SNP discovery in the marine gastropod Concholepas concholepas by high-throughput transcriptome sequencing.
Concholepas concholepas
Gallardo-Escárate, C., Núñez-Acuña, G, Valenzuela-Muñoz, V
https://www.researchgate.net/profile/Gustavo-Nunez-Acuna/publication/257795824_SNP_discovery_in_the_marine_gastropod_Concholepas_concholepas_by_high-throughput_transcriptome_sequencing/links/53ecc2820cf26b9b7dbfd874/SNP-discovery-in-the-marine-gastropod-Concholepas-concholepas-by-high-throughput-transcriptome-sequencing.pdf
Se identificaron nuevos polimorfismos de nucleótidos simples (SNP) mediante pirosecuenciación del transcriptoma 454 en el caracol Concholepas concholepas. De 2.991 cóntiges anotados con SNPs del ensamblaje De novo, se seleccionaron 7.069 polimorfismos putativos según su calidad y anotación funcional (ontología genética), de estos, 18 SNPs fueron validados mediante análisis HRM utilizando 50 individuos de dos poblaciones silvestres a lo largo de la costa chilena (29S –71W y 39S–73W). Aquí, 9 loci evidenciaron el equilibrio de Hardy-Weinberg entre ambas poblaciones. El valor Fst entre poblaciones se estimó en 0,004, y los Fis se calcularon en 0,286 y 0,291 para las poblaciones del Norte y del Sur respectivamente. Aquí llevamos a cabo la primera extracción de SNP en C. concholepas utilizando tecnología de pirosecuenciación que promete ser útil para futuras estrategias de conservación de esta especie de caracol marino sobreexplotada.
Novel simple nucleotide polymorphisms (SNP) were identified using 454 transcriptome pyrosequencing in the snail Concholepas concholepas. From 2,991 contigs annotated with SNPs from De novo assembly, 7,069 putative polymorphisms were selected according their quality and functional annotation (gene ontology), of these, 18 SNPs were validated by HRM analysis using 50 individuals from two wild populations along the Chilean coast (29S–71W and 39S–73W). Herein, 9 loci evidenced Hardy–Weinberg equilibrium between both populations. Fst value between populations was estimated in 0.004, and Fis were calculated in 0.286 and 0.291 for North and South populations respectively. Here we carried out the first SNP mining in C. concholepas using pyrosequencing technology that promise to be useful for future conservation strategies of this overexploited marine snail species.
