Plant editosome database: a curated database of RNA editosome in plants.

Computational Biology / methods Databases, Genetic Gene Expression Regulation, Plant Genomics / methods Plants / genetics RNA Editing RNA, Plant Web Browser

Journal

Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011

Informations de publication

Date de publication:
08 01 2019
Historique:
received: 12 08 2018
accepted: 17 10 2018
pubmed: 27 10 2018
medline: 12 5 2020
entrez: 27 10 2018
Statut: ppublish

Résumé

RNA editing plays an important role in plant development and growth, enlisting a number of editing factors in the editing process and accordingly revealing the diversity of plant editosomes for RNA editing. However, there is no resource available thus far that integrates editosome data for a variety of plants. Here, we present Plant Editosome Database (PED; http://bigd.big.ac.cn/ped), a curated database of RNA editosome in plants that is dedicated to the curation, integration and standardization of plant editosome data. Unlike extant relevant databases, PED incorporates high-quality editosome data manually curated from related publications and organelle genome annotations. In the current version, PED integrates a complete collection of 98 RNA editing factors and 20 836 RNA editing events, covering 203 organelle genes and 1621 associated species. In addition, it contains functional effects of editing factors in regulating plant phenotypes and includes detailed experimental evidence. Together, PED serves as an important resource to help researchers investigate the RNA editing process across a wide range of plants and thus would be of broad utility for the global plant research community.

Identifiants

DOI: 10.1093/nar/gky1026 PMID: 30364952 PMC: PMC6324055
pubmed: 30364952
pii: 5144952
doi: 10.1093/nar/gky1026
pmc: PMC6324055
doi:

Substances chimiques

RNA, Plant 0

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

D170-D174

Références

Plant Cell. 2004 Aug;16(8):2089-103
pubmed: 15269332
Nature. 2005 Jan 20;433(7023):326-30
pubmed: 15662426
Nucleic Acids Res. 2007 Jan;35(Database issue):D141-4
pubmed: 17088288
Plant Cell Physiol. 2009 Nov;50(11):1865-73
pubmed: 19808808
Plant J. 2010 Feb 1;61(3):456-66
pubmed: 19929879
RNA Biol. 2010 Mar-Apr;7(2):213-9
pubmed: 20473038
Nucleic Acids Res. 2010 Nov;38(20):7112-21
pubmed: 20615898
Plant J. 2012 May;70(3):432-44
pubmed: 22248025
Proc Natl Acad Sci U S A. 2012 Mar 27;109(13):5104-9
pubmed: 22411807
Proc Natl Acad Sci U S A. 2012 May 29;109(22):E1453-61
pubmed: 22566615
Proc Natl Acad Sci U S A. 2013 Mar 19;110(12):E1169-78
pubmed: 23487777
Nucleic Acids Res. 2014 Jan;42(Database issue):D109-13
pubmed: 24163250
PLoS Pathog. 2013 Oct;9(10):e1003713
pubmed: 24204264
Annu Rev Genet. 2013;47:335-52
pubmed: 24274753
Proc Natl Acad Sci U S A. 2014 Feb 4;111(5):2023-8
pubmed: 24497494
PLoS Genet. 2015 Mar 13;11(3):e1005028
pubmed: 25768119
Plant Physiol. 2016 Jan;170(1):294-309
pubmed: 26578708
Trends Plant Sci. 2016 Nov;21(11):962-973
pubmed: 27491516
Nucleic Acids Res. 2017 Jan 4;45(D1):D750-D757
pubmed: 27587585
Nucleic Acids Res. 2017 Jan 4;45(D1):D18-D24
pubmed: 27899658
Nat Plants. 2017 Apr 10;3:17037
pubmed: 28394309
Nucleic Acids Res. 2018 Jan 4;46(D1):D14-D20
pubmed: 29036542
Sci China Life Sci. 2018 Feb;61(2):162-169
pubmed: 29075943
Front Plant Sci. 2018 Apr 11;9:482
pubmed: 29696033
BMC Bioinformatics. 2018 Jul 3;19(1):255
pubmed: 29970001

Auteurs

Man Li (M)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Lin Xia (L)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Yuansheng Zhang (Y)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Guangyi Niu (G)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Mengwei Li (M)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Pei Wang (P)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Yang Zhang (Y)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Jian Sang (J)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Dong Zou (D)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.

Songnian Hu (S)

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.

Lili Hao (L)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.

Zhang Zhang (Z)

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
University of Chinese Academy of Sciences, Beijing 100049, China.
School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China.

Articles similaires

Multiple NADPH-cytochrome P450 reductases from Lycoris radiata involved in Amaryllidaceae alkaloids biosynthesis.

Yuqing Wu, Yifeng Zhang, Haitong Fan et al.
1.00
Amaryllidaceae Alkaloids Lycoris NADPH-Ferrihemoprotein Reductase Gene Expression Regulation, Plant Plant Proteins

Systematical characterization of Rab7 gene family in Gossypium and potential functions of GhRab7B3-A gene in drought tolerance.

Mengyuan Yan, Zhiwei Dong, Tian Pan et al.
1.00
Drought Resistance Gene Expression Profiling Gene Expression Regulation, Plant Gossypium Multigene Family

Comparative genomic analysis and characterization of novel high-quality draft genomes from the coal metagenome.

Arunmozhi Bharathi Achudhan, Lilly M Saleena
1.00
Coal Metagenome Phylogeny Bacteria Genome, Bacterial

GUCA2A dysregulation as a promising biomarker for accurate diagnosis and prognosis of colorectal cancer.

Pooya Jalali, Shahram Aliyari, Marziyeh Etesami et al.
1.00
Humans Colorectal Neoplasms Biomarkers, Tumor Prognosis Gene Expression Regulation, Neoplastic

Classifications MeSH

questionsmedicales.fr › Sciences de l'information › Informatique › Biologie informatique › Plant editosome database: a curated database...
questionsmedicales.fr › Sciences de l'information › Mémorisation et recherche des informations › Bases de données comme sujet › Bases de données factuelles › Bases de données génétiques › Plant editosome database: a curated database...
questionsmedicales.fr › Phénomènes génétiques › Régulation de l'expression des gènes › Régulation de l'expression des gènes végétaux › Plant editosome database: a curated database...
questionsmedicales.fr › Disciplines des sciences naturelles › Disciplines des sciences biologiques › Biologie › Génétique › Génomique › Plant editosome database: a curated database...
questionsmedicales.fr › Eucaryotes › Plantes › Plant editosome database: a curated database...
questionsmedicales.fr › Phénomènes génétiques › Régulation de l'expression des gènes › Maturation post-transcriptionnelle des ARN › Édition des ARN › Plant editosome database: a curated database...
questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Acides nucléiques › ARN › ARN des plantes › Plant editosome database: a curated database...
questionsmedicales.fr › Sciences de l'information › Mémorisation et recherche des informations › Navigateur › Plant editosome database: a curated database...