Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i>
UDP-glucose pyrophosphorylase (UGPase) is essential for carbohydrate metabolism, catalyzing UDP-glucose synthesis, a precursor for sucrose and cellulose biosynthesis. While <i>UGP</i> genes have been widely studied in plants, their functions in <i>Dendrocalamus brandisii</i>...
Saved in:
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2025-05-01
|
| Series: | Plants |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2223-7747/14/10/1458 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850256567545364480 |
|---|---|
| author | He Li Chongyang Wu Xiangyi Li Junlei Xu Zhanchao Cheng Jian Gao |
| author_facet | He Li Chongyang Wu Xiangyi Li Junlei Xu Zhanchao Cheng Jian Gao |
| author_sort | He Li |
| collection | DOAJ |
| description | UDP-glucose pyrophosphorylase (UGPase) is essential for carbohydrate metabolism, catalyzing UDP-glucose synthesis, a precursor for sucrose and cellulose biosynthesis. While <i>UGP</i> genes have been widely studied in plants, their functions in <i>Dendrocalamus brandisii</i> remain unclear. This study identified and characterized the <i>DbUGP</i> gene family using the whole genome and transcriptome data of <i>D. brandisii</i>, 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 <i>DbUGPs</i> clustered with two <i>OsUGPs</i> in two clades. Gene structure, motif, and collinearity analyses indicate conservation with other bamboo <i>UGPs</i>. The gene family exhibited segmental duplications. Expression profiling revealed <i>DbUGP1</i>/<i>5</i> were highly expressed in flowers, while others were enriched in shoots, buds, and culms. <i>DbUGP1</i>/<i>4</i>/<i>8</i> 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 <i>DbUGP1</i>/<i>4</i>, 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 <i>DbUGPs</i> exhibit mutual coordination and dynamic expression during <i>D. brandisii</i> growth, providing fresh insights into their functional roles. |
| format | Article |
| id | doaj-art-5902b9dd190f4062b9875678b3b64e9a |
| institution | OA Journals |
| issn | 2223-7747 |
| language | English |
| publishDate | 2025-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj-art-5902b9dd190f4062b9875678b3b64e9a2025-08-20T01:56:38ZengMDPI AGPlants2223-77472025-05-011410145810.3390/plants14101458Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i>He Li0Chongyang Wu1Xiangyi Li2Junlei Xu3Zhanchao Cheng4Jian Gao5Key Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, ChinaKey Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, ChinaKey Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, ChinaKey Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, ChinaKey Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, ChinaKey Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan Science and Technology, International Center for Bamboo and Rattan, Beijing 100102, ChinaUDP-glucose pyrophosphorylase (UGPase) is essential for carbohydrate metabolism, catalyzing UDP-glucose synthesis, a precursor for sucrose and cellulose biosynthesis. While <i>UGP</i> genes have been widely studied in plants, their functions in <i>Dendrocalamus brandisii</i> remain unclear. This study identified and characterized the <i>DbUGP</i> gene family using the whole genome and transcriptome data of <i>D. brandisii</i>, 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 <i>DbUGPs</i> clustered with two <i>OsUGPs</i> in two clades. Gene structure, motif, and collinearity analyses indicate conservation with other bamboo <i>UGPs</i>. The gene family exhibited segmental duplications. Expression profiling revealed <i>DbUGP1</i>/<i>5</i> were highly expressed in flowers, while others were enriched in shoots, buds, and culms. <i>DbUGP1</i>/<i>4</i>/<i>8</i> 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 <i>DbUGP1</i>/<i>4</i>, 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 <i>DbUGPs</i> exhibit mutual coordination and dynamic expression during <i>D. brandisii</i> growth, providing fresh insights into their functional roles.https://www.mdpi.com/2223-7747/14/10/1458<i>Dendrocalamus brandisii</i><i>DbUGP</i>gene family evolutionduplication eventsprotein structureexpression analysis |
| spellingShingle | He Li Chongyang Wu Xiangyi Li Junlei Xu Zhanchao Cheng Jian Gao Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i> Plants <i>Dendrocalamus brandisii</i> <i>DbUGP</i> gene family evolution duplication events protein structure expression analysis |
| title | Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i> |
| title_full | Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i> |
| title_fullStr | Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i> |
| title_full_unstemmed | Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i> |
| title_short | Characterization, Expression Profile Analysis, and Functional Prediction of <i>UGP</i> Gene Family in <i>Dendrocalamus brandisii</i> |
| title_sort | characterization expression profile analysis and functional prediction of i ugp i gene family in i dendrocalamus brandisii i |
| topic | <i>Dendrocalamus brandisii</i> <i>DbUGP</i> gene family evolution duplication events protein structure expression analysis |
| url | https://www.mdpi.com/2223-7747/14/10/1458 |
| work_keys_str_mv | AT heli characterizationexpressionprofileanalysisandfunctionalpredictionofiugpigenefamilyinidendrocalamusbrandisiii AT chongyangwu characterizationexpressionprofileanalysisandfunctionalpredictionofiugpigenefamilyinidendrocalamusbrandisiii AT xiangyili characterizationexpressionprofileanalysisandfunctionalpredictionofiugpigenefamilyinidendrocalamusbrandisiii AT junleixu characterizationexpressionprofileanalysisandfunctionalpredictionofiugpigenefamilyinidendrocalamusbrandisiii AT zhanchaocheng characterizationexpressionprofileanalysisandfunctionalpredictionofiugpigenefamilyinidendrocalamusbrandisiii AT jiangao characterizationexpressionprofileanalysisandfunctionalpredictionofiugpigenefamilyinidendrocalamusbrandisiii |