Genotype × environment interaction patterns for grain yield of spring barley in different regions of Kazakhstan

Turuspekov, Yerlan; Sariev, B. S.; Chudinov, Vladimir; Sereda, Grigoriy; Tokhetova, Laura; Ortaev, A.; Tsygankov, V. I.; Doszhanov, M.; Volis, Sergei; Абугалиева, Сауле

doi:10.1134/s1022795413020129

Cited by 10 publications

(20 citation statements)

References 7 publications

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“…In Kazakhstan, spring barley is growing on more than 1.5 million hectares annually and it is one of the most important export commodity to neighboring countries. Currently the average grain yield of spring barley in Kazakhstan is about 2.0 tons per hectare [ 1 ]. Such a low output can be explained by strong pressure from abiotic factors, such as drought, heat, and heavy rains in autumn, and by periodic invasions of devastating barley pathogens.…”

Section: Discussionmentioning

confidence: 99%

“…The collection of 92 two-rowed spring barley accessions was selected from six different breeding stations of Kazakhstan, and it is part of larger collection, which earlier studied in field trials in seven regions of the country [ 1 ]. The list includes 17 commercial cultivars officially registered at the Seed State Trial Commission of the Republic of Kazakhstan (Additional file 1 ).…”

Section: Methodsmentioning

confidence: 99%

“…Barley is the second after wheat most important for Kazakhstan cereal crop with total annual grain yield of more than 2 mln tons [ 1 ]. SR caused by Puccinia graminis f. sp.…”

Section: Introductionmentioning

confidence: 99%

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Genome-wide association study on stem rust resistance in Kazakh spring barley lines

Turuspekov¹,

Ormanbekova²,

Rsaliyev³

et al. 2016

BMC Plant Biol

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BackgroundStem rust (SR) is one of the most economically devastating barley diseases in Kazakhstan, and in some years it causes up to 50 % of yield losses. Routine conventional breeding for resistance to stem rust is almost always in progress in all Kazakhstan breeding stations. However, molecular marker based approach towards new SR resistance genes identification and relevant marker-assisted selection had never been employed in Kazakhstan yet. In this study, as a preliminary step the GWAS (genome-wide association study) mapping was applied in attempt to identify reliable SNP markers and quantitative trait loci (QTL) associated with resistance to SR.ResultsBarley collection of 92 commercial cultivars and promising lines was genotyped using a high-throughput single nucleotide polymorphism (9,000 SNP) Illumina iSelect array. 6,970 SNPs out of 9,000 total were polymorphic and scorable. 5,050 SNPs out of 6,970 passed filtering threshold and were used for association mapping (AM). All 92 accessions were phenotyped for resistance to SR by observing adult plants in artificially infected plots at the Research Institute for Biological Safety Problems in Dzhambul region of Kazakhstan. GLM analysis allowed the identification of 15 SNPs associated with the resistance at the heading time (HA) phase, and 2 SNPs at the seed’s milky-waxy maturity (SM) phase. However, after application of 5 % Bonferroni multiple test correction, only 2 SNPs at the HA stage on the same position of chromosome 6H can be claimed as reliable markers for SR resistance. The MLM analysis after the Bonferroni correction did not reveal any associations in this study, although distribution lines in the quantile-quantile (QQ) plot indicates that overcorrection in the test due to both Q and K matrices usage.ConclusionsObtained data suggest that genome wide genotyping of 92 spring barley accessions from Kazakhstan with 9 K Illumina SNP array was highly efficient. Linkage disequilibrium based mapping approach allowed the identification of highly significant QTL for the SR resistance at the HA phase of growth on chromosome 6H. On the other hand, no significant QTL was detected at the SM phase, assuming that for a successful GWASmapping experiment a larger size population with more diverse genetic background should be tested. Obtained results provide additional information towards better understanding of SR resistance in barley.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-015-0686-z) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

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Genome-wide association study on stem rust resistance in Kazakh spring barley lines

Turuspekov¹,

Ormanbekova²,

Rsaliyev³

et al. 2016

BMC Plant Biol

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“…The other important growing regions stretch along the Tian-Shan mountain chain in Southern and South-Eastern parts, where both winter and spring types are grown successfully. The climatic conditions in these regions are very variable, as are the soil types, the temperature during the growing season, the precipitation levels, and the photoperiod length [ 6 ]. Therefore, studies of yield performance in different ecological niches are important for strategies in current and future breeding activities across wheat growing regions of the country.…”

Section: Introductionmentioning

confidence: 99%

GWAS for plant growth stages and yield components in spring wheat (Triticum aestivum L.) harvested in three regions of Kazakhstan

et al. 2017

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BackgroundSpring wheat is the largest agricultural crop grown in Kazakhstan with an annual sowing area of 12 million hectares in 2016. Annually, the country harvests around 15 million tons of high quality grain. Despite environmental stress factors it is predicted that the use of new technologies may lead to increases in productivity from current levels of 1.5 to up to 3 tons per hectare. One way of improving wheat productivity is by the application of new genomic oriented approaches in plant breeding projects. Genome wide association studies (GWAS) are emerging as powerful tools for the understanding of the inheritance of complex traits via utilization of high throughput genotyping technologies and phenotypic assessments of plant collections. In this study, phenotyping and genotyping data on 194 spring wheat accessions from Kazakhstan, Russia, Europe, and CIMMYT were assessed for the identification of marker-trait associations (MTA) of agronomic traits by using GWAS.ResultsField trials in Northern, Central and Southern regions of Kazakhstan using 194 spring wheat accessions revealed strong correlations of yield with booting date, plant height, biomass, number of spikes per plant, and number of kernels per spike. The accessions from Europe and CIMMYT showed high breeding potential for Southern and Central regions of the country in comparison with the performance of the local varieties. The GGE biplot method, using average yield per plant, suggested a clear separation of accessions into their three breeding origins in relationship to the three environments in which they were evaluated. The genetic variation in the three groups of accessions was further studied using 3245 polymorphic SNP (single nucleotide polymorphism) markers. The application of Principal Coordinate analysis clearly grouped the 194 accessions into three clades according to their breeding origins. GWAS on data from nine field trials allowed the identification of 114 MTAs for 12 different agronomic traits.ConclusionsField evaluation of foreign germplasm revealed its poor yield performance in Northern Kazakhstan, which is the main wheat growing region in the country. However, it was found that EU and CIMMYT germplasm has high breeding potential to improve yield performance in Central and Southern regions. The use of Principal Coordinate analysis clearly separated the panel into three distinct groups according to their breeding origin. GWAS based on use of the TASSEL 5.0 package allowed the identification of 114 MTAs for twelve agronomic traits. The study identifies a network of key genes for improvement of yield productivity in wheat growing regions of Kazakhstan.Electronic supplementary materialThe online version of this article (10.1186/s12870-017-1131-2) contains supplementary material, which is available to authorized users.

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“…Barley is the second after wheat most important for Kazakhstan cereal crop with total annual grain yield of more than 2 mln tons per hectare. Spring two-rowed barley represents over 90% of all barleys in the country [ 6 ]. Such a low output can be explained by strong pressure from abiotic factors, such as drought, heat, and heavy rains in autumn, and by periodic invasions of devastating barley pathogens [ 7 ].…”

Section: Introductionmentioning

confidence: 99%

Characterizing the pathotype structure of barley powdery mildew and effectiveness of resistance genes to this pathogen in Kazakhstan

Rsaliyev¹,

Pahratdinova²,

Rsaliyev

2017

BMC Plant Biol

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BackgroundPowdery mildew of barley is a wind-borne and obligate biotrophic pathogen, which ranks among the most widespread barley pathogens worldwide. However, purposeful research towards studying the structure of the barley powdery mildew populations, of their virulence and of effectiveness of certain resistance genes against the infection was not conducted in Kazakhstan till present time. This paper is the first to describe characteristics of the pathotype structure of Blumeria graminis f.sp. hordei (Bgh) population and effectiveness of resistance genes in two regions of barley cultivation in the republic.ResultsOne hundred and seven isolates of Bgh were obtained from seven populations occurring on cultivated barley at two geographically locations in Kazakhstan during 2015 and 2016. Their virulence frequency was determined on 17 differential lines Pallas. All isolates were virulent on the resistance gene Mla8 and avirulent for the resistance genes Mla9, Mla1 + MlaAl2, Mla6 + Mla14, Mla13 + MlRu3, Mla7 + MlNo3, Mla10 + MlDu2, Mla13 + MlRu3 and Mlo-5. The frequencies of isolates overcoming the genes Mla3, Mla22, Mlat Mlg + MlCP and Mla12 + MlEm2 were 0.0–33.33%, and frequencies of isolates overcoming the genes Mlra, Mlk, MlLa and Mlh ranged from 10.0 to 78.6%. Based on reactions of differential lines possessing the genes Mla22, Mlra, Mlk, Mlat, MlLa and Mlh, pathotypes were identified. In total, 23 pathotypes with virulence complexity ranging from 1 to 6 were identified. During both years in all populations of South Kazakhstan and Zhambyl regions pathotypes 24 and 64 mainly prevailed.ConclusionsObtained data suggest that low similarity of populations Bgh in Kazakhstan to European, African, Australian and South-East Asian populations. The present study provides a foundation for future studies on the pathogenic variability within of Bgh populations in Kazakhstan and addresses the knowledge gap on the virulence structure of Bgh in Central Asia. Complete effectiveness of the resistance genes, for which no corresponding virulence was found, will allow Kazakhstanean breeders to access many modern barley cultivars that those possessing the resistance effectiveness genes.

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Genotype × environment interaction patterns for grain yield of spring barley in different regions of Kazakhstan

Cited by 10 publications

References 7 publications

Genome-wide association study on stem rust resistance in Kazakh spring barley lines

Genome-wide association study on stem rust resistance in Kazakh spring barley lines

GWAS for plant growth stages and yield components in spring wheat (Triticum aestivum L.) harvested in three regions of Kazakhstan

Characterizing the pathotype structure of barley powdery mildew and effectiveness of resistance genes to this pathogen in Kazakhstan

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