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HomeOR 11465424 (superviser Zhambakin К.)

OR 11465424 (superviser Zhambakin К.)

Brief information about the STP

(STP duration, 2021-2022 yy.)

 

  STP title: IRN OR11465424 “Development and implementation of highly effective diagnostic systems for identifying the most dangerous diseases and increasing the genetic potential of crop resistance”.

Intensification of the agro-industrial complex is possible through the cultivation of highly productive and disease-resistant cultivars of agricultural crops, as well as through appropriate control of the spread of dangerous pathogens. This program has two directions: 1) Prevention of diseases by identifying disease-resistant forms of agricultural plants using DNA technologies, to obtain from them resistant and productive domestic cultivars; 2) Monitoring of diseases at all stages of production, as well as when importing seed and planting material into the Republic of Kazakhstan.

The main approaches to research are — the use of modern DNA technologies to determine disease-resistant and productive forms of crops; application of DNA technologies to create methods for detecting diseases; development of biotechnologies for the recovery of planting material from diseases; the use of existing technologies for monitoring diseases of agricultural crops.

The relevance of tasks for the purposes of socio-economic development in the Republic of Kazakhstan is reflected in the following state strategic and program documents: Message from President K. Tokayev to the people of Kazakhstan on September 2, 2019. (Fifth point — Developed agro-industrial complex); Strategic Plan of the Ministry of Education and Science of the Republic of Kazakhstan for 2017-2021 (strategic direction 5. Development of science).

As a result of the research, the areas of distribution and harmfulness of pathogens of brown rust, yellow rust and pyrenophorosis of wheat will be determined; the structure of populations of causative agents of the most dangerous bacterial diseases of wheat was determined; identified and mapped QTL quantitative trait loci associated with yellow rust resistance of common wheat; new genes and DNA markers of durum wheat resistance to the most dangerous fungal diseases have been identified; domestic highly efficient systems for diagnostics of the most dangerous viral infections have been developed and implemented; an innovative biotechnology of cryotherapy has been developed for the recovery of commercially valuable berry crops from bacterial and viral infections; a map of the distribution of potato viruses Y, X, M, S, PLRV in Kazakhstan was compiled. Data of genetic analysis of potato viruses in mixed infection.

  Goal of the STP: development of biotechnological approaches based on DNA technologies for an effective system for monitoring, identifying and preventing the most dangerous diseases of agricultural crops..

  Expected results:

  1. An effective system for monitoring the hazard level of Puccinia striiformis West, Puccinia recondita and Pyrenophora tritici-repentis pathogens will be carried out based on DNA technologies
  2. Monitoring will be carried out and a test system and an express method for determining bacterial diseases will be developed.
  3. Closely linked molecular markers associated with yellow rust resistance will be developed
  4. DNA markers of resistance to fungal diseases will be determined and promising resistant lines of durum wheat will be isolated.
  5. Systems for the diagnosis of viral infections of agricultural crops will be developed
  6. Cryotherapy technology will be developed to obtain a healthy raspberry planting material
  7. Using genomic technologies, a map of the distribution of potato viruses Y, X, M, S, PLRV in Kazakhstan will be created

  Scientific supervisor of the STP:

Zhambakin Kabyl Zhaparovich, general director of IPBB, Doctor of Biological Science (specialty in Biotechnology), Professor (specialty in Biotechnology), Academician of KR NAS, h-index 3, 4 candidate dissertations and 3 PhD theses were defended under his supervision.

(https://www.scopus.com/authid/detail.uri?authorId=55331576800; https://app.webofknowledge.com/author/record/3844956)

Member in the research group:

Kumarbayeva Madina Talgarovna: BSc in Biotechnology, MSc in Plant protection and quarantine, PhD doctoral student in specialty Agronomy, 8 years of scientific work experience corresponds to the profile of the scientific project, h-index 1.

Zagipa Beisenovna Sapakhova, a leading researcher at the Laboratory of Breeding and Biotechnology, PhD, Hirsch index 3, 3 master’s theses were defended under his scientific supervision and 2 PhD doctoral students were supervised.  Author ID in Scopus is 56046815800, Web of Science Researcher ID is M-6615-2015, ORCID ID is 0000-0002-8007-5066, Research Gate: Zagipa Sapakhova.

https://www.scopus.com/authid/detail.uri?authorId=56046815800

Kokhmetova Alma Myrzabekovna: higher education (specialty Agronomy), doctor of biological sciences (specialty Genetics), professor, corresponding member of the National Academy of Sciences of the Republic of Kazakhstan, 42 years of scientific work experience, corresponds to the profile of a scientific project, h-index 4, under her scientific supervision 1 candidate and 4 PhD doctoral dissertations were defended.

(https://www.scopus.com/authid/detail.uri?authorId=36010765900)

Abugalieva Saule Izteleuovna: higher education (specialty Biology), doctor of biological sciences (specialty Genetics), professor (specialty Biology), 34 years of scientific work experience, corresponds to the profile of the scientific project, h-index 7, under her scientific supervision 1 PhD thesis was defended.

(https://www2.scopus.com/authid/detail.uri?authorId=6507029042; https://app.webofknowledge.com/author/#/record/2577530)

Gritsenko Dilyara Aleksandrovna: BSc in Biotechnology, MSc in Biology) PhD in Biology, 12 years of scientific work experience corresponds to the profile of the scientific project, h-index 3. (https://publons.com/researcher/2424463/dilyara-gritsenko/)

Kushnarenko Svetlana Veniaminovna: higher education (specialty Biochemistry), PhD in Plant physiology, associate professor (specialty Biology), scientific work experience is 35 years, corresponds to the profile of the scientific project, h-index 8, under her scientific supervision 1 candidate and 2 PhD theses.

(https://www.scopus.com/authid/detail.uri?authorId=6507153914; Web of Science ID M-6616-2015).

Daurov Dias Lamzarovich: BSc (specialty in Biotechnology), MSc (specialty in Biotechnology), 7 years of research experience, fits the project profile, h-index 1.

(https://www.scopus.com/authid/detail.uri?origin=resultslist&authorId=57201666405&zone= ;   https://app.webofknowledge.com/author/record/35819805?lang=ru_RU&SID=F5UIG1R9xCKg1bvOMMo)

 

  List of publications and patents of the project executors for the period from 2015 to 2020.

  1. Zhambakin, K., Zhapar, K. Current status and prospects of plant biotechnology in Kazakhstan. Plant Biotechnology Report 14, 177–184 (2020).  DOI:10.1007/s11816-020-00601-0, IF-1.259, Q-3, percentile-64
  2. Daurov D., Zhapar K., Daurova A., Volkov D., Bakbergenova M., Tolegenova D., Shamekova M., Zhambakin K. Production of virus-free sweet potato planting material for the southeast of Kazakhstan. International journal of agriculture and biology 20 (4) : 851-856, 2018. DOI:17957/IJAB/15.0576. IF (WoS)  – 0.82, Q-3, percentile (Scopus)-56
  3. Daurova Ainash, Daurov Dias, Volkov Dmitriy, Aibek Karimov, Zhandos Abai, Daniyar Raimbek,Kuanish Zhapar, Kabyl Zhambakin, Malika Shamekova.  Mutagenic treatment of microspore-derived embryos of turnip rape (Brassica rapa) to increase oleic acid content. Plant Breeding. 2020; 00:1–7.   DOI:10.1111/pbr.12830, IF (WoS)  – 1.251, Q -3, percentile (Scopus) – 62
  4. Daurov, D., Daurova, A., Karimov, A. Tolegenova, D., Volkov, D., Raimbek D., Zhambakin K.,Shamekova M. Determining Effective Methods of Obtaining Virus-Free Potato for Cultivation in Kazakhstan. Am.J.PotatoRes. 97, 367–375 (2020). DOI:10.1007/s12230-020-09787-z IF (WoS) -1.085, Q-3, percentile (Scopus) -57
  5. Daurova A, Daurov D, Volkov D, Zhapar K, Raimbek D, Shamekova M, Zhambakin K. Doubled haploids of interspecific hybrids between Brassica napus and Brassica rapa for canola production with valuable breeding traits. OCL 27: 45. DOI:10.1051/ocl/2020041; SiteCoreScopus-2.8, percentile – 70
  6. Kokhmetova, A., Sharma, R., Rsaliyev, S., Galymbek, K., Baymagambetova, K., Ziyaev, Z., & Morgounov, A. (2017). Evaluation of Central Asian wheat germplasm for stripe rust resistance // Plant Genetic Resources.-2017.-1-7. DOI:10.1017/S1479262117000132. WOS,  IF 0.792. quartile WOS 2018г. Q4
  7. Kokhmetova, A., Sharma, R., Rsaliyev, S., Galymbek, K., Baymagambetova, K., Ziyaev, Z., & Morgounov, A. (2017). Evaluation of Central Asian wheat germplasm for stripe rust resistance // Plant Genetic Resources.-2017.-1-7. DOI:10.1017/S1479262117000132. WOS,  IF 0.792. quartile WOS 2018г. Q4
  8. 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=3.337, Q2; SJR=1.100, percentile-89). 15(6): e0234863. https://doi.org/10.1371/journal.pone.0234863
  9. Genievskaya Y, Turuspekov Y, RsaliyevA, Abugalieva S. (2020). Genome-wide association mapping for resistance to leaf, stem, and yellow rusts of common wheat under field conditions of South Kazakhstan. PeerJ (IF=2.81, Q2; SJR=0.995, percentile-84) 8:e9820 https://doi.org/10.7717/peerj.9820
  10. Deryabina N.D., Gritsenko D., Galiakparov N.N. (2017). Molecular aspects of plant viruses’ movement through plants.  Eurasian journal of applied biotechnology. Vol.2, 2017.  1-10. DOI: 10.11134/btp.2.2017.3
  11. Romadanova N.V., Mishustina S.A., Gritsenko D.A., Omasheva M.Y., Galiakparov N.N., Reed B.M., Kushnarenko S.V. Cryotherapy as a method for reducing the virus infection of apples (Malus) // Cryo-Letters. – 2016. – V. 37, No. 1. – P. 1-9. PMID: 26964019  https://www.ncbi.nlm.nih.gov/pubmed/26964019 IF 0,694; Q 4
  12. Romadanova N.V., Kushnarenko S.V., Karasholakova L.N. Development of a common PVS2 vitrification method for cryopreservation of several fruit and vegetable crops // In vitro Cellular & Developmental Biology – Plant. – 2017. – V. 53 (4). – P. 382-393. DOI:10.1007/s11627-017-9849-y IF 1,454; Q 3
  13. Daurov, D., Daurova, A., Karimov, A. Tolegenova, D., Volkov, D., Raimbek D., Zhambakin K.,Shamekova M. Determining Effective Methods of Obtaining Virus-Free Potato for Cultivation in Kazakhstan. Am.J.PotatoRes. 97, 367–375 (2020). DOI:10.1007/s12230-020-09787-z, IF (WoS) -1.085, Q-3, perecntile (Scopus) -57
  14. Daurov D., Zhapar K., Daurova A., Volkov D., Bakbergenova M., Tolegenova D., Shamekova M., Zhambakin K. Production of virus-free sweet potato planting material for the southeast of Kazakhstan. International journal of agriculture and biology 20 (4) : 851-856, 2018. DOI:17957/IJAB/15.0576. IF (WoS)  – 0.82, Q-3, percentile (Scopus)-56

   Results obtained for 2021

The area of distribution, development and harmfulness of pathogens Puccinia striiformis West, Puccinia recondita and Pyrenophora tritici-repentis in the northern and southern regions of the country has been determined.

Samples of wild and agricultural crops have been collected in the north of Kazakhstan and bacteriosis have been identified using the ITS sequences of the rDNA region infecting crops. Tandem repeats have been identified in the genomes of pathogens of black and basal bacteriosis, and a PCR test system has been developed for their analysis.

Phenotyping and genotyping of Kazakhstan population of recombinant inbred wheat lines for resistance to Puccinia striiformis have been carried out.

Field and laboratory studies of the world collection of durum wheat (250 samples) have been carried out.

Bioinformatic analysis of the genomes of the most dangerous 5 apple viruses, 3 grape viruses, 3 raspberry viruses, 5 potato viruses, 2 tomato viruses, 2 wheat viruses have been carried out in order. Highly specific primers have been designed and multiplexed virus detection systems have been formed.

A working collection of raspberry cultivars (at least 10) has been created and tested for the presence of a viral infection.

Potato seed tubers and material from the warehouses of seed and commercial farms and fields of potato growing regions of Kazakhstan have been collected. An analysis have been carried out for the presence of potato viruses Y, X, M, S, PLRV in the collected material.

2 articles in journals with impact factor in the WoS and Scopus databases and 1 article in refereed journal recognized by CQAES MES of the RK, as well as 6 abstracts in international conferences and 1 patent.

  Research publications, 2021

Patent of the Republic of Kazakhstan for utility model No. 6332 dated 08/20/2021. Turdiev T.T., Kovalchuk I.Yu., Mukhitdinova Z.R., Frolov S.N., Rymkhanova N.K., Belgozhaev E.M., Besschetnov A.P. «Method for producing planting material of raspberry in vitro«.

  Papers in foreign journals:

  1. Kokhmetova, A.; Rsaliyev, A.; Malysheva, A.; Atishova, M.; Kumarbayeva, M.; Keishilov, Z. Identification of Stripe Rust Resistance Genes in Common Wheat Cultivars and Breeding Lines from Kazakhstan. Plants. 2021, 10, 2303. https://doi.org/10.3390/plants10112303. Web of Science — Q1, IF 3.935; Percentile Scopus — 56.
  2. Kokhmetova, A.; Kumarbayeva, M.; Atishova, M.; Nehe, A..; Riley, I.T..; Morgounov A. Identification of high-yielding wheat genotypes resistant to Pyrenophora tritici-repentis (tan spot) // Euphytica. – 2021. – Vol. 217. – P. 97. DOI:org/10.1007/s10681-021-02822-y, БД Web of Science; Q2, IF 2.181.

  Papers in refereed journals recognized by CCES MES of the RK — Santay B. A., Turdiev T. T., Rymkhanova N. K., Zhumabayeva B. A. features of Clone micro-propagation of raspberry varieties in vitro // Reports of the National Academy of Sciences of the Republic of Kazakhstan. – 2021. — VOL. 3. — PP. 57-63 (in Kazakh)

  Results obtained for 2022

Monitoring has been carried out to determine the level of danger of pathogens of brown, yellow rust and leaf spot diseases on wheat crops in Almaty, Zhambyl, Turkestan, Kostanay and Akmola regions (2022 — 6678 ha). The collection of wheat samples combining resistance to geographically remote Kazakh populations of brown and yellow rust and pyrenophorosis was createad (75 samples).

Patovars in the population of black (Pseudomonas syringae) and basal (Xanthomonas campestris) bacterioses have been identified and the express methods for their detection have been developed. Multiplex PCR test system was developed to detect polymorphism of tandem repeats in bacterial genomes to identify strains of causative agents of black and basal wheat bacteriosis. Their population structure was determined using markers for tandem repeats.

Linkage map was constructed, the quantitative traits loci (QTL) and closely linked molecular markers associated with wheat resistance to yellow rust were identified. QTL associated with seedling resistance were identified on chromosome 4B, whereas QTL found on chromosome 2B and 4D were mainly associated with resistance at the adult plant stage.

A collection of tetraploid wheat varieties and lines was used to conduct a genome-wide association search (GWAS) using 16425 polymorphic SNP markers to identify QTL associated with resistance to leaf and stem rust at the stage of seedlings and adult plants.QTL and DNA markers of the resistance of durum wheat to the most dangerous fungal diseases were identified and new KASP markers were developed. 10 promising lines of durum wheat resistant to fungal diseases have been identified.

Multiplex systems for detecting 20 viruses of agricultural crops (apple, grape, raspberry, potato, tomato, wheat) have been developed, which have been tested on positive controls for each virus and plant material. The developed systems were introduced into the practice of detecting viral infections in the research institutes of Kazakhstan.

Cryotherapy technology was developed for the elimination of viral and bacterial infections. Cryogenic collection of apical meristems of healthy cultivars of berry crops was created. High-quality planting material of 5 commercial varieties of raspberries and 3 varieties of currants was obtained.

The monitoring of the main economically important potato viruses in seed and commodity farms of Kazakhstan was carried out.A map of the spread of potato viruses Y, X, M, S, PLRV across Kazakhstan has been created.

Research publications, 2022

Patents:

  1. Patent of the Republic of Kazakhstan for utility model No. 7018 dated 15/04/2022. Gritsenko D., Кapytina А., Кеrimbek N. «Set of synthetic oligonucleotides for detection of raspberry ringspot virus».
  2. Patent of the Republic of Kazakhstan for utility model No. 7296 dated 22/07/2022. «Set of synthetic oligonucleotides for detection of tomato brown rugose fruit virus». Gritsenko D., Pozharskiy A., Kostyukova V, Adilbayeva K.

Publications in foreign editions

1) 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. — 2022; 11(15):1904. https://doi.org/10.3390/plants11151904 (БД Web of Science; Q1, процентиль Scopus 56).

2) Romadanova N.V., Tolegen A.B., Kushnarenko S.V., Zholdybayeva E.V., Bettoni J.C. Effect of Plant Preservative MixtureTM on endophytic bacteria eradication from in vitro-grown apple shoots // Plants. – 2022. – Vol. 11. – P. 2624-2635. https://doi.org/10.3390/plants11192624 (Web of Science Q1, Scopus процентиль 71).

3) Pozharskiy A, Kostyukova V, Taskuzhina A, Nizamdinova G, Kisselyova N, Kalendar R, Karimov N, Gritsenko D. Screening a collection of local and foreign varieties of Solanum lycopersicum L. in Kazakhstan for genetic markers of resistance against three tomato viruses. Heliyon. 2022 Aug 10;8(8):e10095. doi: 10.1016/j.heliyon.2022.e10095. PMID: 36033267; PMCID: PMC9399970. (Web of Science Q2, Scopus процентиль 82).

4) Ramakrishnan M, Papolu PK, Mullasseri S, Zhou M, Wei Q, Sharma A, Ahmad Z, Satheesh V, Kalendar R, Wei Q.  The role of LTR retrotransposons in plant genetic engineering: How to control their transposition in the genome // Plant Cell Reports. —  2022. – Vol. 41(11). https://doi.org/10.1007/s00299-022-02945-z (Web of Science Q1, Scopus процентиль 92).

5) Gritsenko D., Pozharskiy A., Dolgikh S., Aubakirova K., Kenzhebekova R., Galiakparov N., Karimov N. and   Sadykov S.  Apple varieties from Kazakhstan and  their relation to foreign cultivars assessed with RosBREED 10K SNP array //  European Journal of Horticultural Science| ISSN 1611-4426 print, 1611-4434 online | https://doi.org/10.17660/eJHS.2022/006 | © ISHS 2022 (Процентиль Scopus: 62)

6) Romadanova N.V., Telegin A.B., Kushnarenko S.V. Development of biotechnology of recovery from viruses in vitro shoots and obtaining virus-free apple seedlings // Bulletin of the State Nikitsky Botanical Garden. – 2022. – Issue 144. – pp. 105-113. RSCI impact factor 0.372. DOI: 10.36305/0513-1634-2022-144-105-113 (in Rus.)

7) Kumarbayeva M.T., Keishilov Zh.S. Phytopathological monitoring of the yellow rust pathogen in Kazakhstan // Collection of the International scientific Conference «Formation and development of experimental biology in Tajikistan», dedicated to the 90th anniversary of the birth of academician Yu.S. Nasyrov. – Dushanbe, 2022. – pp. 290-292 (in Russian).

Publications in domestic editions

1) Zh.S. Keishilov, A.M. Kokhmetova, M.T. Kumarbayeva, D.K. Zhanuzak, Sh.S. Rsaliyev  Wheat yellow rust (Puccinia striiformis f.sp. monitoring of tritici disease in Almaty region for 2019-2021 // Bulletin of the Karaganda University, №2 (106), 82-88, 2022.   DOI 10.31489/2022BMG2/82-88 (in Kaz.).

2) Kumarbayeva M.K., Kokhmetova A.M., Kovalenko N.M., Kremneva O.Yu., Atishova M.N., Keishilov Zh.S., Malysheva A.A., Zhanuzak D.K., Bolatbekova A.A., Kokhmetova A.M. Identification of wheat samples for resistance to toxins Pyrenophora tritici-repentis // International journal of biology and chemistry. – 2022. – Vol. 15. –  №. 1. – P. 64-72. DOI: 10.26577/ijbch.2022.v15.i1.07

3) Malysheva A.A., Kokhmetova A.M., Kumarbayeva M.K., Zhanuzak D.K., Bolatbekova A.A., Keishilov Zh.S., Gultyaeva E.I., Kokhmetova A.M., Tsygankov V., Dutbayev Y. B., Dubekova S. B. Identification of carriers of Puccinia striiformis resistance genes in the population of recombinant inbred wheat lines // International journal of biology and chemistry. – 2022. – Vol. 15. – №. 1. – P. 4-10. DOI: https://doi.org/10.26577/ijbch.2022.v15.i1.01

4) Sapakhova Z.B., Bektayev R.T., Nizamdinova G.K., Gritsenko D.A., Daurov D.L., Daurova A.K., Zhapar K.K., Zhambakin K.Zh., Shamekova M.Kh. Bacterial diseases of cereals in Kazakhstan // Science and education (Ғылым және білім). 2022. №3 (68). С.168-177.

5) Kumarbayeva M.T., Kokhmetova A.M., Keishilov Zh.S., Chudinov V., Zhanuzak D.K. 2022. Disease monitoring to determine the level of spread and development of the pathogen Pyrenophora tritici-repentis in Kazakhstan // Herald of science of S. Seifullin KazATU (Вестник науки Казахского агротехнического университета им. С.Сейфуллина). – 2022.   — № 1 (112). – С. 258-268 DOI:10.51452/kazatu.2022.1(112).906.

7) Kerimbek N., Kapytina A., Pozharskiy A., Ni-zamdinova G., Taskuzhina A., Kostyukova V., Adilbayeva K., Gritsenko D. Development of primer sets for detection of Raspberry leaf blotch virus and Rasp-berry leaf mottle virus by multiplex RT-PCR // Eurasian Journal of Applied Biotechnology. – 2022. – №. 1. – С.33-39. https://doi.org/10.11134/btp.1.2022.4

8) Romadanova N.V., Tolegen A.B., Kushnarenko S.V. Introduction to in vitro culture of valuable blackberry varieties // Materials of International Scientific and Practical conference «Introduction, conservation of biodiversity and green construction in a changing climate and anthropogenic impact», August 31-September 2, 2022, Aktau? 2022. – P. 189-196 (in Rus.).