(Q39357680)

11 September 2017

Proteomics-based refinement of Deinococcus deserti genome annotation reveals an unwonted use of non-canonical translation initiation codons (English)

1 reference

11 September 2017

1 reference

Deinococcus deserti

1 reference

5

1 reference

11 September 2017

Jean Armengaud

11

0 references

Arjan de Groot

object named as

Arjan de Groot

8

0 references

Philippe Ortet

object named as

Philippe Ortet

2

0 references

author name string

Mathieu Baudet

1

1 reference

11 September 2017

Jean-Charles Gaillard

3

1 reference

11 September 2017

Bernard Fernandez

4

1 reference

11 September 2017

Christine Enjalbal

6

1 reference

11 September 2017

Gilles Subra

7

1 reference

11 September 2017

Mohamed Barakat

9

1 reference

11 September 2017

Alain Dedieu

10

1 reference

11 September 2017

29 October 2009

1 reference

Molecular & Cellular Proteomics

11 September 2017

1 reference

11 September 2017

9

1 reference

11 September 2017

2

1 reference

11 September 2017

415-426

1 reference

In planta proteomics and proteogenomics of the biotrophic barley fungal pathogen Blumeria graminis f. sp. hordei

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

DdrB protein, an alternative Deinococcus radiodurans SSB induced by ionizing radiation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Validating subcellular localization prediction tools with mycobacterial proteins

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

A perfect genome annotation is within reach with the proteomics and genomics alliance.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Alliance of proteomics and genomics to unravel the specificities of Sahara bacterium Deinococcus deserti

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Exploiting proteomic data for genome annotation and gene model validation in Aspergillus niger

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Discovery and revision of Arabidopsis genes by proteogenomics

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Annotating genomes with massive-scale RNA sequencing

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Deinococcus radiodurans PprI switches on DNA damage response and cellular survival networks after radiation damage

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Comparative proteogenomics: combining mass spectrometry and comparative genomics to analyze multiple genomes

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Genomic context analysis in Archaea suggests previously unrecognized links between DNA replication and translation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Proteogenomics: needs and roles to be filled by proteomics in genome annotation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

PRIDE: new developments and new datasets

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Structure and activity of Yersinia pestis 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase as a novel target for the development of antiplague therapeutics

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Deinococcus geothermalis: the pool of extreme radiation resistance genes shrinks

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Locating proteins in the cell using TargetP, SignalP and related tools

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Improving de novo sequencing of peptides using a charged tag and C-terminal digestion

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Reassembly of shattered chromosomes in Deinococcus radiodurans

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Deinococcus radiodurans - the consummate survivor

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Mass spectrometry of the M. smegmatis proteome: protein expression levels correlate with function, operons, and codon bias.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Proteomic analysis of Deinococcus radiodurans recovering from gamma-irradiation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Heat shock and cold shock in Deinococcus radiodurans.

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

The genome sequence of the extreme thermophile Thermus thermophilus

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Prediction of lipoprotein signal peptides in Gram-negative bacteria

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Inactivation of two homologues of proteins presumed to be involved in the desiccation tolerance of plants sensitizes Deinococcus radiodurans R1 to desiccation

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Proteomics reveals open reading frames in Mycobacterium tuberculosis H37Rv not predicted by genomics

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Genome Sequence of the Radioresistant Bacterium Deinococcus radiodurans R1

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Linking genome and proteome by mass spectrometry: large-scale identification of yeast proteins from two dimensional gels

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Molecular cloning and sequencing of infC, the gene encoding translation initiation factor IF3, from four enterobacterial species

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

AUU-to-AUG mutation in the initiator codon of the translation initiation factor IF3 abolishes translational autocontrol of its own gene (infC) in vivo

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Expression and regulation of the RepA protein of the RepFIB replicon from plasmid P307

11 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

AMT tag approach to proteomic characterization of Deinococcus radiodurans and Shewanella oneidensis.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Proteome analysis of an aerobic hyperthermophilic crenarchaeon, Aeropyrum pernix K1.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Validation of Shewanella oneidensis MR-1 small proteins by AMT tag-based proteome analysis

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Proteogenomic mapping as a complementary method to perform genome annotation

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Programmed translational frameshifting and initiation at an AUU codon in gene expression of bacterial insertion sequence IS911

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

When DNA replication and protein synthesis come together

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

A new perspective on radiation resistance based on Deinococcus radiodurans.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Improved recovery of proteome-informative, protein N-terminal peptides by combined fractional diagonal chromatography (COFRADIC).

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Large-scale identification of N-terminal peptides in the halophilic archaea Halobacterium salinarum and Natronomonas pharaonis

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Accumulation of Mn(II) in Deinococcus radiodurans facilitates gamma-radiation resistance.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Adaptation of protein secretion to extremely high-salt conditions by extensive use of the twin-arginine translocation pathway

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2830850

Deinococcus radiodurans: What Belongs to the Survival Kit?

21 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1074%2FMCP.M900359-MCP200

Global Whole-Cell FTICR Mass Spectrometric Proteomics Analysis of the Heat Shock Response in the Radioresistant BacteriumDeinococcusradiodurans

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1074%2FMCP.M900359-MCP200

Sequence Features Surrounding the Translation Initiation Sites Assigned on the Genome Sequence of Synechocystis sp. Strain PCC6803 by Amino-terminal Protein Sequencing

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1074%2FMCP.M900359-MCP200

UGA: a split personality in the universal genetic code

21 January 2018

1 reference

12 December 2020

The essential histone-like protein HU plays a major role in Deinococcus radiodurans nucleoid compaction

1 reference

12 December 2020

Mass spectrometry-based prokaryote gene annotation

1 reference

12 December 2020

Expression of the Escherichia coli pcnB gene is translationally limited using an inefficient start codon: a second chromosomal example of translation initiated at AUU

1 reference

12 December 2020

10.1074/MCP.M900359-MCP200

Identifiers

DOI

1 reference

11 September 2017

1 reference

11 September 2017

PubMed publication ID

19875382

1 reference