Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus

Zhang, Jin; Yang, Yongil; Zheng, Kaijie; Xie, Meng; Feng, Kai; Jawdy, Sara S.; Gunter, Lee E.; Ranjan, Priya; Singan, Vasanth R.; Engle, Nancy; Lindquist, Erika; Barry, Kerrie; Schmutz, Jeremy; Zhao, Nan; Tschaplinski, Timothy J.; LeBoldus, Jared; Tuskan, Gerald A.; Chen, Jin -Gui; Muchero, Wellington

doi:10.1111/nph.15297

Title: Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus

Journal Article · Wed Jul 11 00:00:00 EDT 2018 · New Phytologist

DOI:https://doi.org/10.1111/nph.15297· OSTI ID:1468259

^[1];

^[1]; Zheng, Kaijie ^[1];

^[1]; Feng, Kai ^[1]; Jawdy, Sara S. ^[1];

^[1]; Ranjan, Priya ^[1]; Singan, Vasanth R. ^[2]; Engle, Nancy ^[1]; Lindquist, Erika ^[2]; Barry, Kerrie ^[2]; Schmutz, Jeremy ^[3]; Zhao, Nan ^[4];

^[1]; LeBoldus, Jared ^[5];

^[1];

^[1]

Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); HudsonAlpha Institute for Biotechnology, Huntsville, AL (United States)
Univ. of Tennessee, Knoxville, TN (United States)
Oregon State Univ., Corvallis, OR (United States)

3–O–caffeoylquinic acid, also known as chlorogenic acid (CGA), functions as an intermediate in lignin biosynthesis in the phenylpropanoid pathway. It is widely distributed among numerous plant species and acts as an antioxidant in both plants and animals. Using GC–MS, we discovered consistent and extreme variation in CGA content across a population of 739 4–yr–old Populus trichocarpa accessions. We performed genome–wide association studies (GWAS) from 917 P. trichocarpa accessions and expression–based quantitative trait loci (eQTL) analyses to identify key regulators. The GWAS and eQTL analyses resolved an overlapped interval encompassing a hydroxycinnamoyl–CoA:shikimate hydroxycinnamoyl transferase 2 (PtHCT2) that was significantly associated with CGA and partially characterized metabolite abundances. PtHCT2 leaf expression was significantly correlated with CGA abundance and it was regulated by cis–eQTLs containing W–box for WRKY binding. Among all nine PtHCT homologs, PtHCT2 is the only one that responds to infection by the fungal pathogen Sphaerulina musiva (a Populus pathogen). Validation using protoplast–based transient expression system suggests that PtHCT2 is regulated by the defense–responsive WRKY. Finally, these results are consistent with reports of CGA functioning as an antioxidant in response to biotic stress. In conclusion, this study provides insights into data–driven and omics–based inference of gene function in woody species.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725; AC02-05CH11231

OSTI ID:: 1468259

Alternate ID(s):: OSTI ID: 1459725; OSTI ID: 1633225

Journal Information:: New Phytologist, Vol. 220, Issue 2; ISSN 0028-646X

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 71 works

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59 BASIC BIOLOGICAL SCIENCES
expression quantitative trait loci (eQTLs)
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Title: Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus

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