Essentiality of threonylcarbamoyladenosine (t6A), a universal tRNA modification, in bacteria

Crystal structures of the Gon7/Pcc1 and Bud32/Cgi121 complexes provide a model for the complete yeast KEOPS complex

(2015) Wenhua Zhang et al.   NUCLEIC ACIDS RESEARCH

Diversity of the biosynthesis pathway for threonylcarbamoyladenosine (t6A), a universal modification of tRNA

(2015) Patrick C Thiaville et al.   RNA Biology

A System of RNA Modifications and Biased Codon Use Controls Cellular Stress Response at the Level of Translation

(2014) Peter C. Dedon et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Cross Kingdom Functional Conservation of the Core Universally Conserved Threonylcarbamoyladenosine tRNA Synthesis Enzymes

(2014) Patrick C. Thiaville et al.   EUKARYOTIC CELL

tRNA modifications regulate translation during cellular stress

(2014) Chen Gu et al.   FEBS LETTERS

Sense codon emancipation for proteome-wide incorporation of noncanonical amino acids: rare isoleucine codon AUA as a target for genetic code expansion

(2014) Nina Bohlke et al.   FEMS MICROBIOLOGY LETTERS

Systematic identification of tRNAome and its dynamics inLactococcus lactis

(2014) Pranav Puri et al.   MOLECULAR MICROBIOLOGY

Relaxed Substrate Specificity Leads to Extensive tRNA Mischarging by Streptococcus pneumoniae Class I and Class II Aminoacyl-tRNA Synthetases

(2014) J. Shepherd et al.   mBio

Predicting the Minimal Translation Apparatus: Lessons from the Reductive Evolution of Mollicutes

(2014) Henri Grosjean et al.   PLoS Genetics

The global identification of tRNA isoacceptors by targeted tandem mass spectrometry

(2013) Collin Wetzel et al.   ANALYST

Evaluating the reproducibility of quantifying modified nucleosides from ribonucleic acids by LC–UV–MS

(2013) Susan P. Russell et al.   JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES

Deficiency of BrpB causes major defects in cell division, stress responses and biofilm formation by Streptococcus mutans

(2013) J. P. Bitoun et al.   MICROBIOLOGY-SGM

High-resolution definition of the Vibrio cholerae essential gene set with hidden Markov model–based analyses of transposon-insertion sequencing data

(2013) Michael C. Chao et al.   NUCLEIC ACIDS RESEARCH

Decoding system for the AUA codon by tRNA Ile with the UAU anticodon in Mycoplasma mobile

(2013) Takaaki Taniguchi et al.   NUCLEIC ACIDS RESEARCH

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

(2013) Ron Caspi et al.   NUCLEIC ACIDS RESEARCH

Reconstitution and characterization of eukaryotic N6-threonylcarbamoylation of tRNA using a minimal enzyme system

(2013) Leo C. K. Wan et al.   NUCLEIC ACIDS RESEARCH

PATRIC, the bacterial bioinformatics database and analysis resource

(2013) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

tRNA tKUUU, tQUUG, and tEUUC wobble position modifications fine-tune protein translation by promoting ribosome A-site binding

(2013) V. A. N. Rezgui et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-scale analysis of gene function in the hydrogenotrophic methanogenic archaeon Methanococcus maripaludis

(2013) F. Sarmiento et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative proteomics reveals key proteins recruited at the nucleoid ofDeinococcusafter irradiation-induced DNA damage

(2013) Claire Bouthier de la Tour et al.   PROTEOMICS

Sequence-Defined Transposon Mutant Library of Burkholderia thailandensis

(2013) L. A. Gallagher et al.   mBio

Gene Fitness Landscapes of Vibrio cholerae at Important Stages of Its Life Cycle

(2013) Heather D. Kamp et al.   PLoS Pathogens

Biosynthesis and Function of Posttranscriptional Modifications of Transfer RNAs

(2012) Basma El Yacoubi et al.   Annual Review of Genetics

Mechanism of N6-Threonylcarbamoyladenonsine (t6A) Biosynthesis: Isolation and Characterization of the Intermediate Threonylcarbamoyl-AMP

(2012) Charles T. Lauhon   BIOCHEMISTRY

Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response

(2012) Ashish Patil et al.   CELL CYCLE

Deinococcus radiodurans YgjD and YeaZ are involved in the repair of DNA cross-links

(2012) Takefumi Onodera et al.   EXTREMOPHILES

Biosynthesis of Threonylcarbamoyl Adenosine (t6A), a Universal tRNA Nucleoside

(2012) Christopher Deutsch et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

EcoGene 3.0

(2012) Jindan Zhou et al.   NUCLEIC ACIDS RESEARCH

In vitro biosynthesis of a universal t6A tRNA modification in Archaea and Eukarya

(2012) Ludovic Perrochia et al.   NUCLEIC ACIDS RESEARCH

A Genetic Investigation of the KEOPS Complex in Halophilic Archaea

(2012) Adit Naor et al.   PLoS One

Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modifications

(2012) Ashish Patil et al.   RNA Biology

Reprogramming of tRNA modifications controls the oxidative stress response by codon-biased translation of proteins

(2012) Clement T.Y. Chan et al.   Nature Communications

The gene-specific codon counting database: a genome-based catalog of one-, two-, three-, four- and five-codon combinations present in Saccharomyces cerevisiae genes

(2012) Sudheer Tumu et al.   Database-The Journal of Biological Databases and Curation

Patterns of Evolutionary Conservation of Essential Genes Correlate with Their Compensability

(2012) Tobias Bergmiller et al.   PLoS Genetics

Synergistic use of plant-prokaryote comparative genomics for functional annotations

(2011) Svetlana Gerdes et al.   BMC GENOMICS

Single-cell time-lapse analysis of depletion of the universally conserved essential protein YgjD

(2011) Tobias Bergmiller et al.   BMC MICROBIOLOGY

A role for the universal Kae1/Qri7/YgjD (COG0533) family in tRNA modification

(2011) Basma El Yacoubi et al.   EMBO JOURNAL

Effects on Transcription of Mutations in ygjD, yeaZ, and yjeE Genes, Which Are Involved in a Universal tRNA Modification in Escherichia coli

(2011) C. Hashimoto et al.   JOURNAL OF BACTERIOLOGY

The essential genome of a bacterium

(2011) B. Christen et al.   Molecular Systems Biology

Structural basis of tRNA agmatinylation essential for AUA codon decoding

(2011) Takuo Osawa et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Gcn4 misregulation reveals a direct role for the evolutionary conserved EKC/KEOPS in the t6A modification of tRNAs

(2011) Marie-Claire Daugeron et al.   NUCLEIC ACIDS RESEARCH

S. pombegenome deletion project: An update

(2010) Mario Spirek et al.   CELL CYCLE

Fewer essential genes in mycoplasmas than previous studies suggest

(2010) Kevin Dybvig et al.   FEMS MICROBIOLOGY LETTERS

An Extreme Thermophile, Thermus thermophilus, Is a Polyploid Bacterium

(2010) N. Ohtani et al.   JOURNAL OF BACTERIOLOGY

Termination troubles in Escherichia coli K12

(2010) Marc Dreyfus et al.   MOLECULAR MICROBIOLOGY

Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe

(2010) Dong-Uk Kim et al.   NATURE BIOTECHNOLOGY

Agmatine-conjugated cytidine in a tRNA anticodon is essential for AUA decoding in archaea

(2010) Yoshiho Ikeuchi et al.   Nature Chemical Biology

Agmatidine, a modified cytidine in the anticodon of archaeal tRNAIle, base pairs with adenosine but not with guanosine

(2010) D. Mandal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Ubiquitous Conserved Glycopeptidase Gcp Prevents Accumulation of Toxic Glycated Proteins

(2010) C. Katz et al.   mBio

Towards a Systems Approach in the Genetic Analysis of Archaea: Accelerating Mutant Construction and Phenotypic Analysis inHaloferax volcanii

(2010) Ian K. Blaby et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH)

(2009) Roy R Chaudhuri et al.   BMC GENOMICS

Discovery and characterization of tRNAIle lysidine synthetase (TilS)

(2009) Tsutomu Suzuki et al.   FEBS LETTERS

Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants

(2009) G. C. Langridge et al.   GENOME RESEARCH

Grasping at Shadows: Revealing the Elusive Nature of Essential Genes

(2009) T. Msadek   JOURNAL OF BACTERIOLOGY

Conserved Network of Proteins Essential for Bacterial Viability

(2009) J. I. Handford et al.   JOURNAL OF BACTERIOLOGY

The Sua5 Protein Is Essential for Normal Translational Regulation in Yeast

(2009) C. A. Lin et al.   MOLECULAR AND CELLULAR BIOLOGY

Protein structure prediction on the Web: a case study using the Phyre server

(2009) Lawrence A Kelley et al.   Nature Protocols

The universal YrdC/Sua5 family is required for the formation of threonylcarbamoyladenosine in tRNA

(2009) B. El Yacoubi et al.   NUCLEIC ACIDS RESEARCH

Qri7/OSGEPL, the mitochondrial version of the universal Kae1/YgjD protein, is essential for mitochondrial genome maintenance

(2009) Jacques Oberto et al.   NUCLEIC ACIDS RESEARCH

Endogenous nitric oxide regulates the recovery of the radiation-resistant bacterium Deinococcus radiodurans from exposure to UV light

(2009) B. A. Patel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Large-scale transposon mutagenesis ofMycoplasma pulmonis

(2008) Christopher T. French et al.   MOLECULAR MICROBIOLOGY

A complete collection of single-gene deletion mutants of Acinetobacter baylyi ADP1

(2008) Véronique de Berardinis et al.   Molecular Systems Biology

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

(2008) F. Juhling et al.   NUCLEIC ACIDS RESEARCH