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MetabolomicsGrowth Substrate and Prophage Induction Collectively Influence Metabolite and Lipid Profiles in a Marine Bacterium

Bacterial growth substrates influence a variety of biological functions, including the biosynthesis and regulation of lipid intermediates. The extent of this rewiring is not well understood nor has it been considered in the context of virally-infected cells. Here, we use a one-host-two-temperate ...

2022-08-04 | MTBLS5345 | MetaboLights
MetabolomicsDynamic utilization of low-molecular-weight organic substrates across a microbial growth rate gradient

AIM: Low-molecular-weight organic substances (LMWOSs) are at the nexus between micro-organisms, plant roots, detritus and the soil mineral matrix. The nominal oxidation state of carbon (NOSC) has been suggested as a potential parameter for modelling microbial uptake rates of LMWO...

2023-08-14 | MTBLS3558 | MetaboLights
ProteomicsRuegeria pomeroyi growth curve
The ubiquitous heterotrophic marine bacterium, Rugeria pomeroyi, was experimentally cultured under both environmentally realistic carbon conditions and with a tracer-level addition of 13C-labeled leucine. Bacterial protein biosynthesis was tracked through exponential and stationary growth phases. Th...
ORGANISM(S): Ruegeria pomeroyi 
2019-07-31 | PXD008661 | Pride
Ruegeria pomeroyi Growth curve Bacteria 13c leucine 
TranscriptomicsTranscription profiling of Bordetella pertussis from mid-log phase cultures diluted to two concentrations and sampled at multiple points along the growth curve to determine growth phase-associated patterns of transcript abundance
B. pertussis mid-log phase cultures were diluted in modified Stainer-Scholte medium to a starting optical density at 600 nm of 0.03 to 0.05, then grown at 37 C with shaking until stationary phase. Samples were taken at multiple points along the growth curve.
ORGANISM(S): Bordetella pertussis 
2006-12-31 | E-TABM-101 | biostudies-arrayexpress
MetabolomicsResource Partitioning of Diatom Metabolites that Support Bacterial Heterotrophy in the Ocean (UPLC-MS assay)

The communities of marine bacteria that assemble around living microphytoplankton are predictably dominated by three taxonomic groups, each of which specializes in different components of the available metabolite pool: Rhodobacterales transport small and polar metabolites, Flavobacteriia use carb...

2020-09-15 | MTBLS1751 | MetaboLights
MetabolomicsCross-feeding and co-degradation within a bacterial consortium dominated by challenging-to-cultivate Leucobacter sp. HA-1 enhances sulfonamides degradation

Background: The use of sulfonamides (SAs) caused residual pollution in the environment. Bacteria play an important role in the degradation of sulfonamide antibiotics, and microbial consortium offers advantages over single bacterium. However, the complex degradation process and interaction mechani...

2024-11-08 | MTBLS11473 | MetaboLights
TranscriptomicsMethanococcus maripaludis S2 growth curve, tiling arrays
Experimentally mapped transcriptome structure of Methanococcus maripaludis S2 by hybridizing total RNA (including RNA species <200 nt) to genome-wide high-density tiling arrays (60 mer probes tiled every 14 nt). Methanococcus maripaludis MM901, a wild type Methanococcus maripaludis S2 with an in fra...
ORGANISM(S): Methanococcus maripaludis S2 
2011-06-27 | E-GEOD-26777 | biostudies-arrayexpress
ProteomicsProteomic profiles of bona fide RNA-binding proteins across E. coli growth curve in M9LB media.
Dynamic interactions between RNA and RNA-binding proteins (RBPs) regulate a broad spectrum of bacterial functions. Here, we have characterised how the RBPome is dynamically rewired during the E. coli life cycle. We applied Orthogonal Organic Phase Separation (OOPS) coupled with an RNase digestion st...
ORGANISM(S): Escherichia coli 
2024-03-20 | PXD043373 | Pride
Tmt Rna-binding proteins Oops Bacterial growth curve 
TranscriptomicsHalobacterium salinarum NRC-1 growth curve, tiling arrays
Experimentally mapped transcriptome structure of H. salinarum NRC-1 by hybridizing total RNA (including RNA species <200 nt) to genome-wide high-density tiling arrays (60 mer probes with 40 nt overlap between contiguous probes). H. salinarum NRC-1 presents a number of interesting switches in metabol...
ORGANISM(S): Halobacterium sp. NRC-1 
2010-05-17 | E-GEOD-12923 | biostudies-arrayexpress
TranscriptomicsNovel biomarker combination improves the diagnosis of serious bacterial infections in Malawian children
We aimed to discover a combination of reliable and functionally important biomarkers of severe bacterial infection (SBI) using transcriptomics, and to evaluate their clinical validity.
ORGANISM(S): Homo sapiens 
2012-05-20 | E-MEXP-3567 | biostudies-arrayexpress
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