Unraveling Complex Traits and Developmental Pathways of Forest Trees

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Development and Morphogenesis".

Deadline for manuscript submissions: 15 November 2025 | Viewed by 609

Special Issue Editors

State Key Laboratory for Efficient Production of Forest Resources, Key Laboratory of Silviculture and Conservation of the Ministry of Education, National Energy R&D Center for Non-Food Biomass, College of Forestry, Beijing Forestry University, Beijing, China
Interests: functional genomics; tree physiology; plant molecular biology; plant biotechnology
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Guest Editor
Key Laboratory of Silviculture and Conservation of the Ministry of Education, College of Forestry, Beijing Forestry University, Beijing 100083, China
Interests: functional genomics; floral development; plant sex differentiation; tree physiology; plant molecular biology
Special Issues, Collections and Topics in MDPI journals

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Guest Editor
Jiangxi Provincial Key Laboratory of Native Tree Species Breeding and Efficient Utilization, Institute of Biological Resources, Jiangxi Academy of Sciences, Nanchang 330000, China
Interests: functional genomics; secondary metabolism; abiotic stress tolerance; plant molecular biology
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Forest trees make a significant contribution to sustainability with renewable resources, forest foods, the supply of ecosystem services and the global economy. In the past 20 years, more and more tree genomes were deciphered, we have witnessed tremendous advances in forest tree physiology, genetics and molecular biology derived from genomic resources. With the rapid development of multi-omics technologies and novel bioinformatics tools, the complex traits and developmental pathways of forest trees has entered the functional genomics era. The challenge faced will be to identify genes underlying complex traits, to construct comprehensive gene regulatory networks, and to analyse the real functions of key candidate genes.

The present Special Issue entitled "Unraveling Complex Traits and Developmental Pathways of Forest Trees" encourages the submission of research articles as well as review papers dealing with new advances in functional genomics of forest trees. The main contents could be related to new perspectives in tree physiology, growth, development, and breeding, especially in wood formation and quality, floral development, sex differentiation, secondary metabolism, and stress tolerance. The topics covered include but are not limited to the identification and functional characterization of coding and non-coding features in genomes, multi-omics analysis, gene expression profiling, GWAS, genetic engineering approaches, such as transformation systems, or cutting-edge technologies, such as CRISPR/Cas9 gene editing and synthetic biology, as well as phenomics, bioinformatics, and quantitative genetics.

As the Guest Editors of this Special Issue, we would like to invite you to participate in this venture by contributing a paper on the topic of your choice within the broad area covered by "Unraveling Complex Traits and Developmental Pathways of Forest Trees". We look forward to receiving your contribution.

You may choose our Joint Special Issue in Forests.

Dr. Zhong Chen
Dr. Guochun Zhao
Dr. Shupei Rao
Guest Editors

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Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Plants is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • functional genomics
  • multi-omics analysis
  • synthetic biology
  • tree genetics and genomes
  • regulation of gene expression
  • gene regulatory networks
  • tree breeding

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Published Papers (1 paper)

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Research

20 pages, 6814 KiB  
Article
Characterization, Expression Profile Analysis, and Functional Prediction of UGP Gene Family in Dendrocalamus brandisii
by He Li, Chongyang Wu, Xiangyi Li, Junlei Xu, Zhanchao Cheng and Jian Gao
Plants 2025, 14(10), 1458; https://doi.org/10.3390/plants14101458 - 14 May 2025
Viewed by 334
Abstract
UDP-glucose pyrophosphorylase (UGPase) is essential for carbohydrate metabolism, catalyzing UDP-glucose synthesis, a precursor for sucrose and cellulose biosynthesis. While UGP genes have been widely studied in plants, their functions in Dendrocalamus brandisii remain unclear. This study identified and characterized the DbUGP gene family [...] Read more.
UDP-glucose pyrophosphorylase (UGPase) is essential for carbohydrate metabolism, catalyzing UDP-glucose synthesis, a precursor for sucrose and cellulose biosynthesis. While UGP genes have been widely studied in plants, their functions in Dendrocalamus brandisii remain unclear. This study identified and characterized the DbUGP gene family using the whole genome and transcriptome data of D. brandisii, in conjunction with whole genome data from 10 additional species through sequence alignment, phylogenetic analysis, gene structure and motif exploration, protein structure prediction, and expression profiling. Phylogenetic analysis showed eight identified DbUGPs clustered with two OsUGPs in two clades. Gene structure, motif, and collinearity analyses indicate conservation with other bamboo UGPs. The gene family exhibited segmental duplications. Expression profiling revealed DbUGP1/5 were highly expressed in flowers, while others were enriched in shoots, buds, and culms. DbUGP1/4/8 were significantly downregulated during culm maturation. Protein structure prediction indicated two conformations with catalytic sites in disordered coil regions. WGCNA identified co-expression modules and protein interaction networks centered on DbUGP1/4, while KEGG enrichment indicated their functions in metabolism, signal transduction, and stress adaptation. Promoter analysis identified cis-regulatory elements responsive to light, MeJA, and ABA. This study suggests that the evolutionarily conserved DbUGPs exhibit mutual coordination and dynamic expression during D. brandisii growth, providing fresh insights into their functional roles. Full article
(This article belongs to the Special Issue Unraveling Complex Traits and Developmental Pathways of Forest Trees)
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