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Genetic profile of local shallot cultivars collected in Samosir Island based on simple sequence repeats (SSR) analysis

Hidayat, I. M., Rosliani, R., Reflinur, R., Enggarini, W. M.
Acta horticulturae 2016 no.1143 pp. 245-250
Allium hierochuntinum, agricultural biotechnology, assets, bulbs, color, crops, cultivars, farmers, flavor, genetic similarity, horticulture, income, leaves, local government, microsatellite repeats, research and development, surveys, vegetables, Indonesia
In the 1980th, Samosir Island was one of shallot production center in Indonesia. The local shallot cultivar 'Samosir' was known possessing a good flavor and red bulb color as preferred by the consumers. Recently, shallot (Allium ascalonicum L.) is considered as one of economical horticulture crops, that the local government expects this particular shallot cultivar as one of government assets which can contribute to their income. Since shallot is a vegetatively propagated crop, and can not be stored for a long period of time, it is difficult to find the source of genuine local cultivar as starting materials for seed production or crop improvement. Survey to collect this local 'Samosir' cultivar was conducted in 2013 in production area in Samosir Island, and 11 accessions were collected from farmers, seed grower and traders. Seeds were propagated in the Experimental Station, Indonesian Vegetable Research Institute. Leaf samples were analyzed by using Simple Sequence Repeats (SSR) at Molecular laboratory, Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor. A dendogram generated from UPGMA of 20 SSR primers indicated that 11 accessions were in one cluster with two sub clusters consisted of (SM1, SM2, SM3, SM4, and SM9, and sub cluster consisted of SM5, SM 6, SM8, SM 10, SM11 and Sipayung) at genetic similarity 0.95, while SM7 was separated at genetic similarity 0.88. Morphological assessment so far did not indicate any difference and bulb shape and color compared with the documented description in 1984, and observation could be focused toward 11 accessions in the same cluster. Further comprehensive study on morphological assessment should be conducted to identify the most probably the local cultivar of 'Samosir'.