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Klimenko IA, Volovik VT, Antonov AA, Dushkin VA, Shamustakimova AO, Mavlyutov YM. Investigation of genetic polymorphism of Russian rape and turnip rape varieties using SSR and SRAP markers. Vavilovskii Zhurnal Genet Selektsii 2022; 26:349-358. [PMID: 35860676 PMCID: PMC9259662 DOI: 10.18699/vjgb-22-42] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Revised: 03/09/2022] [Accepted: 03/09/2021] [Indexed: 11/19/2022] Open
Abstract
Rapeseed (Brassica napus L.) and turnip rape (B. rapa L. subsp. campestris (L.)) are important agricultural plants widely used for food, fodder and technical purposes and as green manure. Over the past decades, a large number of perspective varieties that are being currently cultivated in every region of Russia have been developed. To increase the breeding efficiency and facilitate the seed production, modern molecular-genetic techniques should be introduced as means to estimate species and varietal diversity. The objective of the presented research study was to investigate DNA polymorphism of the rapeseed and turnip rape varieties developed at Federal Williams Research Center of Forage Production and Agroecology and detect informative markers for varietal identification and genetic certification. To genotype 18 gDNA samples, 42 and 25 combinations of respective SSR and SRAP primers were used. The results obtained demonstrate that SRAP markers were more effective for polymorphism analysis: 36 % of the tested markers revealed genetic polymorphism compared with only 16.7 % of microsatellite loci. Molecular markers to detect differences at interspecific and intervarietal levels have also been found. For the investigated set, such microsatellite loci as Na12A02, Ni2C12, Ni02-D08a, Ra02-E01, Ni03H07а and SRAP-marker combinations as F13-R9, Me4-R7, F11-Em2, F10-R7, F9-Em2 and F9-R8 proved to be informative. Application of the two marker techniques made it possible to detect a higher level of DNA polymorphism in plants of different types (spring and winter varieties) if compared against the intervarietal differences within a species or a group. According to Nei’s genetic diversity index, in the cluster of winter rapeseed, VIK 2 and Gorizont varieties had the longest genetic distance, and in the spring cluster, these were Novosel and Veles. A high level of similarity was found between Vikros and Bizon winter rapeseed varieties. The results obtained have a high practical value for varietal specification of seed material and genetic certification of rapeseed and turnip rape varieties.
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Affiliation(s)
- I. A. Klimenko
- Federal Williams Research Center of Forage Production and Agroecology
| | - V. T. Volovik
- Federal Williams Research Center of Forage Production and Agroecology
| | - A. A. Antonov
- Federal Williams Research Center of Forage Production and Agroecology
| | - V. A. Dushkin
- Federal Williams Research Center of Forage Production and Agroecology
| | | | - Yu. M. Mavlyutov
- Federal Williams Research Center of Forage Production and Agroecology
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Amosova AV, Samatadze TE, Mozgova GV, Kipen VN, Dubovskaya AG, Artemyeva AM, Yurkevich OY, Zoshchuk SA, Lemesh VA, Muravenko OV. Genomic Markers Associated with Cold-Hardiness in Brassica rapa L. Mol Biol 2020. [DOI: 10.1134/s0026893320040032] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Amosova AV, Zoshchuk SA, Volovik VT, Shirokova AV, Horuzhiy NE, Mozgova GV, Yurkevich OY, Artyukhova MA, Lemesh VA, Samatadze TE, Muravenko OV. Phenotypic, biochemical and genomic variability in generations of the rapeseed (Brassica napus L.) mutant lines obtained via chemical mutagenesis. PLoS One 2019; 14:e0221699. [PMID: 31461492 PMCID: PMC6713389 DOI: 10.1371/journal.pone.0221699] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2019] [Accepted: 08/13/2019] [Indexed: 01/06/2023] Open
Abstract
The phenotypic, biochemical and genetic variability was studied in M2-M5 generations of ethyl methansulfonat (EMS, 0.2%) mutagenized rapeseed lines generated from canola, '00', B. napus cv. Vikros. EMS mutagenesis induced extensive diversity in morphological and agronomic traits among mutant progeny resulted in selection of EMS populations of B. napus- and B. rapa-morphotypes. The seeds of the obtained mutant lines were high-protein, low in oil and stabilized in contents of main fatty acids which make them useful for feed production. Despite the increased level of various meiotic abnormalities revealed in EMS populations, comparative karyotype analysis and FISH-based visualization of 45S and 5S rDNA indicated a high level of karyotypic stability in M2-M5 plants, and therefore, the obtained mutant lines could be useful in further rapeseed improvement. The revealed structural chromosomal reorganizations in karyotypes of several plants of B. rapa-type indicate that rapeseed breeding by chemical mutagenesis can result in cytogenetic instability in the mutant progeny, and therefore, it should include the karyotype examination. Our findings demonstrate that EMS at low concentrations has great potential in rapeseed improvement.
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Affiliation(s)
- Alexandra V. Amosova
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russian Federation
- * E-mail:
| | - Svyatoslav A. Zoshchuk
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russian Federation
| | - Valentina T. Volovik
- Federal Williams Research Center of Forage Production and Agroecology, Lobnya, Moscow region, Russian Federation
| | - Anna V. Shirokova
- Koltzov Institute of Developmental Biology, Russian Academy of Sciences, Moscow, Russian Federation
| | - Nickolai E. Horuzhiy
- Institute of Genetics and Cytology, National Academy of Sciences of Belarus, Minsk, Belarus
| | - Galina V. Mozgova
- Institute of Genetics and Cytology, National Academy of Sciences of Belarus, Minsk, Belarus
| | - Olga Yu. Yurkevich
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russian Federation
| | - Margarita A. Artyukhova
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russian Federation
| | - Valentina A. Lemesh
- Institute of Genetics and Cytology, National Academy of Sciences of Belarus, Minsk, Belarus
| | - Tatiana E. Samatadze
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russian Federation
| | - Olga V. Muravenko
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russian Federation
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Phenotypic and molecular cytogenetic variability in calendula (Calendula officinalis L.) cultivars and mutant lines obtained via chemical mutagenesis. Sci Rep 2019; 9:9155. [PMID: 31235779 PMCID: PMC6591508 DOI: 10.1038/s41598-019-45738-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2019] [Accepted: 06/12/2019] [Indexed: 11/19/2022] Open
Abstract
The morphological, meiotic and chromosomal variability were studied in two cultivars of Calendula officinalis L. and their mutant lines obtained though chemical mutagenesis using diethyl sulphate (DES) (0.04%, 0.08%) and dimethyl sulphate (DMS) (0.025%, 0.05%). The studied cultivars displayed different sensitivity to DMS and DES mutagens. More M1 plants with morphological changes were observed in C. officinalis cv. ‘Zolotoe more’ than in cv. ‘Rajskij sad’. DMS and DES at low concentrations had positive effects on main agro-metrical traits in both cultivars including plant height, inflorescence diameter and number of inflorescences per plant. Dose-dependent increase in number of various meiotic abnormalities was revealed in both mutant lines. Comparative karyotype analysis and FISH-based visualization of 45S and 5S rDNA indicated a high level of karyotype stability in M1 and M2 plants. Seed treatments with DMS and DES at certain concentrations resulted in higher yields of inflorescences in M1 plants compared to the control. In M2 generation, dose-dependent reduction in the yields of inflorescences was observed. Our findings demonstrate that DMS and DES at low concentrations have great potential in calendula mutation breeding.
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Yurkevich OY, Samatadze TE, Levinskikh MA, Zoshchuk SA, Signalova OB, Surzhikov SA, Sychev VN, Amosova AV, Muravenko OV. Molecular Cytogenetics of Pisum sativum L. Grown under Spaceflight-Related Stress. BIOMED RESEARCH INTERNATIONAL 2018; 2018:4549294. [PMID: 30627557 PMCID: PMC6304655 DOI: 10.1155/2018/4549294] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2018] [Revised: 10/26/2018] [Accepted: 11/22/2018] [Indexed: 11/17/2022]
Abstract
The ontogenesis and reproduction of plants cultivated aboard a spacecraft occur inside the unique closed ecological system wherein plants are subjected to serious abiotic stresses. For the first time, a comparative molecular cytogenetic analysis of Pisum sativum L. (Fabaceae) grown on board the RS ISS during the Expedition-14 and Expedition-16 and also plants of their succeeding (F1 and F2) generations cultivated on Earth was performed in order to reveal possible structural chromosome changes in the pea genome. The karyotypes of these plants were studied by multicolour fluorescence in situ hybridization (FISH) with five different repeated DNA sequences (45S rDNA, 5S rDNA, PisTR-B/1, microsatellite motifs (AG)12, and (GAA)9) as probes. A chromosome aberration was revealed in one F1 plant. Significant changes in distribution of the examined repeated DNAs in karyotypes of the "space grown" pea plants as well as in F1 and F2 plants cultivated on Earth were not observed if compared with control plants. Additional oligo-(GAA)9 sites were detected on chromosomes 6 and 7 in karyotypes of F1 and F2 plants. The detected changes might be related to intraspecific genomic polymorphism or plant cell adaptive responses to spaceflight-related stress factors. Our findings suggest that, despite gradual total trace contamination of the atmosphere on board the ISS associated with the extension of the space station operating life, exposure to the space environment did not induce serious chromosome reorganizations in genomes of the "space grown" pea plants and generations of these plants cultivated on Earth.
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Affiliation(s)
- Olga Yu. Yurkevich
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
| | - Tatiana E. Samatadze
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
| | | | - Svyatoslav A. Zoshchuk
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
| | - Olga B. Signalova
- Institute of Biomedical Problems, Russian Academy of Sciences, 123007 Moscow, Russia
| | - Sergei A. Surzhikov
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
| | - Vladimir N. Sychev
- Institute of Biomedical Problems, Russian Academy of Sciences, 123007 Moscow, Russia
| | - Alexandra V. Amosova
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
| | - Olga V. Muravenko
- Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
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Sochorová J, Coriton O, Kuderová A, Lunerová J, Chèvre AM, Kovařík A. Gene conversion events and variable degree of homogenization of rDNA loci in cultivars of Brassica napus. ANNALS OF BOTANY 2017; 119:13-26. [PMID: 27707747 PMCID: PMC5218374 DOI: 10.1093/aob/mcw187] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2016] [Accepted: 07/12/2016] [Indexed: 05/20/2023]
Abstract
BACKGROUND AND AIMS Brassica napus (AACC, 2n = 38, oilseed rape) is a relatively recent allotetraploid species derived from the putative progenitor diploid species Brassica rapa (AA, 2n = 20) and Brassica oleracea (CC, 2n = 18). To determine the influence of intensive breeding conditions on the evolution of its genome, we analysed structure and copy number of rDNA in 21 cultivars of B. napus, representative of genetic diversity. METHODS We used next-generation sequencing genomic approaches, Southern blot hybridization, expression analysis and fluorescence in situ hybridization (FISH). Subgenome-specific sequences derived from rDNA intergenic spacers (IGS) were used as probes for identification of loci composition on chromosomes. KEY RESULTS Most B. napus cultivars (18/21, 86 %) had more A-genome than C-genome rDNA copies. Three cultivars analysed by FISH ('Darmor', 'Yudal' and 'Asparagus kale') harboured the same number (12 per diploid set) of loci. In B. napus 'Darmor', the A-genome-specific rDNA probe hybridized to all 12 rDNA loci (eight on the A-genome and four on the C-genome) while the C-genome-specific probe showed weak signals on the C-genome loci only. Deep sequencing revealed high homogeneity of arrays suggesting that the C-genome genes were largely overwritten by the A-genome variants in B. napus 'Darmor'. In contrast, B. napus 'Yudal' showed a lack of gene conversion evidenced by additive inheritance of progenitor rDNA variants and highly localized hybridization signals of subgenome-specific probes on chromosomes. Brassica napus 'Asparagus kale' showed an intermediate pattern to 'Darmor' and 'Yudal'. At the expression level, most cultivars (95 %) exhibited stable A-genome nucleolar dominance while one cultivar ('Norin 9') showed co-dominance. CONCLUSIONS The B. napus cultivars differ in the degree and direction of rDNA homogenization. The prevalent direction of gene conversion (towards the A-genome) correlates with the direction of expression dominance indicating that gene activity may be needed for interlocus gene conversion.
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Affiliation(s)
- Jana Sochorová
- Laboratory of Molecular Epigenetics, Institute of Biophysics, Královopolská 135, 61265 Brno, Czech Academy of Science, v.v.i., Czech Republic
| | - Olivier Coriton
- Institut National de la Recherche Agronomique (INRA), UMR 1349 IGEPP, BP 35327, F-35653 Le Rheu cedex, France
| | - Alena Kuderová
- Laboratory of Molecular Epigenetics, Institute of Biophysics, Královopolská 135, 61265 Brno, Czech Academy of Science, v.v.i., Czech Republic
| | - Jana Lunerová
- Laboratory of Molecular Epigenetics, Institute of Biophysics, Královopolská 135, 61265 Brno, Czech Academy of Science, v.v.i., Czech Republic
| | - Anne-Marie Chèvre
- Institut National de la Recherche Agronomique (INRA), UMR 1349 IGEPP, BP 35327, F-35653 Le Rheu cedex, France
| | - Aleš Kovařík
- Laboratory of Molecular Epigenetics, Institute of Biophysics, Královopolská 135, 61265 Brno, Czech Academy of Science, v.v.i., Czech Republic
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Zemtsova LV, Amosova AV, Samatadze TE, Bolsheva NL, Volovik VT, Zelenin AV, Muravenko OV. Differentiation of closely related genomes and chromosome identification in Brassica napus L. By simultaneous fluorescence in situ hybridization and genomic in situ hybridization. DOKL BIOCHEM BIOPHYS 2014; 457:137-40. [PMID: 25172335 DOI: 10.1134/s1607672914040061] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2014] [Indexed: 11/22/2022]
Affiliation(s)
- L V Zemtsova
- Engelgardt Institute of Molecular Biology of RAS, ul. Vavilova 32, Moscow, 119991, Russia,
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