Evidence map›Paper›PMID 41023666›Full record

ArticleBMC genomics2025

The integration of WGCNA and ceRNA analysis provides insights into bovine intramuscular fat deposition.

Jiahao Liang, Chenglong Li, Yanfeng Zhang, Yanling Ding, Xiaonan Zhou, Junjie Xu, Xiaowei Wang, Yurun Han, Dingxiang Wang, Yuangang Shi and 2 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
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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

12 authors.

Jiahao Liang *Key Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Chenglong Li *Key Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Yanfeng ZhangKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Yanling DingKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Xiaonan ZhouKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Junjie XuKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Xiaowei WangKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Yurun HanKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Dingxiang WangKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Yuangang ShiKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Yun MaKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China.
Xiaolong KangKey Laboratory of Molecular Cell Breeding for Ruminants, Ningxia University, Yinchuan, 750021, China. kangxl9527@126.com.

Funding

China Agriculture Research System CARS-36"Light of the West" Talent Cultivation Program of the Chinese Academy of Sciences XAB2022YW11National Natural Science Foundation of China 32160776National Science and Technology Major Project-Science and Technology Innovation 2030 Project 2023ZD0404803-02Natural Science Foundation of Ningxia Province 2024AAC03132
6 · The paper itself

Abstract

backgroundIntramuscular fat (IMF) content is a crucial determinant of beef quality and a key indicator in cattle breeding and production. However, the molecular regulatory mechanisms governing IMF deposition remain poorly understood.

resultsThis study preliminarily explored the molecular mechanisms underlying IMF deposition by integrating weighted gene co-expression network analysis (WGCNA) and competitive endogenous RNA (ceRNA) network analysis. Sequencing of longissimus dorsi muscle samples from crossbred Wagyu cattle with varying IMF deposition levels revealed 172 differentially expressed circular RNAs (circRNAs), which were subsequently annotated and used to construct regulatory networks. Protein-protein interaction (PPI) network analysis predicted possible several lipid metabolism-related genes, including EZH2, AKT3, APP and SMARCA5. By combining the miRNA and mRNA data from our previous studies, we constructed circRNA-mRNA coexpression networks and circRNA-miRNA-mRNA regulatory networks. Functional enrichment analysis revealed that the identified circRNAs are involved primarily in lipid metabolism-related pathways, including phosphatidylinositol metabolism and the cGMP-PKG signaling pathway. Additionally, several circRNAs were predicted to function as molecular sponges based on coexpression patterns.

conclusionThis study provides novel insights into the molecular mechanisms underlying IMF deposition in hybrid cattle and provides candidate regulatory mechanisms for further validation in selective breeding.

Indexed as

Adipose TissueGene Regulatory NetworksMuscle, SkeletalRNA, CircularAnimalsCattleGene Expression ProfilingLipid MetabolismMicroRNAsProtein Interaction MapsRNA, Competitive EndogenousRNA, MessengerMicroRNAsRNA, CircularRNA, Competitive EndogenousRNA, MessengerCattleCeRNA networkCircRNAIntramuscular fatWGCNA

Identifiers

PMID41023666
PMCPMC12482651

What OpenQuestion holds

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LicenceCC BY-NC-ND
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Registered trials

None linked

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.