Identification of simple sequence repeat markers in the dromedary (Camelus dromedarius) genome by next-generation sequencing

Authors : Monther SADDER, Hussein MIGDADI, Ahmed ALHAIDARY, Aly OKAB

Pages : 218-228

Doi:10.3906/vet-1402-72

View : 15 | Download : 12

Publication Date : 0000-00-00

Article Type : Research Paper

Abstract :The availability of molecular markers in camels is limited. The aim of this study was to develop new simple sequence repeat insert ignore into journalissuearticles values(SSR); markers. Four breeds of pooled dromedary genome were sequenced at low coverage utilizing Roche and Illumina platforms. A total of 65,746 contigs, covering approximately 52 Mb insert ignore into journalissuearticles values(2316 contigs > 2 kb);, were assembled. The partial genome revealed 613 SSR loci with a minimum number of 5 repeat units. Comparative chromosomal location for 60 camel loci was predicted against bovine genome assembly Baylor Btau_4.6.1/bosTau7. Ten markers insert ignore into journalissuearticles values(16.7%); returned matches with a >100 score and >80% identity. SSR abundance was 1 in every 84.3 kb of contigs. The SSR loci mainly comprised di- insert ignore into journalissuearticles values(80.8%);, tri- insert ignore into journalissuearticles values(10.8%);, tetra- insert ignore into journalissuearticles values(7.6%);, and pentamer insert ignore into journalissuearticles values(0.8%); motifs. insert ignore into journalissuearticles values(TA);n and insert ignore into journalissuearticles values(AC);n were the most abundant insert ignore into journalissuearticles values(58.6%); dimers. Thirty SSR loci were experimentally characterized for both dromedary insert ignore into journalissuearticles values(16 animals); and Bactrian camels. The number of alleles ranged from 1 to 3, and the average number of fragments scored per animal ranged from 0.81 to 2. Polymorphic information content ranged from 0 to 0.66 with a mean value of 0.38. These SSR markers will be a valuable resource for further genetic studies of camels and related species.
Keywords : Camel, dromedary, genome, microsatellites, next generation sequencing