ReviewMethods in enzymology2007
Identification of genes encoding tRNA modification enzymes by comparative genomics.
Review in Methods in enzymology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Identification of a novel 5-aminomethyl-2-thiouridine methyltransferase in tRNA modification.Nucleic acids research · 2023Article
- Article
- The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes.Frontiers in microbiology · 2022Article
- Binding synergy as an essential step for tRNA editing and modification enzyme codependence inRNA (New York, N.Y.) · 2018Article
- The Impact of Western Diet and Nutrients on the Microbiota and Immune Response at Mucosal Interfaces.Frontiers in immunology · 2017Review
- Plant, animal, and fungal micronutrient queuosine is salvaged by members of the DUF2419 protein family.ACS chemical biology · 2014Article
- Decoding properties of tRNA leave a detectable signal in codon usage bias.Bioinformatics (Oxford, England) · 2012Article
- Biosynthesis of threonylcarbamoyl adenosine (t6A), a universal tRNA nucleoside.The Journal of biological chemistry · 2012Article
- Complex biotransformations catalyzed by radical S-adenosylmethionine enzymes.The Journal of biological chemistry · 2011Review
- Transfer RNA modifications and genes for modifying enzymes in Arabidopsis thaliana.BMC plant biology · 2010Article
- Human AlkB homolog ABH8 Is a tRNA methyltransferase required for wobble uridine modification and DNA damage survival.Molecular and cellular biology · 2010Article
- 'Unknown' proteins and 'orphan' enzymes: the missing half of the engineering parts list--and how to find it.The Biochemical journal · 2009Review
- The deazapurine biosynthetic pathway revealed: in vitro enzymatic synthesis of PreQ(0) from guanosine 5'-triphosphate in four steps.Biochemistry · 2009Article
- A Gateway platform for functional genomics in Haloferax volcanii: deletion of three tRNA modification genes.Archaea (Vancouver, B.C.) · 2009Article
- RNomics and Modomics in the halophilic archaea Haloferax volcanii: identification of RNA modification genes.BMC genomics · 2008Article
- An embarrassment of riches: the enzymology of RNA modification.Current opinion in chemical biology · 2008Review
- Crystallization and preliminary X-ray characterization of queD from Bacillus subtilis, an enzyme involved in queuosine biosynthesis.Acta crystallographica. Section F, Structural biology and crystallization communications · 2008Article
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1 author.
Funding
Abstract
As the molecular adapters between codons and amino acids, transfer-RNAs are pivotal molecules of the genetic code. The coding properties of a tRNA molecule do not reside only in its primary sequence. Posttranscriptional nucleoside modifications, particularly in the anticodon loop, can modify cognate codon recognition, affect aminoacylation properties, or stabilize the codon-anticodon wobble base pairing to prevent ribosomal frameshifting. Despite a wealth of biophysical and structural knowledge of the tRNA modifications themselves, their pathways of biosynthesis had been until recently only partially characterized. This discrepancy was mainly due to the lack of obvious phenotypes for tRNA modification-deficient strains and to the difficulty of the biochemical assays used to detect tRNA modifications. However, the availability of hundreds of whole-genome sequences has allowed the identification of many of these missing tRNA-modification genes. This chapter reviews the methods that were used to identify these genes with a special emphasis on the comparative genomic approaches. Methods that link gene and function but do not rely on sequence homology will be detailed, with examples taken from the tRNA modification field.
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