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HomeAP23485118 (supervisor Turuspekov Y.K.)

AP23485118 (supervisor Turuspekov Y.K.)

Brief description of the project

(2024-2026)

 

Project title: IRN AP23485118 «Association mapping of resistance loci to net blotch and leaf scald of barley at seedling and adult plant growth stages».

 Relevance. 

Barley is the second most important grain crop in Kazakhstan. In particular, spring barley occupies 2.2 million hectares of cultivated area and represents 15.4% of the total grain harvested in the country (2022). The yield and quality of barley grain depend on many environmental factors; however, one of the main reasons for the decline in yield is the poor resistance of local cultivars to fungal diseases, including net blotch and leaf scald. Damage of barley crops by these pathogens leads to a decrease in the number and quality of grains in the spike, and, during the years with heavy rainfall, it may lead to yield losses of up to 40 %. Resistance to these diseases is determined genetically; however, until now, in Kazakhstan, studies on genome-wide analysis of associations of barley resistance to these two diseases have not been carried out yet. That is why the project application proposes to study the genetic characteristics of the resistance of the world two-row spring barley collection, consisting of 194 foreign and 82 local cultivars and lines, to two dangerous fungal diseases: net blotch and leaf scald. The above-mentioned collection of 276 foreign and local barley accessions was previously genotyped using 9,000 SNP (single nucleotide polymorphism) markers. This project plans to increase the number of SNP-markers through genotyping by 50,000 SNPs, as well as the use of modern genetic mapping techniques, genome-wide association study (GWAS), based on the search for associations between phenotypic variations (resistance level), and genotyping data – polymorphic SNP-markers. During the project, a collection of barley and check cultivars will be studied in two regions of the country – Almaty and Zhambyl regions. This interdisciplinary project will combine the efforts of geneticists and phytopathologists of Kazakhstan to search for new genetic factors of resistance to two diseases, as well as develop a set of new DNA-markers for the selection and evaluation of promising lines that are both resistant to net blotch and leaf scald, as well as show high yield and grain quality. Thus, this application aims to search and genetically map new quantitative trait loci (QTLs) for barley resistance to net blotch and leaf scald.

The goal of the project: Search and genetic mapping of new quantitative trait loci associated with barley resistance to net blotch and leaf scald.

Expected results:

1) Assessment of the world barley collection’s resistance to two fungal diseases at seedlings and adult plants stages. Promising lines resistant to net blotch and leaf scald will be selected.

2) An analysis of the genetic diversity and population structure in barley collection will be carried out using 50,000 SNP-markers.

3) Samples of barley bred in Kazakhstan will be characterized using microsatellite DNA-markers linked to resistance genes for leaf scald and net blotch.

4) New QTLs associated with barley resistance to net blotch and leaf scald will be localized based on the GWAS.

5) A set of DNA-markers of genes and QTLs for barley resistance to the diseases under the study will be developed; promising lines carrying alleles of resistance to leaf scald and net blotch will be selected.

 Scientific Supervisor of the project:

  1. Turuspekov, head of the laboratory of molecular genetics of the Institute of Plant Biology and Biology (IPBB), Candidate of Biological Sciences, Professor. The main research direction is the use of genomic technologies in breeding cereal crops. He has many years of experience in molecular genetics and breeding, including research centers in Japan, US and UK. He was a leader of 4 grant projects through the Ministry of Education and Science of the Republic of Kazakhstan. Currently he is the head of the scientific and technical program BR18574149 and 1 grant (2022-2024). More than 100 scientific articles have been co-published, including 64 articles in peer-reviewed foreign scientific publications, indexed in Web of Science (https://www.webofscience.com/wos/author/record/1719056) and/or Scopus (H-index 16, https://www.scopus.com/authid/detail.uri?authorId=57197860996), more than 30 in journals recommended by CQAFSHE of MSHE RK. Co-author of 7 monographs, 5 scientific and methodological recommendations, cultivars of spring bread wheat (3), spring and winter barley (6, including 2 released), 2 utility model patents. Prof. Turuspekov is a member of the editorial boards of 7 local and foreign scientific journals. He was awarded with the medal «For merits in the development of science of the Republic of Kazakhstan» (2014). Holder of the Diploma «Leader of Science» from Thomson Reuters and NCSTE JSC (2015); scholarship holder of the state scientific scholarship for scientists and specialists who have made an outstanding contribution to the development of science and technology of the Republic of Kazakhstan (2018). Prof. Turuspekov is a winner of the competition of the Ministry of Science and Higher Education of the Republic of Kazakhstan “Best Researcher” (2022).

Research group: 

  1. Genievskaya, born in 1996 (young scientist), researcher at IPBB, PhD-student at KazNU, she has 8 years of work experience (genetics of disease resistance, GWAS), co-author of 17 articles indexed in WoS, Scopus (H-index-7, https://www.scopus.com/authid/detail.uri?authorId=57196939730), of which 10 are on the topic of the project; 5 in CQAFSHE publications; co-author of 1 monograph, scientific and methodological recommendation and 1 utility model patent. Currently she is a project manager within the framework of the scientific and technical program BR18574149 (2023-2024). Trained at the University of Oxford and the John Innes Center (UK).
  2. Anuarbek, born in 1992 (young scientist), senior researcher at IPBB, PhD, she has 11 years of work experience (genotyping, GWAS), co-author of 9 scientific articles: 6 in peer-reviewed publications Web of Science and Scopus (H-index–4, https://www. scopus.com/authid/detail.uri?authorId=57192177334), 3 in CQAFSHE publications; co-author of 1 scientific and methodological recommendation, 3 utility model patents. Completed scientific internships in scientific centers in Italy and Russia.
  3. Maulenbay, born in 1994, MSs (young scientist) in the field of molecular biology and phytopathology, head of the phytosanitary safety laboratory of the RIBSP. She completed a scientific internship at the Aachen University of Applied Sciences (Germany, 2017) at the All-Russian Research Institute of Plant Protection (Russia, 2022), at the Regional Cereal Rust Research Center (RCRRC) (Izmir, Turkey 2022). H-index-2 (https://www.scopus.com/authid/detail.uri?authorId=57219199798.
  4. Kurymbaeva, born in 1989, MSs, young specialist in the field of phytopathology, junior researcher at RIBSP. Completed an internship at the All-Russian Research Institute of Plant Protection (Russia, 2022).

List of publications of the project’s participants (2018-2023)

  1. Almerekova S., Sariev B., Abugalieva A., Chudinov V., Sereda G., Tokhetova L., Ortaev A., Tsygankov V., Blake T., Chao S., Genievskaya Y., Abugalieva S.,Turuspekov Y. * Association mapping for agronomic traits in six-rowed spring barley from the USA harvested in Kazakhstan // PLoS ONE (IF=3.8, Q1-Multidisciplinary sciences,  https://www.webofscience.com/wos/woscc/full-record/WOS:000485006800052; SJR=0.885, 87-Multidisciplinary, https://www.scopus.com/record/display.uri?eid=2-s2.0-85070703047&origin=resultslist&sort=plf-f). – 2019. – V. 14. – No. 8. – P. e0221064. DOI: 10.1371/journal.pone.0221064. Citation index Scopus 11/6, WoS 9/4
  2. Genievskaya Y.,Almerekova S., Sariev B., Chudinov V., Tokhetova L., Sereda G., Ortaev A., Tsygankov V., Blake T., Chao S., Sato K., Abugalieva S., Turuspekov Y.*  Marker–trait associations in two–rowed spring barley accessions from Kazakhstan and the USA // PLoS ONE (IF=3.8, Q1-Multidisciplinary sciences, https://www.webofscience.com/wos/woscc/full-record/WOS:000447173500073; SJR=0.885, 87-Multidisciplinary, https://www.scopus.com/record/display.uri?eid=2-s2.0-85054751172&origin=resultslist&sort=plf-f). – 2018. – V. 3. – № 10. – P. e0205421. DOI: 10.1371/journal.pone.0205421. Citation index Scopus 9/1, WoS 9/2
  3. Genievskaya Y.,Zatybekov A., Abugalieva S., Turuspekov Y.* Identification of quantitative trait loci associated with powdery mildew resistance in spring barley under conditions of southeastern Kazakhstan // Plants (IF=4.8, Q1-plant sciences https://www.webofscience.com/wos/woscc/full-record/WOS:001017764300001; SJR=0.790, 83-Plant science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85164039523&origin=resultslist&sort=plf-f). – 2023. – V. 12. – P. 2375. DOI: 10.3390/plants12122375. Citation index Scopus 1/1, WoS 0/0
  4. Zatybekov A., Genievskaya Y., Rsaliyev, Maulenbay A., Yskakova G., Savin T., Turuspekov Y., Abugalieva S. Identification of quantitative trait loci for leaf rust and stem rust seedling resistance in bread wheat using a Genome-wide association study // Plants (IF=4.8, Q1-plant sciences, https://www.webofscience.com/wos/woscc/full-record/WOS:000741223600001; SJR=0.790, 83-Plant science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85121687724&origin=resultslist&sort=plf-f). – 2022. – V. 11. – P. 74. DOI: 10.3390/plants11010074. Citation index Scopus 4/3, WoS 2/1
  5. Genievskaya Y,Turuspekov Y, Rsaliyev A., Abugalieva S. Genome-wide association mapping for resistance to leaf, stem, and yellow rusts of common wheat under field conditions of South Kazakhstan // PeerJ (IF=3.1, Q2-Multidisciplinary sciences https://www.webofscience.com/wos/woscc/full-record/WOS:000564039200007; SJR=0.695, 83-General Agricultural and Biological Sciences, https://www.scopus.com/record/display.uri?eid=2-s2.0-85095435096&origin=resultslist&sort=plf-f). – 2020. – Vol. 8. – P. e9820. DOI: 7717/peerj.9820. Citation index Scopus 10/5, WoS 11/5
  6. Genievskaya Y.,Pecchioni N., Laidò G., Anuarbek S., Rsaliyev A., Chudinov V., Zatybekov A., Turuspekov Y., Abugalieva S. Genome-wide association study of leaf rust and stem rust seedling and adult resistances in tetraploid wheat accessions harvested in Kazakhstan // Plants (IF=4.8, Q1-plant sciences, https://www.webofscience.com/wos/woscc/full-record/WOS:000838871100001; SJR=0.790, 83-Plant science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85136983036&origin=resultslist&sort=plf-f). – 2022. – V. 11. – P.1904. DOI: 10.3390/plants11151904. Citation index Scopus 4/4,  WoS  3/3
  7. Genievskaya Y.,Almerekova S., Abugalieva S., Chudinov V., Blake T., Abugalieva A., Turuspekov Y.* Identification of SNP markers associated with grain quality traits in a barley collection (Hordeum vulgare) harvested in Kazakhstan // Agronomy (IF=4, Q1–Agronomy, Q1–Plant Science https://www.webofscience.com/wos/woscc/full-record/WOS:000872057500001; SJR=0.663, 79-Agronomy and Crop Science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85140439636&origin=resultslist&sort=plf-f). – 2022. – V. 12. – P. 2431. DOI: 10.3390/agronomy12102431.  Citation index Scopus 2/0,  WoS  2/0
  8. Genievskaya Y., Abugalieva S., Rsaliyev A., Yskakova G., Turuspekov Y.*QTL Mapping for Seedling and Adult Plant Resistance to Leaf and Stem Rusts in Pamyati Azieva × Paragon Mapping Population of Bread Wheat // Agronomy (IF=4, Q1–Agronomy, Q1–Plant Science https://www.webofscience.com/wos/woscc/full-record/WOS:000580345600001; SJR=0.663, 79- Agronomy and Crop Science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85090949261&origin=resultslist&sort=plf-f). – 2020. – Vol. 10. – No. 9. – P. 1285. DOI: 3390/agronomy10091285. Citation index Scopus 7/4, WoS 7/4
  9. Anuarbek S,Abugalieva S, Pecchioni N, Laidò G, Maccaferri M, Tuberosa R, Turuspekov Y.* (2020) Quantitative trait loci for agronomic traits in tetraploid wheat for enhancing grain yield in Kazakhstan environments // PLoS ONE (IF=3.8, Q1-multidisciplinary sciences, https://www.webofscience.com/wos/woscc/full-record/WOS:000544972400052; SJR=0.885, 87-Multidisciplinary, https://www.scopus.com/record/display.uri?eid=2-s2.0-85087025039&origin=resultslist&sort=plf-f). – 2020. – Vol. 15. – No. 6. – P. e0234863. DOI:  11371/journal.pone.0234863. Citation index Scopus 18/12, WoS 15/9
  10. Turuspekov Y.*, Ormanbekova D., Rsaliev A., Abugalieva S. Genome-wide association study on stem rust resistance in Kazakh spring barley lines // BMC Plant Biology(IF=5.9, Q1-Plant sciences, https://www.webofscience.com/wos/woscc/full-record/WOS:000369816800002; SJR=1.159, 92-Plant science, https://www.scopus.com/record/display.uri?eid=2-s2.0-84955312275&origin=resultslist&sort=plf-f). – 2016. – V. 16. – P. 6. DOI: 10.1186/s12870-015-0686-z Citation index Scopus 41/35, WoS 37/31
  11. Amalova A.Y., Abugalieva S.I., Turuspekov Y.K. Utility model “Method for identifying breeding-valuable lines of spring bread wheat (Triticum aestivum) using KASP markers” // National Institute of Intellectual Property of the Ministry of Justice of the Republic of Kazakhstan. Electronic newsletter. – 2022 – No. 7588. Application number – 2022/0677.2
  12. Babkenov A.T., Shelaeva T.V., Kairzhanov E.K., Babkenov S.A., Utebaev M.U., Turuspekov Y.K., Amalova A.Y. Patent for breeding achievement (cultivar) of bread spring wheat “Tatyana” // National Institute of Intellectual Property of the Ministry of Justice of the Republic of Kazakhstan. Electronic newsletter. – 2023 – No. 1065. // LLP “A.I. Baraev Research and Production Center for Grain Farming «
  13. 6643 for utility model RK, IPC C12Q 1/68 (2018.01), C12Q 1/6806 (2018.01). A method for identifying high-quality barley lines (HORDEUM VULGARE L.) using molecular markers via KASP technology / Genievskaya Y.A., Almerekova Sh.S., Abugalieva S.I., Turuspekov Y.K.; applicant and patent holder of the RSE for the PVC «Institute of Plant Biology and Biotechnology» of the Committee of Science of the Ministry of Education and Science of the Republic of Kazakhstan. – No. 2021/0928.2; application 10/01/2021; publ. 05.11.2021, Bulletin. No. 44. – 8 p.
  14. 773 for breeding achievement (cultivar) of the Republic of Kazakhstan — spring barley “Shakhristan” / Tokhetova L.A., Bodyk N., Turuspekov Y.K., Abugalieva S.I., Umirzakov S.I., Shermagambetov K., Abugalieva A. I., Blake T.; applicant and patent holder LLP Zhakhaev Kazakh Research Institute of Rice Growing. – No. 2014/002.4, application. 02/03/14, Publ. 04/28/17, Bulletin. No. 10.
  15. Maulenbay A., Zakarya K., Moldazhanova R., Rsaliyev A. Characterization of tan spot races in Kazakhstan // Agriculture (IF=3.6, Q1-agronomy https://www.webofscience.com/wos/woscc/full-record/WOS:000872081500001; SJR=0.561, 67-Plant science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85141881993&origin=resultslist&sort=plf-f). – 2022. – Vol. 12(10). – P. 1564. DOI: 10.3390/agriculture12101564.
  16. Rsaliyev A., Yskakova G., Maulenbay A.,Zakarya K., Rsaliyev S. Virulence and race structure of Puccinia graminis sp. tritici in Kazakhstan // Plant Protection Science (IF=1.5, Q3-agronomy, plant science, https://www.webofscience.com/wos/woscc/full-record/WOS:000572523800004; SJR=0.290, 52-Agronomy and Crop Science, https://www.scopus.com/record/display.uri?eid=2-s2.0-85091623332&origin=resultslist&sort=plf-f). – 2020. – Vol.56(4). – P. 275-284. DOI: 10.17221/85/2020-PPS.

Results for 2024:

  1. A collection of 273 varieties and lines of spring two-row barley was grown in the field conditions. The collection was assessed for resistance to net spot and rhynchosporiosis at the seedling and adult plant stages. Promising barley lines with resistance to net blotch and leaf scald were identified.
  2. An analysis of the genetic diversity and population structure in the two-row barley collection was carried out using genotyping data for 50,000 SNP markers (Illumina). As a result, matrix data were obtained for 31,834 polymorphic (MAF> 0.05) SNPs. Genome coverage was 4.54 Gb. The analysis showed clustering of samples by their geographic origin.
  3. DNA extraction of the Kazakh spring barley collection was performed, and DNA genotyping was started using microsatellite markers associated with genes of resistance to net blotch and leaf scald.
  4. Analysis was performed using phenotypic (resistance assessment) and genotypic (SNP matrix) data and the GAPIT program, which made it possible to identify 7 quantitative trait loci (QTL) associated (P < 0.001) with resistance to net blotch and 6 loci for resistance to leaf scald at the adult plant stage.