Evidence map›Paper›PMID 41068625›Full record

ArticleBMC genomics2025

Spatiotemporal methylome remodeling during fiber differentiation in Gossypium hirsutum.

Zhipeng Yu, Haijuan Cao, Xiaolian Xiong, Shuhan Wen, Xia Huang, Ying Jin, Junkang Rong, Mingquan Ding

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. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

Zhipeng Yu *The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
Haijuan Cao *The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
Xiaolian XiongThe Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
Shuhan WenThe Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
Xia HuangThe Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
Ying JinThe Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
Junkang RongThe Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China. junkangrong@126.com.
Mingquan DingThe Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou, 311300, China. 20110028@zafu.edu.cn.

Funding

National Natural Science Foundation of China No.32171923
6 · The paper itself

Abstract

Whole-genome methylome analysis reveals DNA methylation dynamics during upland cotton (Gossypium hirsutum) fiber development. DNA methylation levels initially increased and then decreased from -3 days post-anthesis (DPA) to 5 DPA, with a significant rise during the rapid elongation stage (5 DPA to 14 DPA), particularly in CHH methylation levels. Integrated transcriptome analysis links elevated DNA methylation to reduced demethylase gene expression (DME, ROS1, DML3). DNA methylation remodeling modulates fiber development through coordinated regulation of lipid metabolism, DNA replication, phosphatidylinositol signaling system and hormonal signaling pathways. Several key transcription factors, such as TCP14, HD1, HOX3, and MYB25-like, showed a strong correlation with DMRs, suggesting their regulation by DNA methylation. Furthermore, Multi-omics integration posits that DNA methylation may regulate genes related to fiber development, particularly those related to fatty acid biosynthesis and metabolism, ultimately influencing upland cotton fiber development. Analysis of genes highly correlated with changes in differentially methylated regions (DMRs) indicates DNA methylation can modulate the expression of KCS family genes, including KCS13, as well as KCRL1, thereby participating in the fatty acid elongation pathway.

Indexed as

Cotton FiberDNA MethylationEpigenomeGossypiumGene Expression ProfilingGene Expression Regulation, PlantPlant ProteinsPlant ProteinsDemethylaseDNA methylationFatty acid elongationFiber developmentTranscriptomeUpland cotton

Identifiers

PMID41068625
PMCPMC12512907

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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.