(Q33580404)

28 July 2017

title

Comparative genomic analysis of translation initiation mechanisms for genes lacking the Shine-Dalgarno sequence in prokaryotes (English)

1 reference

28 July 2017

0 references

3

Takashi Gojobori

1 reference

28 July 2017

So Nakagawa

1

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author name string

Yoshihito Niimura

series ordinal

2

1 reference

28 July 2017

language of work or name

English

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publication date

21 February 2017

1 reference

28 July 2017

number of pages

10

1 reference

inferred from page(s)

published in

Nucleic Acids Research

1 reference

28 July 2017

volume

45

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28 July 2017

issue

7

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28 July 2017

page(s)

3922-3931

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Creative Commons Attribution 4.0 International

28 July 2017

copyright license

start time

21 February 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Depletion of Shine-Dalgarno Sequences within Bacterial Coding Regions Is Expression Dependent

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The Frequency of Internal Shine-Dalgarno-like Motifs in Prokaryotes

21 June 2018

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Leaderless Transcripts and Small Proteins Are Common Features of the Mycobacterial Translational Landscape.

21 June 2018

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Distribution and diversity of ribosome binding sites in prokaryotic genomes

21 June 2018

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The coding and noncoding architecture of the Caulobacter crescentus genome

21 June 2018

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Escherichia coli ribosomal protein S1 unfolds structured mRNAs onto the ribosome for active translation initiation

21 June 2018

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21 June 2018

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Ribosomal protein S1 unwinds double-stranded RNA in multiple steps

21 June 2018

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The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria

21 June 2018

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Selective translation of leaderless mRNAs by specialized ribosomes generated by MazF in Escherichia coli.

21 June 2018

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Inability of Prevotella bryantii to form a functional Shine-Dalgarno interaction reflects unique evolution of ribosome binding sites in Bacteroidetes

21 June 2018

1 reference

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Leaderless genes in bacteria: clue to the evolution of translation initiation mechanisms in prokaryotes.

21 June 2018

1 reference

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Local absence of secondary structure permits translation of mRNAs that lack ribosome-binding sites

21 June 2018

1 reference

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Translation initiation in Archaea: conserved and domain-specific features.

21 June 2018

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Dynamic evolution of translation initiation mechanisms in prokaryotes

21 June 2018

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A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes

21 June 2018

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Translation efficiency is determined by both codon bias and folding energy

21 June 2018

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A single-base resolution map of an archaeal transcriptome

21 June 2018

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Probing the relationship between Gram-negative and Gram-positive S1 proteins by sequence analysis

21 June 2018

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Structure-function insights into prokaryotic and eukaryotic translation initiation.

21 June 2018

1 reference

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Coding-sequence determinants of gene expression in Escherichia coli

21 June 2018

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21 June 2018

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Experimental characterization of Cis-acting elements important for translation and transcription in halophilic archaea

21 June 2018

1 reference

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Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes

21 June 2018

1 reference

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Exploration and grading of possible genes from 183 bacterial strains by a common protocol to identification of new genes: Gene Trek in Prokaryote Space (GTPS).

21 June 2018

1 reference

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Recovering motifs from biased genomes: application of signal correction

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Predicting Shine-Dalgarno sequence locations exposes genome annotation errors

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

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21 June 2018

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AU-rich sequences within 5' untranslated leaders enhance translation and stabilize mRNA in Escherichia coli.

21 June 2018

1 reference

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Comparative analysis of the base biases at the gene terminal portions in seven eukaryote genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Evidence against an Interaction between the mRNA downstream box and 16S rRNA in translation initiation.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

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21 June 2018

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Analysis of E. coli promoter sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Mutational analysis of an archaebacterial promoter: essential role of a TATA box for transcription efficiency and start-site selection in vitro

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Ribosome-messenger recognition: mRNA target sites for ribosomal protein S1.

21 June 2018

1 reference

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Control regions of an archaeal gene. A TATA box and an initiator element promote cell-free transcription of the tRNA(Val) gene of Methanococcus vannielii.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Influence of mRNA determinants on translation initiation in Escherichia coli.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

The location of mRNA in the ribosomal 30S initiation complex; site-directed cross-linking of mRNA analogues carrying several photo-reactive labels simultaneously on either side of the AUG start codon

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Unusual ribosome binding properties of mRNA encoding bacteriophage lambda repressor.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Nucleotide sequence of an RNA polymerase binding site at an early T7 promoter

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Nucleotide sequence of an RNA polymerase binding site from the DNA of bacteriophage fd

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Determinant of cistron specificity in bacterial ribosomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5397173

Analysis of SD sequences in completed microbial genomes: non-SD-led genes are as common as SD-led genes.

21 June 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKX124

Two different and highly organized mechanisms of translation initiation in the archaeon Sulfolobus solfataricus

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKX124

Bacterial features in the genome of Methanococcus jannaschii in terms of gene composition and biased base composition in ORFs and their surrounding regions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKX124

In silico analysis of 5'-UTRs highlights the prevalence of Shine-Dalgarno and leaderless-dependent mechanisms of translation initiation in bacteria and archaea, respectively

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKX124

Leaderless transcripts of the crenarchaeal hyperthermophile Pyrobaculum aerophilum

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28334743

12 December 2020

inferred from PubMed ID database lookup

Normalized nucleotide frequencies allow the definition of archaeal promoter elements for different archaeal groups and reveal base-specific TFB contacts upstream of the TATA box.

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28334743

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1093/NAR/GKX124

1 reference

release_u4i5lucy4ffbrli7btccqc7o3q

28 July 2017

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/u4i5lucy4ffbrli7btccqc7o3q

24 November 2022

mapped directly with Wikidata item

PMC publication ID

5397173

1 reference

28 July 2017

1 reference