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<p>Association between 276 AFLP loci and wood density of 46 teak (Tectona grandis L. f.) genotypes was evaluated, confirming the genetic structure among the genotypes and significant (p &lt; 0.01) linkage disequilibrium between 9.4% loci-pair. AFLP markers with Bayesian correction for inbreeding coefficient detected a low genetic structure vis-à-vis high genetic diversity (0.23) and high polymorphism (57.41 ± 9.62%). AMOVA allocated 26.34% variation among the populations and 73.65% variation among the genotypes with FST = 0.16. The wood density with 8.71% variation displayed significant normal distribution. The careful control of statistical estimates incorporating Q and K to avoid the false discovery resulted in four AFLP loci significantly associated with the wood density trait. This is the first report dealing with marker-trait association in teak against the scarcity of background genomic information in this species. The AFLP markers associated with the wood density trait may be developed into STS<br />markers for marker-assisted selection and breeding for genetic improvement of the species.</p>