Polymorphisms in O-methyltransferase genes are associated with stover cell wall digestibility in European maize (<it>Zea mays </it>L.)

<p>Abstract</p> <p>Background</p> <p>OMT (O-methyltransferase) genes are involved in lignin biosynthesis, which relates to stover cell wall digestibility. Reduced lignin content is an important determinant of both forage quality and ethanol conversion efficiency of maize stover.</p> <p>Results</p> <p>Variation in genomic sequences coding for <it>COMT, CCoAOMT1</it>, and <it>CCoAOMT2 </it>was analyzed in relation to stover cell wall digestibility for a panel of 40 European forage maize inbred lines, and re-analyzed for a panel of 34 lines from a published French study. Different methodologies for association analysis were performed and compared. Across association methodologies, a total number of 25, 12, 1, 6 <it>COMT </it>polymorphic sites were significantly associated with DNDF, OMD, NDF, and WSC, respectively. Association analysis for <it>CCoAOMT1 </it>and <it>CCoAOMT2 </it>identified substantially fewer polymorphic sites (3 and 2, respectively) associated with the investigated traits. Our re-analysis on the 34 lines from a published French dataset identified 14 polymorphic sites significantly associated with cell wall digestibility, two of them were consistent with our study. Promising polymorphisms putatively causally associated with variability of cell wall digestibility were inferred from the total number of significantly associated SNPs/Indels.</p> <p>Conclusions</p> <p>Several polymorphic sites for three O-methyltransferase loci were associated with stover cell wall digestibility. All three tested genes seem to be involved in controlling DNDF, in particular <it>COMT</it>. Thus, considerable variation among <it>Bm3 </it>wildtype alleles can be exploited for improving cell-wall digestibility. Target sites for functional markers were identified enabling development of efficient marker-based selection strategies.</p>