Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis

Jack P. Wang, Megan L. Matthews, Cranos M. Williams, Rui Shi, Chenmin Yang, Sermsawat Tunlaya-Anukit, Hsi-Chuan Chen, Quanzi Li, Jie Liu, Chien-Yuan Lin, Punith Naik, Ying-Hsuan Sun, Philip L. Loziuk, Ting-Feng Yeh, Hoon Kim, Erica Gjersing, Todd Shollenberger, Christopher M. Shuford, Jina Song, Zachary Miller, Yung-Yun Huang, Charles W. Edmunds, Baoguang Liu, Yi Sun, Ying-Chung Jimmy Lin, Wei Li, Hao Chen, Ilona Peszlen, Joel J. Ducoste, John Ralph, Hou-Min Chang, David C. Muddiman, Mark F. Davis, Chris Smith, Fikret Isik, Ronald Sederoff and Vincent L. Chiang ()
Additional contact information
Jack P. Wang: Northeast Forestry University
Megan L. Matthews: North Carolina State University
Cranos M. Williams: North Carolina State University
Rui Shi: North Carolina State University
Chenmin Yang: North Carolina State University
Sermsawat Tunlaya-Anukit: North Carolina State University
Hsi-Chuan Chen: North Carolina State University
Quanzi Li: Chinese Academy of Forestry
Jie Liu: North Carolina State University
Chien-Yuan Lin: North Carolina State University
Punith Naik: North Carolina State University
Ying-Hsuan Sun: National Chung-Hsing University
Philip L. Loziuk: North Carolina State University
Ting-Feng Yeh: National Taiwan University
Hoon Kim: University of Wisconsin
Erica Gjersing: National Renewable Energy Laboratory
Todd Shollenberger: National Renewable Energy Laboratory
Christopher M. Shuford: North Carolina State University
Jina Song: North Carolina State University
Zachary Miller: North Carolina State University
Yung-Yun Huang: North Carolina State University
Charles W. Edmunds: North Carolina State University
Baoguang Liu: Beihua University
Yi Sun: Northeast Forestry University
Ying-Chung Jimmy Lin: Northeast Forestry University
Wei Li: Northeast Forestry University
Hao Chen: North Carolina State University
Ilona Peszlen: North Carolina State University
Joel J. Ducoste: North Carolina State University
John Ralph: University of Wisconsin
Hou-Min Chang: North Carolina State University
David C. Muddiman: North Carolina State University
Mark F. Davis: Lawrence Berkeley National Laboratory
Chris Smith: North Carolina State University
Fikret Isik: North Carolina State University
Ronald Sederoff: North Carolina State University
Vincent L. Chiang: Northeast Forestry University

Nature Communications, 2018, vol. 9, issue 1, 1-16

Abstract: Abstract A multi-omics quantitative integrative analysis of lignin biosynthesis can advance the strategic engineering of wood for timber, pulp, and biofuels. Lignin is polymerized from three monomers (monolignols) produced by a grid-like pathway. The pathway in wood formation of Populus trichocarpa has at least 21 genes, encoding enzymes that mediate 37 reactions on 24 metabolites, leading to lignin and affecting wood properties. We perturb these 21 pathway genes and integrate transcriptomic, proteomic, fluxomic and phenomic data from 221 lines selected from ~2000 transgenics (6-month-old). The integrative analysis estimates how changing expression of pathway gene or gene combination affects protein abundance, metabolic-flux, metabolite concentrations, and 25 wood traits, including lignin, tree-growth, density, strength, and saccharification. The analysis then predicts improvements in any of these 25 traits individually or in combinations, through engineering expression of specific monolignol genes. The analysis may lead to greater understanding of other pathways for improved growth and adaptation.

Date: 2018
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DOI: 10.1038/s41467-018-03863-z

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