TY - JOUR
T1 - Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis
AU - Wang, Jack P.
AU - Matthews, Megan L.
AU - Williams, Cranos M.
AU - Shi, Rui
AU - Yang, Chenmin
AU - Tunlaya-Anukit, Sermsawat
AU - Chen, Hsi Chuan
AU - Li, Quanzi
AU - Liu, Jie
AU - Lin, Chien Yuan
AU - Naik, Punith
AU - Sun, Ying Hsuan
AU - Loziuk, Philip L.
AU - Yeh, Ting Feng
AU - Kim, Hoon
AU - Gjersing, Erica
AU - Shollenberger, Todd
AU - Shuford, Christopher M.
AU - Song, Jina
AU - Miller, Zachary
AU - Huang, Yung Yun
AU - Edmunds, Charles W.
AU - Liu, Baoguang
AU - Sun, Yi
AU - Lin, Ying Chung Jimmy
AU - Li, Wei
AU - Chen, Hao
AU - Peszlen, Ilona
AU - Ducoste, Joel J.
AU - Ralph, John
AU - Chang, Hou Min
AU - Muddiman, David C.
AU - Davis, Mark F.
AU - Smith, Chris
AU - Isik, Fikret
AU - Sederoff, Ronald
AU - Chiang, Vincent L.
N1 - Funding Information:
This work was supported by the National Natural Science Foundation of China (NSFC) Grants 31430093, 31470672, and 31522014. We also thank the financial support from the U.S. National Science Foundation, Plant Genome Research Program Grant DBI-0922391, the NC State University Jordan Family Distinguished Professor Endowment, and the NC State University Forest Biotechnology Industrial Research Consortium. H.K. and J.R., and the NMR use were supported in part by the DOE Great Lakes Bioenergy Research Center (DOE BER Office of Science DE-FC02-07ER64494). The saccharification assay used in this study was developed as part of the BioEnergy Science Center. The BioEnergy Science Center is a U.S. Department of Energy Bioenergy Research Center supported by the Office of Biological and Environmental Research in the DOE Office of Science.
Publisher Copyright:
© 2018 The Author(s).
PY - 2018/12/1
Y1 - 2018/12/1
N2 - 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.
AB - 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.
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U2 - 10.1038/s41467-018-03863-z
DO - 10.1038/s41467-018-03863-z
M3 - Article
C2 - 29679008
AN - SCOPUS:85045890118
SN - 2041-1723
VL - 9
JO - Nature communications
JF - Nature communications
IS - 1
M1 - 1579
ER -