Genetic Characterization of Some Species of Vetch (VICIA L.) Grown in Turkey with SSR Markers

Year 2022, Volume: 28 Issue: 3, 518 - 524, 05.09.2022

Cebrail Yıldırım , Onur Okumuş , Satı Uzun , Şeyda Nur Turkay , Ahmet Say , Melike Bakır

https://doi.org/10.15832/ankutbd.934655

Abstract

The genus vetch (Vicia L.) is grown worldwide for fodder, hay, grain and silage, and rich in protein, mineral substances, vitamins and an essential source of roughage in animal husbandry. However, genetic characterization studies in vetch are minimal. In this study, the genetic characterization of a total 37 accessions of five vetches (Vicia L.) species was investigated using SSR markers. A total of 18 SSR markers were used, and eight of them were showed polymorphism and used for genetic analysis of vetch accessions. The total number of alleles was 35, and the average number of alleles for each locus was determined as 4.38. The average heterozygote rate was found to be 0.49. The polymorphism information content (PIC) value varied between 0.23 and 0.77, and the average value was 0.44. Although almost a clear distinction was observed among the species, very high similarities were found between some cultivars within the same species. This similarity may be due to the narrow structure of the vetch genome or the inability of the SSR markers used in this study to distinguish the narrow structure of the vetch genome. The results reported here will be contributed to future germplasm management efforts and for comparative studies in vetch.

Keywords

Cross-amplification, Genetic variation, Microsatellites, Genetic diversity, Vetch, Vicia L.

References

• Agar G, Adiguzel A, Baris O, Sengul M, Gulluce M, Sahin F & Bayrak O F (2006). FAME and RAPD analysis of selected Vicia taxa from eastern Anatolia, Turkey. In Annales Botanici Fennici (pp. 241-249). Finnish Zoological and Botanical Publishing Board.
• Avcıoglu R, Hatipoglu R & Karadag Y (2009). Vetches, Bitter Vetch and Black Lentils. TC. The Ministry of Agriculture and Forestry, General Directorate of Agricultural Production and Development. p. 402-434.
• Bakır M & Kahraman A (2019). Development of New SSR (Simple Sequence Repeat) Markers for Lentils (Lens culinaris Medik.) from Genomic Library Enriched with AG and AC Microsatellites. Biochemical genetics, 57(2), 338-353.
• Bozkurt M (2009). The Determination of Relationships of Some Vicia L. Species Growing In the Mediterranean and Central Anatolia by the Using Molecular Methods. Selcuk University Faculty of Science, PhD Thesis 52 pages, Konya, Turkey.
• Cheeke P R & Shull L R (1985). Natural Toxicants in Feeds and Poisonous Plants. AVI Publishing, Westport, CN.
• Chung J W, Kim T S, Suresh S, Lee S Y & Cho G T (2013). Development of 65 novel polymorphic cDNA-SSR markers in common vetch (Vicia sativa subsp. sativa) using next-generation sequencing. Molecules, 18, 8376–8392.
• Davis P H (1970). Flora of Turkey and the East Aegean Islands. Edinburgh Univ. Press, Edinburgh, 328-369.
• Davis P H & Plitmann U (1970). Vicia L. Flora of Turkey and East Aegean Islands. Edinburgh University Press, Edinburgh, Vol. 3.
• Demir S (2020). Development of New SSR (Simple Sequence Repeats) Markers for Lentils (Lens Culinaris Medik.) From Genomic Library Enriched with AG and AC Microsatellites and Transferability of Other Legume Species. Erciyes University Faculty of Agriculture, Ms. Thesis 55 pages, Kayseri, Turkey.
• Dutta S, Kumawat G, Singh B P, Gupta D K, Singh S, Dogra V, Gaikwad K, Sharma T R, Raje R S, Bandhopadhya T K, Datta S, Singh M N, Bashasab F, Kulwal P, Wanjari K B, Varshney R K, Cook D R & Singh N K (2011). Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh]. BMC plant biology, 11(1), 17.
• Ertus M M, Sabancı C O & Sensoy S (2016). Determination of Molecular Diversity with ISSR Markers in Some Cultivated Alfalfa (Medicago sativa L.) Ecotypes. Journal of Field Crops Central Research Institute, 25(Special Issue-1), 249-254.
• Genckan M S (1992). Forage Crops Production. Ege University Press, Izmir (in Turkish).
• Hanelt, P., Mettin, D. (1989). Biosystematics of the genus Vicia L. (Leguminosae). Annu Rep Ecol Syst, 20:199–223. Ibanez S, Medina M I & Agostini E (2020). Vicia: a green bridge to clean up polluted environments. Applied microbiology and biotechnology, 104(1), 13-21.
• Kartal G K, Senbek G, Karaca M & Acikgoz E (2020). Hybridization studies in Vicia sativa complex. Euphytica, 216(2), 29.
• Kıran Y, Gedik O & Sahin A (2012). Karyological Investigate on Nine Species of Vicia Section from Vicia Genus Growing in Elazıg and Surrounding. BEU. Journal of Science, 1(1): 11-18, 2012 (1)1, 11-18.
• Kupicha F K (1976). The infrageneric structure of Vicia L. R. Bot. Gard. 32, 247-250.
• Larbi A, Hassan S, Kattash G, Abd El-Moneim A M, Jammal B, Nabila H & Nakkoul H (2010). Annual feed legume yield and quality in dryland environments in north-west Syria: 2. Grain and straw yield and straw quality. Anim. Feed Sci. Tech. 160:90-97.
• Lefort F, Lally M, Thompson D & Douglas G C (1998). Morphological traits, microsatellite fingerprinting and genetic relatedness of a stand of elite oaks (Q. robur L.) at Tullynally, Ireland. Silvae Genetica, 47:5-6.
• Liu K & Muse S V (2005). PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21: 2128-2129.
• Maul J, Mirsky S, Emche S & Devine T (2011). Evaluating a germplasm collection of the cover crop hairy vetch for use in sustainable farming systems. Crop Science, 51(6), 2615-2625.
• Mengoni A, Gori A & Bazzicalupo M (2000). Use of RAPD and microsatellite (SSR) variation to assess genetic relationships among populations of tetraploid alfalfa, Medicago sativa. Plant breeding, 119(4), 311-317.
• Nei M (1973). Analysis of gene diversity in subdivided populations. The Proceedings of the National Academy of Science, 70: 3321-3323.
• Nunome T, Negoro S, Kono I, Kanamori H, Miyatake K, Yamaguchi H, Ohyama A & Fukuoka H (2009). Development of SSR markers derived from SSR-enriched genomic library of eggplant (Solanum melongena L.). Theoretical and Applied Genetics, 119(6), 1143-1153.
• O’Neill R, Snowdon R J & Kohler W (2003). Population genetics aspects of biodiversity. Prog. Bot. 64: 115–137.
• Ozsensoy Y & Kurar E (2012). Marker Systems and Applications in Genetic Characterization Studies. Journal of Cell and Molecular Biology, 10 (2), 11.
• Potokina E, Blattner F, Alexandrova T & Bachmann K (2002). AFLP diversity in the common vetch (Vicia sativa L.) on the world scale. Theoretical and Applied Genetics, 105(1), 58-67.
• Potokina E, Vaughan D A, Eggi E E & Tomooka N (2000). Population diversity of the Vicia sativa agg. (Fabaceae) in the flora of the former USSR deduced from RAPD and seed protein analyses. Genetic Resources and Crop Evolution, 47(2), 171-183.
• Raveendar S, Lee G A, Jeon Y A, Lee Y J, Lee J R, Cho G T, Cho J H, Park J H, Ma K H & Chung J W (2015). Cross-amplification of Vicia sativa subsp. sativa microsatellites across 22 other Vicia species. Molecules 20, 1543–1550. doi: 10.3390/molecules20011543.
• Renna M, Gasmi-Boubaker A, Lussiana C, Battaglini L M, Belfayez K & Fortina R (2014). Fatty Acid Composition of the Seed Oils of Selected Vicia L. Taxa from Tunisia. Italian Journal of Animal Science, 13:2, 3193, DOI: 10.4081/ijas.2014.3193.
• Renzi J P, Chantre G R, Smýkal P, Presotto A D, Zubiaga L, Garayalde A F & Cantamutto M A (2020). Diversity of naturalized hairy vetch (Vicia villosa Roth) populations in central Argentina as a source of potential adaptive traits for breeding. Frontiers in Plant Science, 11, 189.
• Renzi J P, Chantre G R & Cantamutto M A (2017). Self‐regeneration of hairy vetch (Vicia villosa Roth) as affected by seedling density and soil tillage method in a semi‐arid agroecosystem. Grass and Forage Science, 72(3), 524-533. Schuelke M (2000) An economic method for the fluorescent labelling of PCR fragments. Nature Biotechnology 18: 233-234.
• Tamura K, Dudley J, Nei M & Kumar S (2007). MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Molecular Biology and Evolution 24: 1596-1599.
• Tautz D (1989). Hypervariability of simple sequence as a general source for polymorphic DNA markers. Nucl. Acids Res, 7,6463-6470.
• Unverdi M A (2007). Research on the Determination of Morphological and Molecular Diversity Among Some Vetch Cultivars Registered in Turkey. Cukurova University Faculty of Agriculture, Ms. Thesis 68 pages, Adana, Turkey.
• van de Wouw M, Enneking D, Robertson L D & Maxted N (2001). Vetches (Vicia L.). In: Maxted N, Bennett S.J. (eds) Plant Genetic Resources of Legumes in the Mediterranean. Current Plant Science and Biotechnology in Agriculture, vol 39. Springer, Dordrecht. https://doi.org/10.1007/978-94-015-9823-1_8.