Evidence map›Paper›PMID 39543501›Full record

ArticleBMC genomics2024

Metabolomic and transcriptomic analyses reveals candidate genes and pathways involved in secondary metabolism in Bergenia purpurascens.

Qiankun Zhu, Yufeng Wu, Xuebin Zhang, Nuomei Xu, Jingyu Chen, Xin Lyu, Hongyan Zeng, Fang Yu

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

4 citing papers in PubMed.

  1. Article
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  3. Identification ofInternational journal of molecular sciences · 2025
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Qiankun ZhuSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China. zhuqk@swjtu.edu.cn.
Yufeng WuSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China.
Xuebin ZhangSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China.
Nuomei XuSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China.
Jingyu ChenSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China.
Xin LyuSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China.
Hongyan ZengSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China.
Fang YuSichuan Engineering Research Center for Biomimetic Synthesis of Natural Drug, School of Life Science and Engineering, Southwest Jiaotong University, No. 111, North 1st Section, 2nd Ring Road, Chengdu, 610031, China. fangyu@my.swjtu.edu.cn.

Funding

Fundamental Research Funds for the Central Universities No. 2682023ZTPY073the National Natural Science Foundation of China No. 31900164the Provincial Natural Science Foundation of Sichuan No. 2022NSFSC1612
6 · The paper itself

Abstract

Bergenia purpurascens is an important medicinal, edible and ornamental plant. The lack of omics information hinders the study of its metabolic pathways and related genes. In order to investigate candidate genes and pathways involved in secondary metabolism in B. purpurascens, roots, stems and leaves of B. purpurascens were subjected to metabolomic and transcriptomic analyses in this study. A total of 351 differentially accumulated secondary metabolites were identified. We identified 120 candidate genes involved in phenylpropanoid and flavonoid biosynthesis pathway, from which 29 key candidate genes were obtained by WGCNA. Five UDP-Glycosyltransferases and four O-methyltransferases were suggested to be the candidate enzymes involved in synthetic pathway from gallic acid to bergenin by correlation analysis between transcriptional and metabolic levels and phylogenetic analysis. This study provides data resources and new insights for further studies on the biosynthesis of major active components in B. purpurascens.

Indexed as

MetabolomicsSecondary MetabolismFlavonoidsGene Expression ProfilingGene Expression Regulation, PlantGenes, PlantMetabolic Networks and PathwaysMetabolomePhylogenySaxifragaceaeTranscriptomeFlavonoidsFlavonoidMedicinal plantsMetabolomicsPhenylpropanoidSecondary metabolitesTranscriptomicsWGCNA

Identifiers

PMID39543501
PMCPMC11566253

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.