2021 ◽  
Vol 2021 ◽  
pp. 1-8
Author(s):  
Abinaya Manivannan ◽  
Sena Choi ◽  
Tae-Hwan Jun ◽  
Eun-Young Yang ◽  
Jin-Hee Kim ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Linkage Map ◽  
Powdery Mildew Resistance ◽  
Genotyping By Sequencing ◽  
Snp Markers ◽  
Read Mapping ◽  
Single Nucleotide ◽  
Mildew Resistance ◽  
Polymorphic Snps ◽  
Resistance Trait

Powdery mildew (PM) is a common fungal disease infecting pepper plants worldwide. Molecular breeding of pepper cultivars with powdery mildew resistance is desirable for the economic improvement of pepper cultivation. In the present study, 188 F5 population derived from AR1 (PM resistant) and TF68 (PM sensitive) parents were subjected to high-throughput genotyping by sequencing (GBS) for the identification of single nucleotide polymorphism (SNP) markers. Further, the identified SNP markers were utilized for the construction of genetic linkage map and QTL analysis. Overall read mapping percentage of 87.29% was achieved in this study with the total length of mapped region ranging from 2,956,730 to 25,537,525 bp. A total of 41,111 polymorphic SNPs were identified, and a final of 1,841 SNPs were filtered for the construction of a linkage map. A total of 12 linkage groups were constructed corresponding to each chromosome with 1,308 SNP markers with the map length of 2506.8 cM. Further, two QTLs such as Pm-2.1 and Pm-5.1 were identified in chromosomes 2 and 5, respectively, for the PM resistance. Overall, the outcomes of the present endeavor can be utilized for the marker-assisted selection of pepper with powdery mildew-resistant trait.

scholarly journals Mapping Powdery Mildew Resistance Gene pmYBL on Chromosome 7B of Chinese Wheat (Triticum aestivum L.) Landrace Youbailan

Plant Disease ◽  
2020 ◽  
Vol 104 (9) ◽  
pp. 2411-2417
Author(s):  
Xiaodan Xu ◽  
Wei Liu ◽  
Zhiyong Liu ◽  
Jieru Fan ◽  
Yilin Zhou
Keyword(s):  
Powdery Mildew ◽  
Powdery Mildew Resistance ◽  
Recessive Gene ◽  
Triticum Aestivum L ◽  
Genetic Distances ◽  
Genomic Region ◽  
Snp Markers ◽  
Single Nucleotide ◽  
Mildew Resistance ◽  
Chinese Wheat

Chinese wheat landrace Youbailan has excellent resistance to powdery mildew caused by Blumeria graminis f. sp. tritici. In the present study, genetic analysis indicated that a recessive gene, tentatively designated pmYBL, was responsible for the powdery mildew resistance of Youbailan. pmYBL was located in the 695-to-715-Mb genomic region of chromosome 7BL, with 19 gene-linked single-nucleotide polymorphism (SNP) markers. It was flanked by SNP1-12 and SNP1-2 with genetic distances of 0.6 and 1.8 centimorgans, respectively. The disease reaction patterns of Youbailan and four cultivars (lines) carrying the powdery mildew (Pm) genes located on chromosome arm 7BL indicated that pmYBL may be allelic or closely linked to these genes. All of the SNP markers linked to pmYBL were diagnostic, indicating that these markers will be useful for pyramiding pmYBL using marker-assisted selection.

scholarly journals Genetic Mapping of Powdery Mildew Resistance Genes in Wheat Landrace ‘Guizi 1’ Using Genotyping-By-Sequencing

2021 ◽  
Author(s):  
Luhua Li ◽  
Xicui Yang ◽  
Zhongni Wang ◽  
Mingjian Ren ◽  
Chang An ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Resistance Genes ◽  
Quantitative Trait ◽  
Powdery Mildew Resistance ◽  
Dominant Gene ◽  
Genotyping By Sequencing ◽  
Snp Markers ◽  
Phenotypic Variance ◽  
Nucleotide Polymorphisms ◽  
Mildew Resistance

Abstract Wheat powdery mildew (Pm), caused by Blumeria graminis f. sp. tritici (Bgt), is a destructive disease of wheat (Triticum aestivum L.) worldwide that causes severe yield losses. Resistant wheat cultivars easily lose effective resistance against newly emerged Bgt strains; therefore, identifying new resistance genes is necessary for breeding resistant cultivars. ‘Guizi 1’ is a Chinese wheat cultivar with effective moderate and stable resistance against powdery mildew. A genetic analysis indicated that powdery mildew resistance in ‘Guizi 1’ was controlled by a single dominant gene, designated PmGZ1. In total, 110 F2 individual plants and the 2 parents were used for genotyping-by-sequencing, which produced 23,134 high-quality single-nucleotide polymorphisms (SNPs). The SNP distributions on the 21 chromosomes ranged from 134 on chromosome 6D to 6,288 on chromosome 3B. Chromosome 6A has 1,866 SNPs, among which 16 are located in a physical region between positions 307,802,221 and 309,885,836 in an approximate 2.3-cM region, which possessed the greatest SNP density. The average map distance between SNP markers was 0.1 cM. A quantitative trait locus with a significant epistatic effect on powdery mildew resistance was mapped to Chromosome 6A. The LOD value of PmGZ1 reached 34.8, and PmGZ1 was located within the confidence interval marked by chr6a-307802221 and chr6a-309885836. The phenotypic variance explained by PmGZ1 was 74.7%. Four candidate genes (two each encoding TaAP2-A and actin proteins) were annotated as resistance genes. The present results provide valuable information for wheat genetic improvement, quantitative trait loci fine mapping, and candidate gene validation.

Characterization of PmDGM conferring powdery mildew resistance in Chinese wheat landrace Duanganmang

Plant Disease ◽  
2021 ◽  
Author(s):  
Yanan Wu ◽  
Xiaoting Yu ◽  
Xu Zhang ◽  
Lijuan Yan ◽  
Li Gao ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Powdery Mildew Resistance ◽  
Single Nucleotide Polymorphism Array ◽  
Single Nucleotide ◽  
Mildew Resistance ◽  
Wheat Landrace ◽  
Yield And Quality ◽  
Genome Homology ◽  
Chinese Wheat

Wheat powdery mildew, caused by Blumeria graminis f. sp. tritici (Bgt), is a devastating disease threatening yield and quality. Host resistance is considered the most effective and preferred means to control this disease. Wheat landrace Duanganmang (DGM) showed high resistance or near immunity to Bgt mixture from Henan province, China. DGM was crossed with highly susceptible Chinese wheat landrace Huixianhong (HXH) and cultivar Shimai 15 (SM15) to produce genetic populations. The resistance of DGM to Bgt isolate E09 was shown to be controlled by a single dominant Mendelian factor, tentatively designated PmDGM. Marker analysis and 55K SNP (single nucleotide polymorphism) array scanning showed that this gene was positioned in the Pm5 interval (2.4 cM or 1.61 Mb) flanked by Xhenu099 and Xmp1158 in the Chinese Spring reference genome. Homology-based cloning and sequence analysis demonstrated that DGM has the identical NLR gene (Pm5e) and RXL gene reported in Fuzhuang 30 (FZ30) conferring and modifying the powdery mildew resistance, respectively. However, based on the different reaction patterns to the Bgt isolate B15 between DGM and FZ30, we speculate that DGM may have two tightly linked genes that could not be separated in the current mapping population, one is PmDGM and the other is Pm5e. Hence, this study provides a valuable resistance resource for improvement of powdery mildew resistance.

scholarly journals Molecular Mapping of a Recessive Powdery Mildew Resistance Gene in Wheat Cultivar Tian Xuan 45 Using Bulked Segregant Analysis with Polymorphic Single Nucleotide Polymorphism Relative Ratio Distribution

2019 ◽  
Vol 109 (5) ◽  
pp. 828-838 ◽  
Author(s):  
Kaixiang Chao ◽  
Wenwen Su ◽  
Lei Wu ◽  
Bei Su ◽  
Qiang Li ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Powdery Mildew Resistance ◽  
Molecular Mapping ◽  
Wheat Cultivar ◽  
Bulked Segregant Analysis ◽  
Recessive Gene ◽  
Wheat Cultivars ◽  
Ratio Distribution ◽  
Single Nucleotide ◽  
Mildew Resistance

Powdery mildew is a destructive foliar disease of wheat worldwide. Wheat cultivar Tian Xuan 45 exhibits resistance to the highly virulent isolate HY5. Genetic analysis of the F2 and F2:3 populations of a cultivar Ming Xian 169/Tian Xuan 45 cross revealed that the resistance to HY5 was controlled by a single recessive gene, temporarily designated as PmTx45. A Manhattan plot with the relative frequency distribution of single nucleotide polymorphisms (SNPs) was used to rapidly narrow down the possible chromosomal regions of the associated genes. This microarray-based bulked segregant analysis (BSA) largely improved traditional analytical methods. PmTx45 was located in chromosomal bin 4BL5-0.86-1.00 and was flanked by SNP marker AX-110673642 and intron length polymorphism (ILP) marker ILP-4B01G269900 with genetic distances of 3.0 and 2.6 cM, respectively. Molecular detection in a panel of wheat cultivars using the markers linked to PmTx45 showed that the presence of PmTx45 in commercial wheat cultivars was rare. Resistance spectrum and chromosomal position analyses indicated that PmTx45 may be a novel recessive gene with moderate powdery mildew resistance. This new microarray-based BSA method is feasible and effective and has the potential application for mapping genes in wheat in marker-assisted breeding.

scholarly journals RMo1 Confers Blast Resistance in Barley and Is Located within the Complex of Resistance Genes Containing Mla, a Powdery Mildew Resistance Gene

2006 ◽  
Vol 19 (9) ◽  
pp. 1034-1041 ◽  
Author(s):  
Tsuyoshi Inukai ◽  
M. Isabel Vales ◽  
Kiyosumi Hori ◽  
Kazuhiro Sato ◽  
Patrick M. Hayes
Keyword(s):  
Powdery Mildew ◽  
Linkage Map ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Rice Blast ◽  
Powdery Mildew Resistance ◽  
Blast Disease ◽  
Grass Species ◽  
Resistance Locus ◽  
Mildew Resistance

Isolates of Magnaporthe oryzae (the causal agent of rice blast disease) can infect a range of grass species, including barley. We report that barley Hordeum vulgare cv. Baronesse and an experimental line, BCD47, show a range of resistance reactions to infection with two rice blast isolates. The complete resistance of Baronesse to the isolate Ken 54–20 is controlled by a single dominant gene, designated RMo1. RMo1 mapped to the same linkage map position on chromosome 1H as the powdery mildew resistance locus Mla and an expressed sequence tag (k04320) that corresponds to the barley gene 711N16.16. A resistance quantitative trait locus (QTL), at which Baronesse contributed the resistance allele, to the isolate Ken 53–33 also mapped at the same position as RMo1. Synteny analysis revealed that a corresponding region on rice chromosome 5 includes the bacterial blight resistance gene xa5. These results indicate that a defined region on the short arm of barley chromosome 1H, including RMo1 and Mla, harbors genes conferring qualitative and quantitative resistance to multiple pathogens. The partial resistance of BCD47 to Ken53–33 is determined by alleles at three QTL, two of which coincide with the linkage map positions of the mildew resistance genes mlo and Mlf.

scholarly journals Genomic analysis of powdery mildew resistance in a hop (Humulus lupulus L.) bi-parental population segregating for “R6-locus”

Euphytica ◽  
2019 ◽  
Vol 216 (1) ◽  
Author(s):  
Lillian K. Padgitt-Cobb ◽  
Sarah B. Kingan ◽  
John A. Henning
Keyword(s):  
Powdery Mildew ◽  
Powdery Mildew Resistance ◽  
Genomic Analysis ◽  
Snp Markers ◽  
R Genes ◽  
Phenotypic Data ◽  
Single Linkage ◽  
Mildew Resistance ◽  
Rnaseq Data ◽  
Beta Glucosidase

AbstractGenetic response in hop to fungal pathogen infection has been evaluated at the chromosomal level through QTL analyses but very little information exists on the expression of genes during infection periods. Raw GBS reads and phenotypic data from a previously published QTL analysis along with a newly assembled PacBio-derived hop reference genome were used to re-evaluate resistance to races v4/v6 of powdery mildew (PM; Podosphaera humuli). QTL analyses revealed two tightly linked regions of association on a single linkage group. The three SNP markers most tightly linked to PM resistance (found on contig 000559F) were observed downstream from a putative R-gene locus for powdery mildew resistance. This 230 kb region contained a series of seven putative R-genes surrounded by seven putative peroxidase-3 genes downstream and seven putative glucan endo-1,3-beta-glucosidase upstream and an expressed F-box domain protein. RNAseq data showed all putative R-genes along with all putative glucan endo-1,3-beta-glucosidase genes were expressed under diseased conditions, while none of the peroxidase genes were expressed. The second region contained three SNPs found on contig 002916F next to two putative R-genes. RNAseq data showed complex expression of exons contained in putative isoforms of R-genes. This preliminary information will prove valuable information for development of precise markers located either within or next to genes responsible for race v4/v6 PM resistance.

A rare single nucleotide variant in Pm5e confers powdery mildew resistance in common wheat

2020 ◽  
Vol 228 (3) ◽  
pp. 1011-1026 ◽  
Author(s):  
Jingzhong Xie ◽  
Guanghao Guo ◽  
Yong Wang ◽  
Tiezhu Hu ◽  
Lili Wang ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Common Wheat ◽  
Powdery Mildew Resistance ◽  
Single Nucleotide Variant ◽  
Single Nucleotide ◽  
Mildew Resistance

scholarly journals Lessons from a Phenotyping Center Revealed by the Genome-Guided Mapping of Powdery Mildew Resistance Loci

2016 ◽  
Vol 106 (10) ◽  
pp. 1159-1169 ◽  
Author(s):  
Lance Cadle-Davidson ◽  
David Gadoury ◽  
Jonathan Fresnedo-Ramírez ◽  
Shanshan Yang ◽  
Paola Barba ◽  
...  
Keyword(s):  
High Resolution ◽  
Powdery Mildew ◽  
Host Resistance ◽  
Powdery Mildew Resistance ◽  
Natural Infection ◽  
Genotyping By Sequencing ◽  
Developmentally Regulated ◽  
Mildew Resistance ◽  
Powdery Mildews ◽  
Trait Locus

The genomics era brought unprecedented opportunities for genetic analysis of host resistance, but it came with the challenge that accurate and reproducible phenotypes are needed so that genomic results appropriately reflect biology. Phenotyping host resistance by natural infection in the field can produce variable results due to the uncontrolled environment, uneven distribution and genetics of the pathogen, and developmentally regulated resistance among other factors. To address these challenges, we developed highly controlled, standardized methodologies for phenotyping powdery mildew resistance in the context of a phenotyping center, receiving samples of up to 140 grapevine progeny per F1 family. We applied these methodologies to F1 families segregating for REN1- or REN2-mediated resistance and validated that some but not all bioassays identified the REN1 or REN2 locus. A point-intercept method (hyphal transects) to quantify colony density objectively at 8 or 9 days postinoculation proved to be the phenotypic response most reproducibly predicted by these resistance loci. Quantitative trait locus (QTL) mapping with genotyping-by-sequencing maps defined the REN1 and REN2 loci at relatively high resolution. In the reference PN40024 genome under each QTL, nucleotide-binding site−leucine-rich repeat candidate resistance genes were identified—one gene for REN1 and two genes for REN2. The methods described here for centralized resistance phenotyping and high-resolution genetic mapping can inform strategies for breeding resistance to powdery mildews and other pathogens on diverse, highly heterozygous hosts.

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