Molecular analysis of gibberellin receptor gene GID1 in Dasypyrum villosum and development of DNA marker for its identification
- Authors: Razumova O.V.1,2, Bazhenov M.S.1, Nikitina E.A.1, Nazarova L.A.1, Romanov D.V.1, Chernook A.G.1, Sokolov P.A.3, Kuznetsova V.M.1, Semenov O.G.4, Karlov G.I.1,3, Kharchenko P.N.1, Divashuk M.G.1,3
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Affiliations:
- All-Russia Research Institute of Agricultural Biotechnology
- Moscow Botanical Garden of Academy of Sciences
- Russian State Agrarian University - Moscow Timiryazev Agricultural Academy
- Рeoples’ Friendship University of Russia (RUDN University)
- Issue: Vol 15, No 1 (2020)
- Pages: 62-85
- Section: Genetics and plant breeding
- URL: https://agrojournal.rudn.ru/agronomy/article/view/19544
- DOI: https://doi.org/10.22363/2312-797X-2020-15-1-62-85
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Abstract
Dasypyrum villosum is an annual cereal used as a donor of agronomic traits for wheat. Productivity is one of the most important traits that breeding is aimed at. It is a very complex trait, the formation of which is influenced by many different factors, both internal (the genotype of the plant) and external. The genes responsible for the gibberellin sensitivity played a large role in multiplying yields of cereal crops. Another such gene is the Gid1, which encodes a receptor for gibberellins. This article compares the DNA sequences of the Gid1 gene obtained from six Dasypyrum villosum samples. Using a sequence of wheat and rye taken from the GenBank database (NCBI), we selected primers for regions of different genomes (A, B, and D subgenomes of wheat and the R genome of rye), and carried out a polymerase chain reaction on D. villosum accessions of diverse geographical origin. The resulting PCR product was sequenced by an NGS method. Based on the assembled sequences, DNA markers have been created that make it possible to differentiate these genes of the V genome and homologous genes of wheat origin. Using monosomic addition, substitution, and translocation wheat lines, the localization of the Gid1 gene of D. villosum was established on the long arm of the first V chromosome. A phenotypic assessment of common wheat lines carrying substituted, translocated, or added D. villosum chromosomes in their karyotype was performed. Tendency of disappearance of the first chromosome of D. villosum in the lines with added chromosomes was revealed.
About the authors
Olga Vladimirovna Razumova
All-Russia Research Institute of Agricultural Biotechnology; Moscow Botanical Garden of Academy of Sciences
Author for correspondence.
Email: razumovao@gmail.com
Candidate of Biological Sciences, Senior Researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationMikhail Sergeevich Bazhenov
All-Russia Research Institute of Agricultural Biotechnology
Email: mikhabazhenov@gmail.com
Candidate of Biological Sciences, senior researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationEkaterina Aleksandrovna Nikitina
All-Russia Research Institute of Agricultural Biotechnology
Email: shhket@gmail.com
Laboratory Assistant, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationLyubov Andreevna Nazarova
All-Russia Research Institute of Agricultural Biotechnology
Email: lpukhova@yandex.ru
Junior Researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationDmitry Viktorovich Romanov
All-Russia Research Institute of Agricultural Biotechnology
Email: akabos1987@gmail.com
Candidate of Biological Sciences, senior researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationAnastasiya Gennadievna Chernook
All-Russia Research Institute of Agricultural Biotechnology
Email: Irbis-sibrI@yandex.ru
Junior Researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationPavel Andreevich Sokolov
Russian State Agrarian University - Moscow Timiryazev Agricultural Academy
Email: pav2395147@yandex.ru
Laboratory Assistant Researcher, Center for Molecular Biotechnology
Moscow, Russian FederationViktoria Maksimovna Kuznetsova
All-Russia Research Institute of Agricultural Biotechnology
Email: vika-kuz367@yandex.ru
Junior Researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationOleg Grigorievich Semenov
Рeoples’ Friendship University of Russia (RUDN University)
Email: semenov_og@rudn.university
Candidate of Biological Sciences, professor, Technosphere Safety Department, Agrarian-technological Institute
Moscow, Russian FederationGennady Ilyich Karlov
All-Russia Research Institute of Agricultural Biotechnology; Russian State Agrarian University - Moscow Timiryazev Agricultural Academy
Email: karlovg@gmail.com
Doctor of Biological Sciences, Professor, Academician of the Russian Academy of Sciences, Director
Moscow, Russian FederationPetr Nikolaevich Kharchenko
All-Russia Research Institute of Agricultural Biotechnology
Email: iab@iab.ru
Doctor of Biological Sciences, Professor, Academician of the Russian Academy of Sciences, Scientific Advisor
Moscow, Russian FederationMikhail Georgievich Divashuk
All-Russia Research Institute of Agricultural Biotechnology; Russian State Agrarian University - Moscow Timiryazev Agricultural Academy
Email: divashuk@gmail.com
Candidate of Biological Sciences, leading researcher, Laboratory of Applied Genomics and Private Breeding of Agricultural Plants
Moscow, Russian FederationReferences
- Ray DK, Mueller ND, West PC, Foley JA.Yield trends are insufficient to double global crop production by 2050. PloS one. 2013; 8(6): e66428. doi: 10.1371/journal.pone.0066428
- Minelli S, Ceccarelli M, Mariani M, De Pace C, Cionini PG. Cytogenetics of Triticum× Dasypyrum hybrids and derived lines. Cytogenetic and genome research. 2005; 109(1-3):385-392. doi: 10.1159/000082424
- Li H, Dong Z, Ma C, Tian X, Qi Z, Wu N, et al. Physical Mapping of Stem Rust Resistance Gene Sr52 from Dasypyrum villosum Based on ph1b-Induced Homoeologous Recombination. International Journal of Molecular Sciences. 2019; 20(19):4887. doi: 10.3390/ijms20194887
- Djanaguiraman M, Prasad PV, Kumari J, Sehgal SK, Friebe B, Djalovic I, et al. Alien chromosome segment from Aegilops speltoides and Dasypyrum villosum increases drought tolerance in wheat via profuse and deep root system. BMC plant biology. 2019; 19(1):242. doi: 10.1186/s12870-019-1833-8
- Zhang R, Fan Y, Kong L, Wang Z, Wu J, Xing L, et al. Pm62, an adult-plant powdery mildew resistance gene introgressed from Dasypyrum villosum chromosome arm 2VL into wheat. Theoretical and Applied Genetics. 2018; 131(12):2613-2620. doi: 10.1007/s00122-018-3176-5
- Li G, Gao D, Zhang H, Li J, Wang H, La S, et al. Molecular cytogenetic characterization of Dasypyrum breviaristatum chromosomes in wheat background revealing the genomic divergence between Dasypyrum species. Molecular Cytogenetics. 2016; 9(1):6. doi: 10.1186/s13039-016-0217-0
- Zhang H, Li G, Li D, Gao D, Zhang J, Yang E, et al. Molecular and cytogenetic characterization of new wheat - Dasypyrum breviaristatum derivatives with post-harvest re-growth habit. Genes. 2015;6(4):1242-1255. doi: 10.3390/genes6041242
- Blanco A, Simeone R, Resta P. The addition of Dasypyrum villosum (L.) Candargy chromosomes to durum wheat (Triticum durum Desf.). Theoretical and applied genetics. 1987; 74(3):328-333. doi: 10.1007/ BF00274714
- Friebe B, Cermeno MC, Zeller FJ. C-banding polymorphism and the analysis of nucleolar activity in Dasypyrum villosum (L.) Candargy, its added chromosomes to hexaploid wheat and the amphiploid Triticum dicoccum - D. villosum. Theoretical and applied genetics. 1987; 73(3):337-342. doi: 10.1007/BF00262498
- Liu C, Qi L, Liu W, Zhao W, Wilson J, Friebe B, et al. Development of a set of compensating Triticum aestivum-Dasypyrum villosum Robertsonian translocation lines. Genome. 2011; 54(10):836-844. doi: 10.1139/ g11-051
- Zhang R, Hou F, Feng Y, Zhang W, Zhang M, Chen P., et al. Characterization of a Triticum aestivum - Dasypyrum villosum T2VS2DL translocation line expressing a longer spike and more kernels traits. Theoretical and applied genetics. 2015; 128(12):2415-2425. doi: 10.1007/s00122-015-2596-8
- De Pace C, Snidaro D, Ciaffi M, Vittori D, Ciofo A, Cenci A, et al. Introgression of Dasypyrum villosum chromatin into common wheat improves grain protein quality. Euphytica. 2001; 117(1):67-75. doi: 10.1023/A:1004095705460
- Okuno A, Hirano K, Asano K, Takase W, Masuda R, Morinaka Y, et al. New approach to increasing rice lodging resistance and biomass yield through the use of high gibberellin producing varieties. PLoS One. 2014; 9(2): e86870. doi: 10.1371/journal.pone.0086870
- Wu Y, Wang Y, Mi XF, Shan JX, Li XM, Xu JL, et al. The QTL GNP1 encodes GA20ox1, which increases grain number and yield by increasing cytokinin activity in rice panicle meristems. PLoS genetics. 2016; 12(10): e1006386. doi: 10.1371/journal.pgen.1006386
- Hedden P. The genes of the Green Revolution. TRENDS in Genetics. 2003; 19(1):5-9. doi: 10.1016/ S0168-9525(02)00009-4
- Peng J, Richards DE, Hartley NM, Murphy GP, Devos KM, Flintham JE, et al. ‘Green revolution’ genes encode mutant gibberellin response modulators. Nature. 1999; 400(6741):256-261. doi: 10.1038/22307
- Gallego-Giraldo C, Hu J, Urbez C, Gomez MD, Sun TP, et al. Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis. The Plant Journal. 2014; 79(6):1020-1032. doi: 10.1111/tpj.12603
- Harberd NP, Belfield E, Yasumura Y. The angiosperm gibberellin-GID1-DELLA growth regulatory mechanism: how an “inhibitor of an inhibitor” enables flexible response to fluctuating environments. The Plant Cell. 2009; 21(5):1328-1339. doi: 10.1105/tpc.109.066969
- Murray MG, Thompson WF. Rapid isolation of high molecular weight plant DNA. Nucleic acids research. 1980; 8(19):4321-4326. doi: 10.1093/nar/8.19.4321
- Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Journal of computational biology. 2012; 19(5):455-477. doi: 10.1089/cmb.2012.0021
- Zaharia M, Bolosky WJ, Curtis K, Fox A, Patterson D, Shenker S, et al. Faster and more accurate sequence alignment with SNAP. 2011. Available from: http://www.icsi.berkeley.edu/pubs/networking/ICSI_ fasterandmoreaccurate11.pdf
- Nicholas KB, Nicholas HB. Genedoc: a tool for editing and annotating multiple sequence alignments. 1997. Available from: www.nrbsc.org/gfx/genedoc/index.html
- Zhang R, Sun B, Chen J, Cao A, Xing L, Feng Y, et al. Pm55, a developmental-stage and tissue-specific powdery mildew resistance gene introgressed from Dasypyrum villosum into common wheat. Theoretical and Applied Genetics. 2016; 129(10):1975-1984. doi: 10.1007/s00122-016-2753-8
- Sokolov PA, Krupin PY, Divashuk MG, Karlov GI. Using PLUG-markers to analyze the collection of soft wheat lines disomically complemented with Dasypyrum villosum chromosomes. Izvestiya of Timiryazev agricultural academy. 2017; (4):147–157. (In Russ).