naa a22 4500 510730388 CHVBK 20180411082950.0 cr unu---uuuuu 180411e20131201xx s 000 0 eng 10.1007/s11295-013-0657-1 doi (NATIONALLICENCE)springer-10.1007/s11295-013-0657-1 Mining conifers' mega-genome using rapid and efficient multiplexed high-throughput genotyping-by-sequencing (GBS) SNP discovery platform [Elektronische Daten] [Charles Chen, Sharon Mitchell, Robert Elshire, Edward Buckler, Yousry El-Kassaby] Next-generation sequencing (NGS) technologies are revolutionizing both medical and biological research through generation of massive SNP data sets for identifying heritable genome variation underlying key traits, from rare human diseases to important agronomic phenotypes in crop species. We evaluated the performance of genotyping-by-sequencing (GBS), one of the emerging NGS-based platforms, for genotyping two economically important conifer species, lodgepole pine (Pinus contorta) and white spruce (Picea glauca). Both species have very large genomes (>20,000Mbp), are highly heterozygous, and lack reference sequences. From a small set (six accessions each) of independent replicated DNA samples and a 48-plex read depth, we obtained ~60,000 SNPs per species. After stringent filtering, we obtained 17,765 and 17,845 high-coverage SNPs without missing data for lodgepole pine and white spruce, respectively. Our results demonstrated that GBS is a robust and suitable method for genotyping conifers. The application of GBS to forest tree breeding and genomic selection is discussed. Springer-Verlag Berlin Heidelberg, 2013 Next-generation sequencing nationallicence Genotyping-by-sequencing (GBS) nationallicence SNP diversity nationallicence Conifers nationallicence Chen Charles Centro Internacional de Mejoramiento de Maiz y Trigo, CIMMYT, El Batan, 56130, Texcoco, Mexico aut Mitchell Sharon Institute for Genomic Diversity, Cornell University, 14853, Ithaca, NY, USA aut Elshire Robert Institute for Genomic Diversity, Cornell University, 14853, Ithaca, NY, USA aut Buckler Edward Institute for Genomic Diversity, Cornell University, 14853, Ithaca, NY, USA aut El-Kassaby Yousry Department of Forest and Conservation Sciences, Faculty of Forestry, The University of British Columbia, 2424 Main Mall, V6T 1Z4, Vancouver, British Columbia, Canada aut Tree Genetics & Genomes Springer Berlin Heidelberg 9/6(2013-12-01), 1537-1544 1614-2942 9:6<1537 2013 9 11295 https://doi.org/10.1007/s11295-013-0657-1 text/html Onlinezugriff via DOI 1 brief-communication jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11295-013-0657-1 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Chen Charles Centro Internacional de Mejoramiento de Maiz y Trigo, CIMMYT, El Batan, 56130, Texcoco, Mexico aut NATIONALLICENCE 700 1- Mitchell Sharon Institute for Genomic Diversity, Cornell University, 14853, Ithaca, NY, USA aut NATIONALLICENCE 700 1- Elshire Robert Institute for Genomic Diversity, Cornell University, 14853, Ithaca, NY, USA aut NATIONALLICENCE 700 1- Buckler Edward Institute for Genomic Diversity, Cornell University, 14853, Ithaca, NY, USA aut NATIONALLICENCE 700 1- El-Kassaby Yousry Department of Forest and Conservation Sciences, Faculty of Forestry, The University of British Columbia, 2424 Main Mall, V6T 1Z4, Vancouver, British Columbia, Canada aut NATIONALLICENCE 773 0- Tree Genetics & Genomes Springer Berlin Heidelberg 9/6(2013-12-01), 1537-1544 1614-2942 9:6<1537 2013 9 11295 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer