leaf rust

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Unlocking new alleles for leaf rust resistance in the Vavilov wheat collection

Leaf rust (LR) is an important wheat disease and deployment of resistant cultivars is the most viable strategy to minimise yield losses. We evaluated a diversity panel of 295 bread wheat accessions from the N. I. Vavilov Institute of Plant Genetic Resources (VIR), St Petersburg, Russia for LR response and performed genome-wide association studies (GWAS) using 10,748 polymorphic DArT-seq markers. The diversity panel was evaluated at the seedling and adult plant growth stages using three prevalent Australian P. triticina pathotypes. GWAS applied to 11 phenotypic data sets identified a total of 52 significant marker-trait associations representing 31 quantitative trait loci (QTL). Among them, 29 QTL were associated with adult plant resistance (APR). Of the 31 QTL, 13 were considered potentially new loci, whereas 4 co-located with previously catalogued Lr genes and 14 aligned to regions reported in other GWAS and genomic prediction studies. One seedling LR resistance QTL located on chromosome 3A showed pronounced levels of linkage disequilibrium among markers (r2 = 0.7), indicative of a high allelic fixation. Subsequent haplotype analysis for this region found 7 haplotype variants, of which 2 were strongly associated with LR resistance at the seedling stage. Similarly, analysis of an APR QTL on chromosome 7B revealed 22 variants, of which 4 were associated with resistance at the adult-plant stage. Most of the lines in the diversity panel carried 10 or more combined resistance-associated marker alleles, highlighting the potential of allele stacking for long-lasting resistance.

Riaz
The University of Queensland, Queensland Alliance for Agriculture and Food Innovation (QAAFI)
Keywords: 
Co-authors: 
Naveenkumar,Athiyannan, Sambasivam, Periyannan, Olga, Afanasenko, Olga, Mitrofanova, Gregory, Platz, Elizabeth, Aitken, Rod, Snowdon, Evans, Lagudah, Lee, Hickey, Kai, Voss-Fels, , , , , , , , , ,
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Adnan

Identification of a Major and Novel QTL Conferring Resistance to Leaf Rust in Wheat

Leaf rust disease, caused by the fungal pathogen Puccinia tritcina, is the most destructive foliar disease of wheat worldwide. Gene combination of Lr37/Yr17/Sr38 has been used in Georgia (GA) to prevent the loss from leaf rust; however, with the emergence of new virulent races, these genes have lost their effectiveness. 'AGS 2000' and 'Pioneer 26R61' are the most common soft red winter wheat (SRWW) cultivars in Southeastern US, and have been used as good sources of resistance to leaf and stripe rusts, and powdery mildew. To characterize the genetic basic of resistance of AGS 2000, a mapping population of 178 recombinant inbred lines (RIL) has been developed from a cross with Pioneer 26R61. This population was genotyped using a combination of SSR, DArT, and SNP markers, and a total of 2734 markers covering the entire genome were used for the construction of genetic map. Phenotypic evaluation of parents and RIL population was conducted at the seedling stage using a virulent GA leaf rust race. QTL mapping revealed a major QTL on chromosome 2BL, explaining about 20% of total phenotypic variation in AGS 2000. Additionally, a minor QTL was also detected on chromosome 5B. QTL on 2BL was identified as a novel gene, and can be used in marker-assisted selection for leaf rust resistance.

Sapkota
University of Georgia
Keywords: 
Co-authors: 
Mohamed,Mergoum, Yuanfeng, Hao, Jerry, Johnson, Dan, Bland, James, Buck, John, Youmans, Benzamin, Lopez, Steve, Sutton, Zhenbang, Chen, , , , , , , , , , , ,
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Suraj

Genome wide association mapping of resistance to leaf rust disease in wheat

Leaf rust disease, caused by the fungal pathogen Puccinia triticina, is a major biotic constraint of wheat production worldwide. Genetic resistance is the most effective, economic, and environmentally safe method to control and reduce losses caused by this disease. More than 70 leaf rust resistance genes have been identified and mapped to specific chromosomes; however, continuous evolution of new leaf rust races requires constant search for new sources of resistance with novel QTL/genes. The objectives of this study were to identify sources of resistance, and to map genomic loci associated with leaf rust resistance using genome wide association study (GWAS) approach. Phenotypic evaluation of 297 spring wheat genotypes against a prevalent race of leaf rust in Georgia revealed that most of the genotypes were susceptible, and only 24 genotypes were found resistant. Furthermore, GWAS detected 10 markers on chromosomes 2A, 2B, 6A, 7A, and 7B significantly associated with leaf rust resistance. A marker on chromosome 7AS was identified revealing a novel genomic region associated with leaf rust resistance. The new identified sources of resistance and QTL could be used in wheat breeding programs to improve leaf rust resistance.

Mergoum
The University of Georgia (UGA)
Keywords: 
Co-authors: 
Suraj Sapkota, James Buck, Jerry Johnson, John Youmans
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Abstract Tags: 
Primary Author First Name: 
Mohamed
Author Tag: 

The complementary stripe rust resistance gene Yr73 appears to act in a complementary manner with an unidentified gene on chromos

Following the introduction of wheat stripe rust into Australia in 1979, an uncharacterized resistance (YrA) was identified in both Australian and International spring wheats. Genetic analyses of YrA indicated it was a pair of complementary genes, which were mapped to chromosomes 3DL and 5BL and designated Yr73 and Yr74, respectively. While selection Avocet 'R' carries both genes, selection Avocet 'S' carries Yr73 only. P. triticina pathotype (pt.) 104-1,2,3,(6),(7),11 +Lr37 ("104-VPM"), first detected in Australia in 2002, most likely arose via mutation from pt. 104-1,2,3,(6),(7),11 ("104"), with added virulence for Lr37. Interestingly, while both pathotypes are avirulent on Lr13, 104-VPM shows a much lower Infection Type (IT, ";1") than pt. 104 ("X++3") on several genotypes carrying Lr13 (e.g.Avocet 'R', Avocet 'S'). Other Lr13 genotypes (e.g. cv. Hereward) respond similarly to both pts ("X++3"). Genetic analyses of 4 doubled haploid (DH) populations based on intercrosses between Avocet 'R' and genotypes lacking Lr13 segregated in a 1:7 ratio to pt. 104-VPM (";1" : all other ITs). Two populations fixed for Lr13 (viz. Hereward/ Avocet 'R' and Estica/Avocet 'R') segregated 1:3 to pt. 104-VPM (";1" : all other ITs). This segregation pattern fitted a model where two complementary genes interact with Lr13 to generate the low (IT ";1") IT. Mapping of a Teal/Avocet 'R' DH population using 92 lines and 9,035 DArT-Seq markers identified three QTLs: chromosome 2BS (Lr13); chromosome 3DL (co-located with Yr73); chromosome 1DS. These results suggest that Yr73 acts in a complementary manner with a gene on chromosome 1DS to confer leaf rust resistance (IT "X"), and that these complementary genes are additive with Lr13. It appears that Yr73 is a modifier of two independent genes in wheat, one conferring resistance to stripe rust (Yr74 on chromosome 5BL), and one conferring resistance to leaf rust (LrAv on chromosome 1DS).

Park
The University of Sydney
Keywords: 
Resistance Gene Tags: 
Co-authors: 
Davinder Singh, Peter Dracatos
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Abstract Tags: 
Primary Author First Name: 
Robert
Author Tag: 

Incidence and severity of rust diseases in Novosibirsk region, Western Siberia, Russia

Stem and leaf rusts affect the winter and spring wheat in the Novosibirsk region. During 2008-2017 leaf rust incidence was generally moderate, from 20 to 40%. A leaf rust outbreak occurred in 2015 when incidence increased up to 80%. Leaf rust severity on the 'Thatcher' NILs ranged from immune or resistant to highly susceptible host response with maximum severity of 90S. Lines carrying genes Lr17, Lr18, Lr24, Lr29, Lr35, Lr37, Lr44, and LrW remained almost free of infection for the whole time of inspection. Genes Lr12, Lr13, Lr28, Lr34, and Lr38 exhibited moderate resistance but they did not provide sufficient level of resistance in favorable conditions. Since race-specific genes Lr24 and Lr29 are still effective in the neighboring Novosibirsk and Omsk regions, they might be recommended for breeding purposes in Western Siberia.
In 2016 stem rust was more prevalent and widespread in the region than ever before. Disease incidence ranged between 4.5 - 60% with high severity up to 80S in six fields from seven observed locations. The 4th ISRTN and varieties carrying Sr31 of West Siberian germplasm were assessed in field trials to monitor the virulence of the local population. There was no virulence to Sr9b, Sr9e, Sr20, Sr28, Sr29, Sr33, Sr39, Sr40, SrWld, Sr2 complex. Possible virulence to Sr6, Sr11, Sr12, Sr13, Sr17, Sr24, Sr25, Sr30, Sr31, Sr35, Sr38, Sr44, Sr57 was observed with low frequency. Entries genotyped for gene Sr31 were scored as MS and S. However, follow up race analysis work is needed to determine the actual stem rust races present and confirm the suspected possible observed virulence on Sr31.

Skolotneva
The Federal Research Center Institute of Cytology and Genetics, The Siberian Branch of the Russian Academy of Sciences
Resistance Gene Tags: 
Co-authors: 
Vyacheslav Piskarev, Irina Leonova, Ekaterina Bukatich, Elena Salina
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Ekaterina
Displayed onsite?: 
No

Genotype by sequencing for the study of population genetics in Puccinia triticina

Leaf rust, caused by Puccinia triticina Erikss. (Pt), is the most widespread wheat rust disease. Information on the virulence and genetic diversity of Pt is important for understanding the pathogen evolution, and thus effective management of wheat leaf rust. We used 20 Thatcher wheat near isogenic lines to study virulence diversity of 102 Pt isolates collected from tetraploid wheat, common wheat, and Triticale worldwide. Seven races were found among 57 isolates collected from tetraploid wheat while 21 races were observed among 40 common wheat type isolates. Four races were identified among the five isolates collected from Triticale. A subset of 30 Pt were genotyped using the Restriction-Associated DNA (RAD)-Genotype By Sequencing (GBS) adapted for the Ion Torrent sequencing platform. Phylogenetic analysis on 30 isolates using 2,125 SNP markers showed eight clusters supported by high bootstrap values. We observed higher genotypic diversity in common wheat type isolates compared to that in tetraploid wheat type isolates. Generally, there was a correlation between virulence phenotypes and SNP genotypes. Phylogeny results suggest that RAD-GBS is promising as a new technique for the study of population genetics in P. triticina.

Aoun
Department of Plant Pathology, North Dakota State University, Fargo, ND
Keywords: 
Co-authors: 
James,Kolmer, Maricelis, Acevedo, , , , , , , , , , , , , , , , , , , , , , , , , ,
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Meriem

Mapping of all-stage leaf rust resistance genes in Triticum dicoccoides derived recombinant inbred line (RIL)

Leaf rust caused by Puccinia triticina is one of the most historical and economically important wheat diseases. Breeding for new cultivars with effective gene combinations is the most promising approach for reducing losses due to leaf rust. Wild emmer wheat, Triticum dicoccoides, the progenitor of modern tetraploid and hexaploid wheats, is an important resource for new variability for disease resistance genes. An accession of T. dicoccoides acc. pau4656 showed resistance against prevailing leaf rust races in India, when tested at the seedling and adult plant stage. The introgression line, developed from the cross of the leaf rust resistant T. dicoccoides acc. pau4656 and the susceptible T. durum cultivar Bijaga yellow, was crossed with T. durum cultivar PBW114 to generate recombinant inbred lines (RIL) for mapping leaf rust resistance gene(s). RIL population was screened against highly virulent leaf rust race 77-5 at seedling stage and inheritance analyses revealed the segregation of two leaf rust resistance genes. The genes have been temporarily designated as LrD1 and LrD2. A set of 387 SSR marker was used for bulked segregant analysis (BSA). The markers showing diagnostic polymorphism in the resistant and susceptible bulks were amplified on whole of the population. Single marker analysis using MapDisto software placed LrD1 on the long arm of chromosome 6A linked to the SSR marker Xwmc256 and LrD2 on long arm of chromosome 2A close to the SSR marker Xwmc632. T. durum cv. PBW114 used in the present study was also resistant to leaf rust at the seedling stage. So one of these leaf rust resistance genes might have been contributed by the PBW114 and other by T. dicoccoides. The current study identified valuable leaf rust resistance genes for deployment in wheat breeding programme.

Elkot
School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana-141004 India
Keywords: 
Co-authors: 
Rohtas,Singh, Satinder, Kaur, Parveen, Chhuneja, , , , , , , , , , , , , , , , , , , , , , , ,
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Ahmed

Identification of resistant sources against rusts of wheat

Evaluation of candidate lines to develop resistant varieties at multiplications in Pakistan is a regular activity which has been successfully done for many years. This approach assists in generation of future resistant cultivars around appropriate genes combinations thereby providing durable resistance outputs for wheat productivity. This year, National Uniform Wheat Yield Trial (NUWYT) comprised of 60 candidate lines. Among these 15 lines were also present in the last years NUWYT. The two years data revealed that there was only one line V-12066 resistant to all three rusts during the two consecutive seasons 2015-16 and 2016-17. Four candidate lines NR-487, V-122557, PR-115 and NRL-1123 were found resistant to yellow and leaf rust during 2015-16 and 2016-17. A candidate line DN-111 was found resistant to leaf and stem rust. There were three lines NW-1-8183-8, NW-5-20-1 and MSH which were found resistant to leaf rust only during two consecutive seasons. Similarly, two candidate lines V-122559 and QS-3 were found resistant to stem rust only, while one line NR-443 was resistant to yellow rust only. The present study provide the screening and evaluation system of Pakistan for promoting and releasing the resistant wheat varieties.

Fayyaz
Crop Diseases Research Institute, National Agricultural Research Center, Park Road Islamabad, Pakistan
Co-authors: 
Anjum Munir, Khalil Ahmed Khanzad, Javed Iqbal Mirza, Shahzad Asad, Atiq ur Rehman Rattu, Muahmmad Imtiaz
Poster or Plenary?: 
Poster
BGRI Year: 
2018
geographic_area: 
Primary Author First Name: 
Muhammad
Displayed onsite?: 
No

Impact of different levels of stem, stripe and leaf rust severity on two grain yield components of wheat in Egypt

Improvement of wheat (Triticum aestivum L.) is a major goal of plant breeders and pathologists to ensure food security and self sufficiency. Relationship between different levels of stem, stripe and leaf rust severity on the two grain yield components (1000-kernel weight and plot yield) were studied during 2015/2016 and 2016/2017 seasons at Sids Agricultural Research Station. Different epiphytotic levels of stem, stripe and leaf rust were created using spreader artificial inoculation and spraying the fungicide Sumi-eight. To create different rust severity, one, two, and three sprays were applied at 7 day intervals. Protected control treatment was obtained by spraying the fungicide four times. Correlation coefficient (R<sup>2</sup>) analysis depicted that positive correlation was found between different rust severity levels and yield loss. In 2015/2016 growing season, which stem rust started early, disease severity (%) reached its relatively high percentage (80%) with the highest loss (%) in both 1000 kernel weight (36.3%) and plot weight (37.82%). The effect of stripe rust infection on yield components was lower than those of stem rust and lowest in leaf rust. On the other hand, the lowest loss was observed with 10% of stem, stripe and leaf rust which sprayed three times. During 2016/2017 stripe rust infection caused the highest loss (%) in yield components, under the highest level 80% of severity, on the other hand leaf rust showed low level of loss (%) Compared with the stripe and stem rust.

Abou-Zeid
Wheat Diseases Department Plant Pathology research Institute, Agriculture Research Center.
Keywords: 
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Mohammed
Displayed onsite?: 
No

MicroRNAs and their mega effects on gene expression in response to leaf rust in wheat (Triticum aestivum L.)

Bread wheat (Triticum aestivum L.) being the world's most popular edible cereal, plays a major role in global economy. Rust in wheat leaves, caused by Puccinia triticina, affects grain quality and severely retards its production worldwide. Micro(mi)RNAs are considered major components of gene silencing and so have a great role to play during stress. The present study focuses on identification of miRNAs, produced by host to suppress pathogen as well as delivered by pathogens to encounter host defence mechanism. Therefore, these miRNAs may be called as leaf rust responsive microRNAs. Small RNA and degradome libraries were prepared from a pair of near isogenic lines of wheat (HD2329, HD2329+Lr24), one set was mock inoculated while the other set was inoculated with urediniospores of leaf rust pathogen. Using these libraries as input a vast number of miRNAs rather a population of miRNAs were identified derived from wheat that were targeting genes mostly involved in functions like defense response, signal transduction, development, metabolism, and transcriptional regulation.
When reads specifically produced under pathogen inoculation were taken as input with Puccinia triticina genome sequences as reference, only three putative miRNA precursor loci were detected and the molecules produced were called miRNA-like molecules as their precursors lacked one or two criteria essential for a true miRNA precursor. The identified miRNAs were targeting genes like F-box protein, MAP kinase, calmodulin and susceptible antioxidant protein. We further identified the presence of argonaute and dicer like domains in Puccinia proteome available at FungiEnsembl which strengthens presence of RNAi-like activities in Puccinia.
In addition, differential expression of wheat as well as Puccinia small RNAs using stem loop RT-PCR under varying time points of disease progression (0-168 hpi) revealed their direct connection with stress responses.

Dutta
Department of BioEngineering, Birla Institute of Technology, Mesra, Ranchi, India
Keywords: 
Co-authors: 
Manish Kumar, Kunal Mukhopadhyay
Poster or Plenary?: 
Poster
BGRI Year: 
2018
Primary Author First Name: 
Summi
Displayed onsite?: 
No

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