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Molecular Diversity Among Members of the Saccharum Complex Assessed Using TRAP Markers Based on Lignin-Related Genes

Suman, Andru, Ali, Kazim, Arro, Jie, Parco, Arnold S., Kimbeng, Collins A., Baisakh, Niranjan
BioEnergy research 2012 v.5 no.1 pp. 197-205
Miscanthus, Saccharum barberi, Saccharum officinarum, Saccharum robustum, Saccharum sinense, Saccharum spontaneum, alcohol dehydrogenase, biomass production, biotransformation, caffeate O-methyltransferase, cultivars, ethanol, genes, genetic relationships, genetic variation, genotype, grasses, lignin, sugarcane, sugars
In addition to the cultivation of sugarcane for sugar, the crop is considered seriously as an important bioenergy grass crop for its high biomass production ability. But, lignin is a serious bottleneck in the bioconversion of lignocellulosic biomass to ethanol. Hence, genetic relationships among 64 genotypes within the Saccharum complex were studied with respect to lignin-related genes using target region amplified polymorphic (TRAP) primers derived from caffeic acid O-methyltransferase (COMT), cinnamoyl alcohol dehydrogenase (CAD), cinnamoyl coA reductase (CCR), and ferrulate 5-hydroxylase (F5H) genes. While the average polymorphism detected by the TRAP markers was 43%, the markers derived from F5H gene (34%) were less polymorphic in comparison to those derived from COMT (46%), CCR (44%), and CAD (46%) genes. The lignin gene-based TRAP markers differentiated members of the Saccharum complex broadly according to previously established genetic relationships in the order of Miscanthus > Erianthus > Saccharum spontaneum > Saccharum robustum/Saccharum barberi/Saccharum sinense > Saccharum officinarum/cultivars. Principal coordinate analysis showed that 29% of the total variation was explained by the genotypes with respect to the lignin-related genes. The association of genetic variation revealed in this study with the biomass composition-related genes of the genotypes within a species will be helpful to design breeding strategies to develop superior energy cane cultivars with improved biomass quality of the sugarcane.