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MetabolomicsFunctional specialization of bacterial cellular and extracellular fractions contributes to polysaccharide degradation

Bacteroides thetaiotaomicron (Bt), a key commensal of the human gut microbiota, exhibits robust capacity to degrade dietary polysaccharides via carbohydrate-active enzymes (CAZymes). However, the exact spatial distribution and the functional coordination of these enzymes remain poor...

2026-03-27 | MTBLS14156 | MetaboLights
MetabolomicsThe Impacts of Sortase A and the 4'-Phosphopantetheinyl Transferase Homolog Sfp on Streptococcus mutans Extracellular Membrane Vesicle Biogenesis

Extracellular membrane vesicles (EMVs) are produced by many Gram-positive organisms, but information regarding vesiculogenesis is incomplete. We used single gene deletions to evaluate the impacts on Streptococcus mutans EMV biogenesis of Sortase A (SrtA), which affects S. mutans...

2021-10-06 | MTBLS1812 | MetaboLights
TranscriptomicsmiRNA signatures of intracellular and extracellular fractions from cancer cell lines
For the purpose of finding a novel tumor marker, we conducted microRNA profiling analysis in fractions of cells, exosomes, and culture medium from seven cancer cell lines. Ranking data of the intracellular and extracellular microRNAs obtained by microarray analysis, we found that let-7 microRNA fami...
ORGANISM(S): Homo sapiens 
2010-04-16 | E-GEOD-21350 | biostudies-arrayexpress
TranscriptomicsFluidigm Biomark 96.96 nanofluidic arrays for qRT-PCR of 93 miRNAs: salivary extracellular vesicles
Crude extracellular vesicles (EVs) from eight healthy volunteers were separated into 6 fractions based on their densities by using the iodixanol-based density gradient centrifugation method. To determine the distribution of miRNAs among these fractions, quantities of 93 miRNAs were quantified by the...
ORGANISM(S): Homo sapiens 
2016-08-01 | E-GEOD-78763 | biostudies-arrayexpress
TranscriptomicsDeep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human Embryonic Stem cells (part 2)
Recent RNA-sequencing studies have shown remarkable complexity in the mammalian transcriptome. The ultimate impact of this complexity on the predicted proteomic output is less well defined. We have undertaken a strand-specific RNA sequencing of multiple cellular RNA fractions (>18Gb) to uncover the ...
ORGANISM(S): Homo sapiens 
2011-07-01 | E-GEOD-25842 | biostudies-arrayexpress
ProteomicsDifferent seminal ejaculated fractions in artificial insemination condition the protein cargo of oviductal and uterine extracellular vesicles in pig.
The seminal plasma (SP) is the liquid component of semen that facilitates sperm transport through the female genital tract. SP modulates the activity of the ovary, oviductal environment and uterine function during the periovulatory and early pregnancy period. Extracellular vesicles (EVs) secreted in...
ORGANISM(S): Sus scrofa domesticus (domestic pig) 
2024-01-26 | PXD044639 | Pride
Oviductal fluid Uterine fluid. Extracellular vesicles Insemination Pregnant sows Ejaculate fractions 
ProteomicsProteomics on extracellular fractions of polyphosphate accumulating organisms from wastewater treatment plant
Polyphosphate accumulating organisms are responsible for enhanced biological phosphate removal from wastewater, where they grow embedded in a matrix of extracellular polymeric substances. Little is known about the composition and dynamics of those proteins and their production by the different micro...
ORGANISM(S): Escherichia coli 
2022-12-25 | PXD036522 | Pride
Qe plus Extracellular protein fractions Polyphosphate accumulating organisms Wastewater treatment plants 
TranscriptomicsExtracellular vesicles isolated from human induced pluripotent stem cell-derived neurons contain a transcriptional network
Healthy brain function is mediated by several complementary signalling pathways, many of which are driven by extracellular vesicles (EVs). EVs are heterogeneous in both size and cargo and are constitutively released from cells into the extracellular milieu. They are subsequently trafficked to recipi...
ORGANISM(S): Homo sapiens 
2020-08-20 | E-MTAB-8254 | biostudies-arrayexpress
ProteomicsFormation of a protein corona on the surface of extracellular vesicles in blood plasma
In this study we tested whether a protein corona is formed around extracellular vesicles (EVs) in biofluids. We isolated nascent EVs of THP1 cells and platelets, and incubated them in EV-depleted platelet-free plasma from healthy subjects and patients with rheumatoid arthritis. EVs were subjected to...
ORGANISM(S): Homo sapiens (Human) 
2022-02-15 | PXD020584 | Pride
Protein corona  extracellular vesicles  blood plasma  rheumatoid arthritis  mass spectrometry  aggregation 
TranscriptomicsTranscription profiling of mouse polysome vs RNP fractions from testis obtained from prepuberttal and adult animals to investigate post transcriptional control mechanisms in gametes
Gametes rely heavily on post-transcriptional control mechanisms to regulate their differentiation. In eggs, the storage and selective temporal activation of maternal mRNAs is essential for normal development. In the male, transcription ceases during spermiogenesis necessitating the post-transcriptio...
ORGANISM(S): Mus musculus 
2007-11-23 | E-GEOD-4711 | biostudies-arrayexpress
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