Evidence map›Paper›PMID 31776817›Full record

ArticleRice (New York, N.Y.)2019

Genome-wide Profiling of Histone Lysine Butyrylation Reveals its Role in the Positive Regulation of Gene Transcription in Rice.

Shuai Liu, Guanqing Liu, Peifeng Cheng, Chao Xue, Yong Zhou, Xu Chen, Lu Ye, Zhongying Qiao, Tao Zhang, Zhiyun Gong

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Rice (New York, N.Y.), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
2.9field-weighted citation impact, top 9% of its field
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

10 citing papers in PubMed, 19 citations in OpenAlex.

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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

10 authors at 3 institutions in 2 countries.

Shuai LiuJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China.
Guanqing LiuJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China.
Peifeng ChengSuzhou Academy of Agricultural Sciences, North of Wangting Town, Suzhou, 215128, China.
Chao XueJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China.
Yong ZhouJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China.
Xu ChenJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China.
Lu YeJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China.
Zhongying QiaoSuzhou Academy of Agricultural Sciences, North of Wangting Town, Suzhou, 215128, China. qiaozhongying@163.com.
Tao ZhangJoint International Research Laboratory of Agriculture and Agri-Product Safety / Key Laboratory of Plant Functional Genomics, the Ministry of Education of China, Yangzhou University, Yangzhou, 225009, China. zhangtao@yzu.edu.cn.
Zhiyun GongJiangsu Key Laboratory of Crop Genetics and Physiology / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/ Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou, 225009, China. zygong@yzu.edu.cn.ORCID http://orcid.org/0000-0002-2071-3150
Yangzhou University · CNSuzhou Academy of Agricultural Sciences · CNMinistry of Education · MV

Funding

Jiangsu Agricultural Science and Technology Independent Innovation Fund CX(18)2014Jiangsu Provincial Department of Education (CN) XKYCX17_051National Natural Science Foundation of China 31571266National Natural Science Foundation of China 31871232
6 · The paper itself

Abstract

backgroundHistone modifications play important roles in growth and development of rice (Oryza sativa L.). Lysine butyrylation (Kbu) with a four-carbon chain is a newly-discovered histone acylation modification in rice. MAIN BODY: In this study, we performed chromatin immunoprecipitation sequencing (ChIP-seq) analyses, the result showed that major enrichment of histone Kbu located in genebody regions of rice genome, especially in exons. The enrichment level of Kbu histone modification is positively correlated with gene expression. Furthermore, we compared Kbu with DNase-seq and other histone modifications in rice. We found that 60.06% Kub enriched region co-located with DHSs in intergenic regions. The similar profiles were detected among Kbu and several acetylation modifications such as H3K4ac, H3K9ac, and H3K23ac, indicating that Kbu modification is an active signal of transcription. Genes with both histone Kbu and one other acetylation also had significantly increased expression compared with genes with only one acetylation. Gene Ontology (GO) enrichment analysis revealed that these genes with histone Kbu can regulate multiple metabolic process in different rice varieties.

conclusionOur study showed that the lysine butyrylation modificaiton may promote gene expression as histone acetylation and will provide resources for futher studies on histone Kbu and other epigenetic modifications in plants.

Indexed as

ChIP-seqHistone modificationLysine butyrylation (Kbu)Oryza sativaTranscriptional regulation

Identifiers

PMID31776817
PMCPMC6881504
OpenAlexW2991046970

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

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.