Characteristics and transferability of new apple EST-derived SSRs to other Rosaceae species |
| |
Authors: | Ksenija Gasic Yuepeng Han Sunee Kertbundit Vladimir Shulaev Amy F Iezzoni Ed W Stover Richard L Bell Michael E Wisniewski Schuyler S Korban |
| |
Institution: | (1) Department of Natural Resources and Environmental Sciences, University of Illinois, Urbana, IL 61801, USA;(2) Present address: Department of Horticulture, Clemson University, Clemson, SC 29634, USA;(3) Present address: Wuhan Botanical Garden, Chinese Academy of Sciences, Moshan, 430074 Wuhan, People’s Republic of China;(4) Virginia Bioinformatics Institute, Virginia Tech., Blacksburg, VA 24061, USA;(5) Department of Horticulture, Michigan State University, East Lansing, MI 48824, USA;(6) National Clonal Germplasm Repository, U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Davis, CA 95616, USA;(7) Present address: U.S. Horticultural Research Laboratory, Fort Pierce, FL 34945, USA;(8) Appalachian Fruit Research Station, U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Kearneysville, WV 25430, USA; |
| |
Abstract: | Genic microsatellites or simple sequence repeat markers derived from expressed sequence tags (ESTs), referred to as EST–SSRs,
are inexpensive to develop, represent transcribed genes, and often have assigned putative function. The large apple (Malus × domestica) EST database (over 300,000 sequences) provides a valuable resource for developing well-characterized DNA molecular markers.
In this study, we have investigated the level of transferability of 68 apple EST–SSRs in 50 individual members of the Rosaceae
family, representing three genera and 14 species. These representatives included pear (Pyrus communis), apricot (Prunus armeniaca), European plum (P. domestica), Japanese plum (P. salicina), almond (P. dulcis), peach (P. persica), sour cherry (P. cerasus), sweet cherry (P. avium), strawberry (Fragaria vesca, F. moschata, F. virginiana, F. nipponica, and F. pentaphylla), and rose (Rosa hybrida). All 68 primer pairs gave an amplification product when tested on eight apple cultivars, and for most, the genomic DNA-derived
amplification product matched the expected size based on EST (in silico) data. When tested across members of the Rosaceae, 75% of these primer pairs produced amplification products. Transferability
of apple EST–SSRs across the Rosaceae ranged from 25% in apricot to 59% in the closely related pear. Besides pear, the highest
transferability of these apple EST–SSRs, at the genus level, was observed for strawberry and peach/almond, 49 and 38%, respectively.
Three markers amplified in at least one genotype within all tested species, while eight additional markers amplified in all
species, except for cherry. These 11 markers are deemed good candidates for a widely transferable Rosaceae marker set provided
their level of polymorphism is adequate. Overall, these findings suggest that transferability of apple EST–SSRs across Rosaceae
is varied, yet valuable, thereby providing additional markers for comparative mapping and for carrying out evolutionary studies. |
| |
Keywords: | Expressed sequenced tags (EST) Rosaceae Simple sequence repeats (SSR) Transferability |
本文献已被 SpringerLink 等数据库收录! |
|