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MetabolomicsElucidation of the epitranscriptomic RNA modification landscape of chikungunya virus

The genomes of positive-sense (+) single-stranded RNA (ssRNA) viruses are believed to be subjected to a wide range of RNA modifications. In this study, we focused on the chikungunya virus (CHIKV) as a model (+) ssRNA virus to study the landscape of viral RNA modification in infected human cells. ...

2024-06-11 | MTBLS8697 | MetaboLights
MetabolomicsN6-methyladenosine modification is not a general trait of positive-sense RNA viral genomes

Despite the nuclear localization of the m6A machinery, the genomes of multiple exclusively-cytoplasmic RNA viruses, such as chikungunya (CHIKV) and dengue (DENV), are reported to be extensively m6A-modified. However, these findings are mostly based on m6A-seq, an antibody-dependent technique with...

2024-01-25 | MTBLS6978 | MetaboLights
MetabolomicsVirus-induced codon-specific reprogramming to favor viral RNA translation
Recent evidence indicates that codon usage bias regulates gene expression. How viruses, such as the emerging mosquito-borne Chikungunya virus (CHIKV), express their genomes at high levels despite an enrichment in rare codons remains a puzzling question. Using ribosome footprinting, here we analysed ...
2025-06-16 | MTBLS2443 | MetaboLights
MetabolomicsTranslational repression of viral RNA mediates arbovirus persistence in mosquitoes

Persistent infection of mosquito vectors is essential for the transmission of arboviruses, yet how these viruses produce sufficient progeny without compromising host cell fitness remains unclear. Arbovirus genomes exhibit suboptimal codon usage for both human and mosquito hosts, raising questions...

2026-02-12 | MTBLS12760 | MetaboLights
MetabolomicsFIRST-seq: a nanopore-based cDNA sequencing platform for RNA modification and structure profiling

This repository contains the LC-MS/MS raw data for the RNA quantifications obtained from in vivo DMS probed RNAs from E.coli and MDA-MB231 cell lines.

2026-04-26 | MTBLS14382 | MetaboLights
MetabolomicsStability in metabolic phenotypes and inferred metagenome profiles before the onset of colitis-induced inflammation
Inflammatory bowel disease (IBD) is associated with altered microbiota composition and metabolism, but it is unclear whether these changes precede inflammation or are the result of it since current studies have mainly focused on changes after the onset of disease. We previously showed differences in...
2017-07-14 | MTBLS432 | MetaboLights
TranscriptomicsRole of mRNA stability during bacterial adaptation
Bacterial adaptation involves extensive cellular reorganization. In particular, growth rate adjustments are associated with substantial modifications of gene expression and mRNA abundance. In this work we aimed to assess the role of mRNA degradation during such variations. A genome-wide transcript...
ORGANISM(S): Lactococcus lactis 
2014-06-16 | E-GEOD-43875 | biostudies-arrayexpress
MetabolomicsMetabolomic and Metataxonomic Fingerprinting of Human Milk Suggests Compositional Stability over a Natural Term of Breastfeeding to 24 Months
Sparse data exist regarding the normal range of composition of maternal milk beyond the first postnatal weeks. This single timepoint, observational study in collaboration with the 'Parenting Science Gang' citizen science group evaluated the metabolite and bacterial composition of human milk from 62 ...
2022-02-11 | MTBLS1370 | MetaboLights
TranscriptomicsMicroarray analysis of RNA stability in mouse Neuro-2A cells
Microarray analysis of RNA stability in mouse Neuro-2A cells
ORGANISM(S): Mus musculus 
2011-01-24 | E-MTAB-952 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of yeast to determine mRNA stability at different time points following mild hyperosmotic shock
Analysis of mRNA stability in S. cerevisiae in connection to hyperosmotic stress at different time points following mild hyperosmotic shock in Saccharomyces cerevisiae cells.
ORGANISM(S): Saccharomyces cerevisiae 
2009-01-22 | E-TABM-622 | biostudies-arrayexpress
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