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A set of 156 SNP markers for teak (Tectona grandis Linn. f.)

Author:
Dunker, Bianca, Dormontt, Eleanor E., van Dijk, Kor-jent, Dixon, Rainbo R. M., Jardine, Duncan I., Kireta, Dona, Nurtjahjaningsih, I. L. G., Win, Thwe Thwe, Rimbawanto, Anto, Lowe, Andrew J.
Source:
Conservation genetics resources 2020 v.12 no.2 pp. 205-207
ISSN:
1877-7252
Subject:
DNA fragmentation, Tectona grandis, genotyping, heterozygosity, high-throughput nucleotide sequencing, loci, phylogeography, single nucleotide polymorphism, Myanmar
Abstract:
Novel single nucleotide polymorphism loci were identified for teak (Tectona grandis Linn. f.) using a combined Next Generation Sequencing approach on the Illumina MiSeq system with genotyping on the Agena MassARRAY iPLEX™ platform. Three hundred and forty four putative loci were identified through sequencing of DNA fragments following a modified double digest Restriction Associated DNA Sequencing method. One hundred and eighty nine loci successfully amplified in 172 individuals from 20 populations in Myanmar. A total of 33 loci were removed from the final panel as two showed evidence of deviation from Hardy–Weinberg equilibrium, 17 were significantly linked and 23 were non-polymorphic. For the remaining 156 loci, expected heterozygosity ranged from 0.041 to 0.456 and FST from 0.062 to 0.632. These genetic resources will prove useful for future studies into the population genetics and phylogeography of this important and iconic timber species.
Agid:
6959862