1
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      The essential function of the Trypanosoma brucei Trl1 homolog in procyclic cells is maturation of the intron-containing tRNA Tyr

      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Trypanosoma brucei, the etiologic agent of sleeping sickness, encodes a single intron-containing tRNA, tRNA Tyr, and splicing is essential for its viability. In Archaea and Eukarya, tRNA splicing requires a series of enzymatic steps that begin with intron cleavage by a tRNA-splicing endonuclease and culminates with joining the resulting tRNA exons by a splicing tRNA ligase. Here we explored the function of TbTrl1, the T. brucei homolog of the yeast Trl1 tRNA ligase. We used a combination of RNA interference and molecular biology approaches to show that down-regulation of TbTrl1 expression leads to accumulation of intron-containing tRNA Tyr and a concomitant growth arrest at the G1 phase. These defects were efficiently rescued by expression of an “intronless” version of tRNA Tyr in the same RNAi cell line. Taken together, these experiments highlight the crucial importance of the TbTrl1 for tRNA Tyr maturation and viability, while revealing tRNA splicing as its only essential function.

          Related collections

          Most cited references54

          • Record: found
          • Abstract: found
          • Article: not found

          Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction.

          A new method of total RNA isolation by a single extraction with an acid guanidinium thiocyanate-phenol-chloroform mixture is described. The method provides a pure preparation of undegraded RNA in high yield and can be completed within 4 h. It is particularly useful for processing large numbers of samples and for isolation of RNA from minute quantities of cells or tissue samples.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            CDD: NCBI's conserved domain database

            NCBI's CDD, the Conserved Domain Database, enters its 15th year as a public resource for the annotation of proteins with the location of conserved domain footprints. Going forward, we strive to improve the coverage and consistency of domain annotation provided by CDD. We maintain a live search system as well as an archive of pre-computed domain annotation for sequences tracked in NCBI's Entrez protein database, which can be retrieved for single sequences or in bulk. We also maintain import procedures so that CDD contains domain models and domain definitions provided by several collections available in the public domain, as well as those produced by an in-house curation effort. The curation effort aims at increasing coverage and providing finer-grained classifications of common protein domains, for which a wealth of functional and structural data has become available. CDD curation generates alignment models of representative sequence fragments, which are in agreement with domain boundaries as observed in protein 3D structure, and which model the structurally conserved cores of domain families as well as annotate conserved features. CDD can be accessed at http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: found
              Is Open Access

              GtRNAdb: a database of transfer RNA genes detected in genomic sequence

              Transfer RNAs (tRNAs) represent the single largest, best-understood class of non-protein coding RNA genes found in all living organisms. By far, the major source of new tRNAs is computational identification of genes within newly sequenced genomes. To organize the rapidly growing collection and enable systematic analyses, we created the Genomic tRNA Database (GtRNAdb), currently including over 74 000 tRNA genes predicted from 740 species. The web resource provides overview statistics of tRNA genes within each analyzed genome, including information by isotype and genetic locus, easily downloadable primary sequences, graphical secondary structures and multiple sequence alignments. Direct links for each gene to UCSC eukaryotic and microbial genome browsers provide graphical display of tRNA genes in the context of all other local genetic information. The database can be searched by primary sequence similarity, tRNA characteristics or phylogenetic group. The database is publicly available at http://gtrnadb.ucsc.edu.
                Bookmark

                Author and article information

                Journal
                RNA
                RNA
                RNA
                RNA
                Cold Spring Harbor Laboratory Press
                1355-8382
                1469-9001
                August 2016
                : 22
                : 8
                : 1190-1199
                Affiliations
                [1 ]Instituto de Bioquímica Médica Leopoldo de Meis, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Caixa Postal 68041, Brazil
                [2 ]Instituto Nacional de Ciência e Tecnologia em Entomologia Molecular (INCT-EM), Caixa Postal 68041, Brazil
                [3 ]Department of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, Ohio 43210, USA
                [4 ]Biology Centre, Institute of Parasitology, Czech Academy of Sciences, 37005 České Budějovice (Budweis), Czech Republic
                Author notes
                Article
                9509184 RA
                10.1261/rna.056242.116
                4931112
                27284166
                48cc8343-bb40-4dce-b817-f220705d95da
                © 2016 Lopes et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

                This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

                History
                : 5 February 2016
                : 20 April 2016
                Funding
                Funded by: UNICEF/UNDP/World Bank/WHO Special Programme for Research and Training in Tropical Diseases (TDR) http://dx.doi.org/10.13039/100006641
                Funded by: Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) http://dx.doi.org/10.13039/501100003593
                Funded by: Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) http://dx.doi.org/10.13039/501100002322
                Funded by: Fundação Carlos Chagas Filho de Amparo a Pesquisa de Estado do Rio de Janeiro http://dx.doi.org/10.13039/501100004586
                Funded by: National Institutes of Health http://dx.doi.org/10.13039/100000002
                Award ID: GM084065-07
                Funded by: Czech Science Foundation http://dx.doi.org/10.13039/501100001824
                Award ID: 15-21450Y
                Categories
                Article

                trypanosoma,trna,trna editing,splicing,intron
                trypanosoma, trna, trna editing, splicing, intron

                Comments

                Comment on this article