Literature DB >> 12520043

Plant snoRNA database.

John W S Brown1, Manuel Echeverria, Liang-Hu Qu, Todd M Lowe, Jean-Pierre Bachellerie, Alexander Hüttenhofer, James P Kastenmayer, Pamela J Green, Paul Shaw, Dave F Marshall.   

Abstract

The Plant snoRNA database (http://www.scri.sari.ac.uk/plant_snoRNA/) provides information on small nucleolar RNAs from Arabidopsis and eighteen other plant species. Information includes sequences, expression data, methylation and pseudouridylation target modification sites, initial gene organization (polycistronic, single gene and intronic) and the number of gene variants. The Arabidopsis information is divided into box C/D and box H/ACA snoRNAs, and within each of these groups, by target sites in rRNA, snRNA or unknown. Alignments of orthologous genes and gene variants from different plant species are available for many snoRNA genes. Plant snoRNA genes have been given a standard nomenclature, designed wherever possible, to provide a consistent identity with yeast and human orthologues.

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Year:  2003        PMID: 12520043      PMCID: PMC165456          DOI: 10.1093/nar/gkg009

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  26 in total

1.  Multiple snoRNA gene clusters from Arabidopsis.

Authors:  J W Brown; G P Clark; D J Leader; C G Simpson; T Lowe
Journal:  RNA       Date:  2001-12       Impact factor: 4.942

Review 2.  Non-coding RNA genes and the modern RNA world.

Authors:  S R Eddy
Journal:  Nat Rev Genet       Date:  2001-12       Impact factor: 53.242

3.  MicroRNAs: deviants no longer.

Authors:  Amy E Pasquinelli
Journal:  Trends Genet       Date:  2002-04       Impact factor: 11.639

4.  Cajal body-specific small nuclear RNAs: a novel class of 2'-O-methylation and pseudouridylation guide RNAs.

Authors:  Xavier Darzacq; Beáta E Jády; Céline Verheggen; Arnold M Kiss; Edouard Bertrand; Tamás Kiss
Journal:  EMBO J       Date:  2002-06-03       Impact factor: 11.598

Review 5.  Small nucleolar RNAs: an abundant group of noncoding RNAs with diverse cellular functions.

Authors:  Tamás Kiss
Journal:  Cell       Date:  2002-04-19       Impact factor: 41.582

Review 6.  Biogenesis of small nucleolar ribonucleoproteins.

Authors:  Witold Filipowicz; Vanda Pogacić
Journal:  Curr Opin Cell Biol       Date:  2002-06       Impact factor: 8.382

7.  Experimental RNomics: identification of 140 candidates for small non-messenger RNAs in the plant Arabidopsis thaliana.

Authors:  Claudia Marker; Anja Zemann; Tanja Terhörst; Martin Kiefmann; James P Kastenmayer; Pamela Green; Jean-Pierre Bachellerie; Jürgen Brosius; Alexander Hüttenhofer
Journal:  Curr Biol       Date:  2002-12-10       Impact factor: 10.834

8.  Wheat-embryo ribonucleates. III. Modified nucleotide constituents in each of the 5.8S, 18S and 26S ribonucleates.

Authors:  R Y Lau; T D Kennedy; B G Lane
Journal:  Can J Biochem       Date:  1974-12

9.  Studies on the methylation of cytoplasmic ribosomal RNA from cultured higher plant cells.

Authors:  J P Cecchini; R Miassod
Journal:  Eur J Biochem       Date:  1979-07

10.  A novel gene organization: intronic snoRNA gene clusters from Oryza sativa.

Authors:  Dan Liang; Hui Zhou; Peng Zhang; Yue-Qin Chen; Xiao Chen; Chun-Long Chen; Liang-Hu Qu
Journal:  Nucleic Acids Res       Date:  2002-07-15       Impact factor: 16.971

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  43 in total

1.  Novel non-coding RNAs in Dictyostelium discoideum and their expression during development.

Authors:  Anders Aspegren; Andrea Hinas; Pontus Larsson; Anders Larsson; Fredrik Söderbom
Journal:  Nucleic Acids Res       Date:  2004-08-27       Impact factor: 16.971

2.  A genome-wide analysis of C/D and H/ACA-like small nucleolar RNAs in Trypanosoma brucei reveals a trypanosome-specific pattern of rRNA modification.

Authors:  Xue-Hai Liang; Shai Uliel; Avraham Hury; Sarit Barth; Tirza Doniger; Ron Unger; Shulamit Michaeli
Journal:  RNA       Date:  2005-05       Impact factor: 4.942

Review 3.  Ribosome Biogenesis in Plants: From Functional 45S Ribosomal DNA Organization to Ribosome Assembly Factors.

Authors:  Julio Sáez-Vásquez; Michel Delseny
Journal:  Plant Cell       Date:  2019-06-25       Impact factor: 11.277

4.  New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA.

Authors:  Dorota Piekna-Przybylska; Wayne A Decatur; Maurille J Fournier
Journal:  RNA       Date:  2007-02-05       Impact factor: 4.942

5.  Loss of rRNA modifications in the decoding center of the ribosome impairs translation and strongly delays pre-rRNA processing.

Authors:  Xue-Hai Liang; Qing Liu; Maurille J Fournier
Journal:  RNA       Date:  2009-07-23       Impact factor: 4.942

6.  The small nucleolar ribonucleoprotein (snoRNP) database.

Authors:  J Christopher Ellis; Daniel D Brown; James W Brown
Journal:  RNA       Date:  2010-03-02       Impact factor: 4.942

7.  The high diversity of snoRNAs in plants: identification and comparative study of 120 snoRNA genes from Oryza sativa.

Authors:  Chun-Long Chen; Dan Liang; Hui Zhou; Min Zhuo; Yue-Qin Chen; Liang-Hu Qu
Journal:  Nucleic Acids Res       Date:  2003-05-15       Impact factor: 16.971

8.  Mining small RNA sequencing data: a new approach to identify small nucleolar RNAs in Arabidopsis.

Authors:  Ho-Ming Chen; Shu-Hsing Wu
Journal:  Nucleic Acids Res       Date:  2009-04-08       Impact factor: 16.971

9.  Analysis of small nucleolar RNAs reveals unique genetic features in malaria parasites.

Authors:  Prakash Chandra Mishra; Anuj Kumar; Amit Sharma
Journal:  BMC Genomics       Date:  2009-02-07       Impact factor: 3.969

10.  deepBase: a database for deeply annotating and mining deep sequencing data.

Authors:  Jian-Hua Yang; Peng Shao; Hui Zhou; Yue-Qin Chen; Liang-Hu Qu
Journal:  Nucleic Acids Res       Date:  2009-12-04       Impact factor: 16.971

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