Abstract
The phenylpropanoid pathway is an important route of secondary metabolism involved in the synthesis of different phenolic compounds such as phenylpropenes, anthocyanins, stilbenoids, flavonoids, and monolignols. The flux toward monolignol biosynthesis through the phenylpropanoid pathway is controlled by specific genes from at least ten families. Lignin polymer is one of the major components of the plant cell wall and is mainly responsible for recalcitrance to saccharification in ethanol production from lignocellulosic biomass. Here, we identified and characterized sugarcane candidate genes from the general phenylpropanoid and monolignol-specific metabolism through a search of the sugarcane EST databases, phylogenetic analysis, a search for conserved amino acid residues important for enzymatic function, and analysis of expression patterns during culm development in two lignin-contrasting genotypes. Of these genes, 15 were cloned and, when available, their loci were identified using the recently released sugarcane genomes from Saccharum hybrid R570 and Saccharum spontaneum cultivars. Our analysis points out that ShPAL1, ShPAL2, ShC4H4, Sh4CL1, ShHCT1, ShC3H1, ShC3H2, ShCCoAOMT1, ShCOMT1, ShF5H1, ShCCR1, ShCAD2, and ShCAD7 are strong candidates to be bona fide lignin biosynthesis genes. Together, the results provide information about the candidate genes involved in monolignol biosynthesis in sugarcane and may provide useful information for further molecular genetic studies in sugarcane.
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Acknowledgements
The authors would like to thank to Luiza da Silva for technical support and to Ana Coelho and Ana Giannini for critical review of the manuscript. This work is part of the Ph.D. thesis of José Nicomedes Júnior and Thais Felix-Cordeiro. DJM was supported by post-doctoral fellowship CAPES-PNPD and Petrobras. TFS, RL, and FPC were supported by post-doctoral fellowship CAPES-PNPD. JPF, CRF, and RL were supported by post-doctoral fellowship Petrobras. TFC was supported by CAPES PhD fellowship. LB, IB, TCS, JF, and KE were recipient of CNPq PIBIC fellowship.
Funding
This study was funded by Grants from the Conselho Nacional de Desenvolvimento Científico e Tecnológico—CNPq (Grant number 474911/2012-8), Coordenação de Aperfeiçoamento de Pessoal de Nível Superior—CAPES (PNPD N°02691/09-4 - MEC / CAPES), Fundação Carlos Chagas Filho de Amparo à Pesquisa do Estado do Rio de Janeiro—FAPERJ (E26/111.234/2014), and Petrobras (Grant number ANP 01070-0050.0076123.12.9) to GSM.
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Jardim-Messeder, D., da Franca Silva, T., Fonseca, J.P. et al. Identification of genes from the general phenylpropanoid and monolignol-specific metabolism in two sugarcane lignin-contrasting genotypes. Mol Genet Genomics 295, 717–739 (2020). https://doi.org/10.1007/s00438-020-01653-1
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DOI: https://doi.org/10.1007/s00438-020-01653-1