Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1252383 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR33215124_1.fastq.gz | Fastqsanger.gz | |||
| SRR33215124_2.fastq.gz | Fastqsanger.gz | |||
| SRR33215125_1.fastq.gz | Fastqsanger.gz | |||
| SRR33215125_2.fastq.gz | Fastqsanger.gz | |||
| SRR33215126_1.fastq.gz | Fastqsanger.gz |
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Project description:<p>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 mechanisms within such consortiums still poorly understood. </p><p>Results: Here, a consortium named ACJ, consisting of Leucobacter sp. HA-1, Bacillus sp. HC-1 and Gordonia sp. HAEJ-1, obtained from activated sludge of pharmaceutical plants, was identified as capable of degrading various SAs. Several papers failed to get the pure culture of Leucobacter sp. in the degradation of SAs, here we successfully obtained the Leucobacter sp. HA-1 pure culture involved in the degradation of SAs with the growth factors provided by strain HC-1 or HAEJ-1. Strain HA-1 was responsible for the initial attack of sulfonamide molecules resulting in the release of 2-aminoquinoxaline (2-AQ) and trihydroxybenzene (HHQ), which were further degraded and used for growth by strain HAEJ-1. Genomic, metabolomic and transcriptomic analyses revealed genes associated with nucleotide repair, ABC transporters, quorum sensing, TCA cycle and cell cycle in strain HA-1 were up-regulated during co-culture compared without the other two strains, which indicated that HA-1 utilized certain factors from strain HC-1 or HAEJ-1 for growth. </p><p>Conclusion: These results revealed that there was a bidirectional ecological relationship of cross-feeding and co-degradation among consortium ACJ. In summary, this study provides new insights into the mechanisms of microbial consortium interaction and co-degradation in antibiotic-contaminated environments.</p>
2024-11-08 | MTBLS11473 | MetaboLights
Project description:Purpose: The objective of this study was to evaluate the transcriptomic consequence of chronic exposure to deficient and excessive arginine supply in MIN6 pancreatic beta cells and reveal the molecular mechanisms underlying beta cell function and insulin secretion to arginine administration. Methods: After overnight adhesion, the medium was removed, and the cells were incubated in fresh DMEM medium containing low-, standard- or high-arginine concentration (LA, SA and HA) for 24 h. Following the treatment, RNA was extracted from cells for transcriptome sequencing. Results: Transcriptomics analysis allowed the detection of 23,620 and 22,939 transcripts in the LA and HA samples, among which 7,591 (3,736 up- and 3,855 down-regulated) and 197 (111 up- and 86 down-regulated) genes were expressed differently compared with the SA treatment. One hundred and forty one DEGs were overlapped between LA vs. SA and HA vs. SA comparisons, which were mainly involved in DNA replication, organic hydroxy compound metabolism and cellular response to oxidative stress. GO functional enrichment analysis demonstrated that terms related to proteasomal protein catabolic process, mRNA processing and ATP metabolic process were highly disturbed by LA administration, while DEGs induced by HA were mainly enriched to ammonium ion metabolic process, mRNA export and sterol biosynthetic process. Morever, KEGG pathway analysis revealed that DEGs between LA and SA treatments were mainly functionally classified as involved in protein processing in endoplasmic reticulum and oxidative phosphorylation, while DNA replication, steroid biosynthesis and cell cycle had more counts and reached significant difference levels according to the DEGs triggered by HA. Conclusions: These results suggested that the disturbed carbohydrate, lipid and amino acid metabolisms as well as the decreased cell proliferation, increased apoptosis and elevated oxidative stress contributed to the reduced insulin secretion in beta cells induced by LA or HA administrations.
2022-12-10 | GSE190642 | GEO
Project description:Cytokine storm is a leading cause of mortality in severe infections and adverse responses to adoptive cell therapiesy. Leveraging multivalent sialic acids (SAs) and the specificity of the SA-Siglec (SA-binding immunoglobulin-type lectins) axis to direct immune cell responses openss a compelling route to efficiently mitigate cytokine storms. However, the optimal configuration of multivalent SAs to maximize Siglec binding affinity and immune-directing activity has yet to be elucidated. Herein, we report Molecular-Patterned Sialic Acid Polymers (MPSPs) Sialic Polymer Molecular Patterns (SPMPMPSPs) , a class of synthetic macromolecular immunomodulators engineered with precise control over polymer backbone conformation, pendant SA densityspacing, and branching topology. This molecular pattern recreates the hierarchical By mimicking the multivalency t architectures of natural glycans while exploiting the modularity of polymer chemistry, and to introduce tunablemolecular controlled SA patterning patterns. Super-resolution fluorescence microscopy and single-molecule spectroscopy confirm structure-specific sialic acid patterns promoteat the molecular scale, SPMPs achieve Siglec-E clustering and high-affinity engagement with Siglec-E, triggering potent inhibitory signaling . The SPMPs robustly and reshape reshaping innate immune cell functions and effectivelyto abrogated cytokine storms. This pattern-encoded macromolecular strategy es establishes a new paradigm for precise immune modulation and offering a framework for materials-based interventions in inflammatory disorders.
2025-12-10 | GSE312405 | GEO