Characterization and functional analysis of the Hydroxycinnamoyl-CoA: shikimate hydroxycinnamoyl transferase (HCT) gene family in poplar

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Plant Biology

Main article text

 

Introduction

Materials and Methods

Materials

Genome-wide identification of HCT gene family members

Distribution of HCT genes and HCT orthologs on Populus chromosomes

HCT sequence alignment and phylogenetic analysis

HCT expression profiles in P. trichocarpa and P. tomentosa

Cloning and purification of recombinant HCT from P. tomentosa

Catalytic activity of recombinant PtoHCT1

Structure modeling of PtoHCT1

Results

Genome-wide identification and distribution of HCT orthologs in Populus

Alignment and phylogenetic analysis of HCT orthologs

Expression analysis of HCT homolog genes

Catalytic activity and structure comparison of PtoHCT1

Discussion

Conclusion

Supplemental Information

Genome-wide screening PoptrHCT genes based on HMM models

DOI: 10.7717/peerj.10741/supp-1

Putative HCTs used for phylogenetic analysis

DOI: 10.7717/peerj.10741/supp-2

Expression profiles and co-expression for HCT homologs

DOI: 10.7717/peerj.10741/supp-3

Conditions used for HPLC-MS to identify caffeic acid, shikimate and caffeoyl shikimate

DOI: 10.7717/peerj.10741/supp-4

Sequences used for alignment analysis

DOI: 10.7717/peerj.10741/supp-7

Additional Information and Declarations

Competing Interests

The authors declare there are no competing interests.

Author Contributions

Nan Chao performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper, and approved the final draft.

Qi Qi performed the experiments, analyzed the data, prepared figures and/or tables, and approved the final draft.

Shuang Li performed the experiments, prepared figures and/or tables, and approved the final draft.

Brent Ruan performed the experiments, authored or reviewed drafts of the paper, and approved the final draft.

Xiangning Jiang and Ying Gai conceived and designed the experiments, authored or reviewed drafts of the paper, and approved the final draft.

Field Study Permissions

The following information was supplied relating to field study approvals (i.e., approving body and any reference numbers):

Yu-Hu Ma approved sample collection at the study site. Yu-Hu Ma is the landowner of the study site, Shenzhou Famous and Excellent Seedling Breeding Base.

Data Availability

The following information was supplied regarding data availability:

The sequence is available at NCBI GEO: GSE56023. Additional data are available in the Supplemental Files.

Funding

This work was jointly supported by the Beijing Higher Education Young Elite Teacher Project [YETP0755 granted to Dr. YING GAI], the National Natural Science Foundation of China [NSF 31300498 to Ying Gai]. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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