Citations
Altmetric:
Keywords
amplicon sequencing, Gadus morhua, genotyping by sequencing, next-generation sequencing, ssr, universal primer
Date
2016-01
Collections
Food Biosciences
Show all metadata
Files
Thumbnail Image
main article
Adobe PDF, 439.49 KB
Research Projects
Organizational Units
Journal Issue
URI
http://hdl.handle.net/11019/3659
Citation
Vartia Set al. 2016 A novel method of microsatellite genotyping-by-sequencing using individual combinatorial barcoding.R. Soc. open sci. 3: 150565. http://dx.doi.org/10.1098/rsos.150565
Abstract
This study examines the potential of next-generation sequencing based ‘genotyping-by-sequencing’ (GBS) of microsatellite loci for rapid and cost-effective genotyping in large-scale population genetic studies. The recovery of individual genotypes from large sequence pools was achieved by PCR-incorporated combinatorial barcoding using universal primers. Three experimental conditions were employed to explore the possibility of using this approach with existing and novel multiplex marker panels and weighted amplicon mixture. The GBS approach was validated against microsatellite data generated by capillary electrophoresis. GBS allows access to the underlying nucleotide sequences that can reveal homoplasy, even in large datasets and facilitates cross laboratory transfer. GBS of microsatellites, using individual combinatorial barcoding, is potentially faster and cheaper than current microsatellite approaches and offers better and more data.
Funder
Marine Institute
Marine Research Sub-programme of the National Development Plan 2007–2013
European Regional Development Fund
Spanish Ministerio de Economía y Competitividad
Irish Research Council (IRC) Graduate Research Education Programme (GREP)
the Irish Government under the Sea Change Programme
Science Foundation Ireland
Irish Research Council (IRC)
Grant Number
PBA/AF/07/004, EIRCOD
FPI BES-2010–038494
EEBB-I-13–06270
SFI 12/IP/1308
GOIPD/2013/320
Embedded videos