(Q52654355)

5 May 2018

title

Codon choice directs constitutive mRNA levels in trypanosomes. (English)

1 reference

5 May 2018

author

Steven Kelly

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

Janaina de Freitas Nascimento

7 June 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

7 June 2020

Jack D Sunter

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

7 June 2020

Mark Carrington

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

7 June 2020

author name string

Janaina de Freitas Nascimento

1

1 reference

5 May 2018

Jack Sunter

3

1 reference

5 May 2018

Mark Carrington

4

1 reference

5 May 2018

language of work or name

English

0 references

publication date

15 March 2018

1 reference

5 May 2018

published in

eLife

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

7 June 2020

volume

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

An Alternative Strategy for Trypanosome Survival in the Mammalian Bloodstream Revealed through Genome and Transcriptome Analysis of the Ubiquitous Bovine Parasite Trypanosoma (Megatrypanum) theileri.

7 June 2020

cites work

1 reference

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Expression of the RNA-binding protein RBP10 promotes the bloodstream-form differentiation state in Trypanosoma brucei.

22 May 2018

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The proteome and transcriptome of the infectious metacyclic form of Trypanosoma brucei define quiescent cells primed for mammalian invasion.

22 May 2018

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GT‐rich promoters can drive RNA pol II transcription and deposition of H2A.Z in African trypanosomes

22 May 2018

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Dietary nitrogen alters codon bias and genome composition in parasitic microorganisms

13 August 2018

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Analysis of the association between codon optimality and mRNA stability in Schizosaccharomyces pombe

22 May 2018

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High-resolution analysis of multi-copy variant surface glycoprotein gene expression sites in African trypanosomes

22 May 2018

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The DEAD-Box Protein Dhh1p Couples mRNA Decay and Translation by Monitoring Codon Optimality

22 May 2018

1 reference

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Codon identity regulates mRNA stability and translation efficiency during the maternal-to-zygotic transition

22 May 2018

1 reference

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Codon Usage and 3' UTR Length Determine Maternal mRNA Stability in Zebrafish

22 May 2018

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Comparative Life Cycle Transcriptomics Revises Leishmania mexicana Genome Annotation and Links a Chromosome Duplication with Parasitism of Vertebrates

22 May 2018

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Codon optimality is a major determinant of mRNA stability

22 May 2018

1 reference

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Measurement of average decoding rates of the 61 sense codons in vivo.

22 May 2018

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Extensive stage-regulation of translation revealed by ribosome profiling of Trypanosoma brucei

22 May 2018

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Transcriptome-wide analysis of trypanosome mRNA decay reveals complex degradation kinetics and suggests a role for co-transcriptional degradation in determining mRNA levels

22 May 2018

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Evolution of parasitism in kinetoplastid flagellates.

22 May 2018

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A short RNA stem-loop is necessary and sufficient for repression of gene expression during early logarithmic phase in trypanosomes

22 May 2018

1 reference

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Trimmomatic: a flexible trimmer for Illumina sequence data

22 May 2018

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A comprehensive tRNA deletion library unravels the genetic architecture of the tRNA pool

22 May 2018

1 reference

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Comparative ribosome profiling reveals extensive translational complexity in different Trypanosoma brucei life cycle stages.

22 May 2018

1 reference

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Translation elongation can control translation initiation on eukaryotic mRNAs

22 May 2018

1 reference

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The regulation of trypanosome gene expression by RNA-binding proteins

22 May 2018

1 reference

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High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome

22 May 2018

1 reference

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Developmental progression to infectivity in Trypanosoma brucei triggered by an RNA-binding protein.

22 May 2018

1 reference

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Trypanosome CNOT10 is essential for the integrity of the NOT deadenylase complex and for degradation of many mRNAs

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

The essential polysome-associated RNA-binding protein RBP42 targets mRNAs involved in Trypanosoma brucei energy metabolism

22 May 2018

1 reference

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Speeding with control: codon usage, tRNAs, and ribosomes

22 May 2018

1 reference

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Genome organization is a major component of gene expression control in response to stress and during the cell division cycle in trypanosomes.

22 May 2018

1 reference

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The DEAD-box protein Dhh1 promotes decapping by slowing ribosome movement

22 May 2018

1 reference

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A role for tRNA modifications in genome structure and codon usage

22 May 2018

1 reference

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Fast gapped-read alignment with Bowtie 2

22 May 2018

1 reference

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The post-transcriptional trans-acting regulator, TbZFP3, co-ordinates transmission-stage enriched mRNAs in Trypanosoma brucei.

22 May 2018

1 reference

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3-(3-amino-3-carboxypropyl)-5,6-dihydrouridine is one of two novel post-transcriptional modifications in tRNALys(UUU) from Trypanosoma brucei.

22 May 2018

1 reference

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RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

22 May 2018

1 reference

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FMRP stalls ribosomal translocation on mRNAs linked to synaptic function and autism

22 May 2018

1 reference

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The C-terminal end of the Trypanosoma brucei editing deaminase plays a critical role in tRNA binding

22 May 2018

1 reference

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The role of tRNA and ribosome competition in coupling the expression of different mRNAs in Saccharomyces cerevisiae

22 May 2018

1 reference

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The transcriptome of the human pathogen Trypanosoma brucei at single-nucleotide resolution

22 May 2018

1 reference

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Translation efficiency is determined by both codon bias and folding energy

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

The RNA helicase DHH1 is central to the correct expression of many developmentally regulated mRNAs in trypanosomes

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Thiolated tRNAs of Trypanosoma brucei are imported into mitochondria and dethiolated after import

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Gene organization and sequence analyses of transfer RNA genes in Trypanosomatid parasites

22 May 2018

1 reference

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Four histone variants mark the boundaries of polycistronic transcription units in Trypanosoma brucei

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Coding-sequence determinants of gene expression in Escherichia coli

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Differential trypanosome surface coat regulation by a CCCH protein that co-associates with procyclin mRNA cis-elements.

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

A role for Caf1 in mRNA deadenylation and decay in trypanosomes and human cells

22 May 2018

1 reference

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Trypanosoma brucei mitochondrial ribosomes: affinity purification and component identification by mass spectrometry

22 May 2018

1 reference

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Codon usage suggests that translational selection has a major impact on protein expression in trypanosomatids

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

C to U editing at position 32 of the anticodon loop precedes tRNA 5' leader removal in trypanosomatids

22 May 2018

1 reference

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Ribosome kinetics and aa-tRNA competition determine rate and fidelity of peptide synthesis

22 May 2018

1 reference

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An adenosine-to-inosine tRNA-editing enzyme that can perform C-to-U deamination of DNA.

22 May 2018

1 reference

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Post-transcriptional control of nuclear-encoded cytochrome oxidase subunits in Trypanosoma brucei: evidence for genome-wide conservation of life-cycle stage-specific regulatory elements

22 May 2018

1 reference

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The two eIF4A helicases in Trypanosoma brucei are functionally distinct.

22 May 2018

1 reference

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Systematic study of sequence motifs for RNA trans splicing in Trypanosoma brucei

22 May 2018

1 reference

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The genome of the kinetoplastid parasite, Leishmania major

22 May 2018

1 reference

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The Genome of the African Trypanosome Trypanosoma brucei

22 May 2018

1 reference

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Comparative genomics of trypanosomatid parasitic protozoa

22 May 2018

1 reference

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Developmentally regulated instability of the GPI-PLC mRNA is dependent on a short-lived protein factor

22 May 2018

1 reference

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Solving the riddle of codon usage preferences: a test for translational selection

22 May 2018

1 reference

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Leishmania major chromosome 3 contains two long convergent polycistronic gene clusters separated by a tRNA gene

22 May 2018

1 reference

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tRNAs in Trypanosoma brucei: genomic organization, expression, and mitochondrial import

22 May 2018

1 reference

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The DEAD box helicase, Dhh1p, functions in mRNA decapping and interacts with both the decapping and deadenylase complexes.

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Elements in the 3' untranslated region of procyclin mRNA regulate expression in insect forms of Trypanosoma brucei by modulating RNA stability and translation

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Temporal order of RNA-processing reactions in trypanosomes: rapid trans splicing precedes polyadenylation of newly synthesized tubulin transcripts

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

A conserved stem-loop structure in the 3' untranslated region of procyclin mRNAs regulates expression in Trypanosoma brucei.

22 May 2018

1 reference

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The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

22 May 2018

1 reference

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The structure and transcription of an element interspersed between tandem arrays of mini-exon donor RNA genes in Trypanosoma brucei.

22 May 2018

1 reference

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A new semi-defined medium for Trypanosoma brucei sspp

22 May 2018

1 reference

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The Interplay between the RNA Decay and Translation Machinery in Eukaryotes

22 May 2018

1 reference

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Comparison of codon usage bias across Leishmania and Trypanosomatids to understand mRNA secondary structure, relative protein abundance and pathway functions

13 August 2018

1 reference

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Control and regulation of gene expression: quantitative analysis of the expression of phosphoglycerate kinase in bloodstream form Trypanosoma brucei

13 August 2018

1 reference

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C to U editing stimulates A to I editing in the anticodon loop of a cytoplasmic threonyl tRNA in Trypanosoma brucei

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

A novel strategy to identify the location of necessary and sufficient cis-acting regulatory mRNA elements in trypanosomes

13 August 2018

1 reference

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Codon bias signatures, organization of microorganisms in codon space, and lifestyle

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Transformation of monomorphic and pleomorphic Trypanosoma brucei

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5896880

Sinefungin, a potent inhibitor of virion mRNA(guanine-7-)-methyltransferase, mRNA(nucleoside-2'-)-methyltransferase, and viral multiplication

13 August 2018

1 reference

12 December 2020

Evidence for trans splicing in trypanosomes

1 reference

12 December 2020

Discontinuous transcription and splicing in trypanosomes

1 reference

12 December 2020

Identification of a novel Y branch structure as an intermediate in trypanosome mRNA processing: evidence for trans splicing

1 reference

12 December 2020

A common pyrimidine-rich motif governs trans-splicing and polyadenylation of tubulin polycistronic pre-mRNA in trypanosomes

1 reference

12 December 2020

Direct visualisation of individual gene organisation in Trypanosoma brucei by high-resolution in situ hybridisation

1 reference

12 December 2020

Identifiers

DOI

10.7554/ELIFE.32467

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

7 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29543152%20AND%20SRC:MED&resulttype=core&format=json

7 June 2020

1 reference