Ontology highlight
ABSTRACT:
PROVIDER: PRJNA866088 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR21118737_1.fastq.gz | Fastqsanger.gz | |||
| SRR21118737_2.fastq.gz | Fastqsanger.gz |
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Project description:Abstract. Microbial gas fermentation remains a promising biotechnology for the production of a variety of industrially relevant chemicals under relatively benign conditions using ubiquitous feedstocks, such as carbon dioxide. Implementation of these gas fermentation processes requires an understanding of the microbial response to different ratios of the gaseous feedstocks (carbon dioxide, oxygen, and hydrogen) supplied to the reactor. Here, we used Cupriavidus necator (strain ATCC 17699 / DSM 428 / KCTC 22496 / NCIMB 10442 / H16 / Stanier 337) as a microbial biocatalyst due to its metabolic diversity, genetic tractability, and ability to grow to high cell densities during aerobic fermentation in bioreactors. Specifically, we investigate whether the supply of different proportions of hydrogen and carbon dioxide in the gas stream (1:1, 3:1, and 8:1 H2:CO2) affects the physiology of C. necator, with a focus on the accumulation of single cell protein (SCP) and poly-3-hydroxybutyrate (PHB) within the microbial biomass. We found that an 8:1 ratio of H2:CO2 led to both the highest overall biomass production and PHB content within the biomass after a seven-day incubation. Intracellular SCP content varied as a function of both length of incubation and gas ratio supplied. We conducted a proteomic analysis to determine whether differences in productivity could be correlated with changes in protein expression over time and across treatment groups. This study highlights the importance of considering gaseous substrate composition and its potential effects on microbial physiology and metabolism during fermentation.
2026-05-15 | PXD064900 | Pride
Project description:Over the past three decades, due to the universal application of Pichia yeast in the fermentation industry as well as the establishment of Pichia pastoris fermentation process for more than 30 years, the technology of the whole process has become very mature and has now reached a stagnated period of growth. However, studies and research conducted on the genomics of the classic fermentation process and the uncovering of the biological phenomena in the fermentation process from the point of view of high-throughput gene or protein is still in its early stages, and there is still insufficient data within this field. First, in collaboration with Agilent Company, we designed and prepared an expression microarray that could be used for the detection of Pichia pastoris transcriptomics. The transcriptomic changes in the five key technology steps (time points), during the fermentation process of Pichia pastoris would then be detected with the aid of an expression microarray. The five key steps of technology described above formed two important biological processes, namely, the limiting carbon source replacement and secondly, the fermentative production of exogenous proteins. The biological phenomena involved in these two processes were displayed and analyzed at the transcriptional level. In addition to this, with regard to the most important function in the fermentation process of Pichia pastoris, oxid-reduction, the metabolic drift process was analyzed and the important genes that might dominate the changes in the metabolic flux were discovered creatively by using the function tree method in this paper. This study was undertaken from the point of view of the transcriptome and the biological phenomena in the fermemntation process of Pichia pastoris. Both of which, were thoroughly explained during this study. The hope is for many more researchers to optimize the strain fermentation process, to produce proteins at the genetic level, as well as providing and obtaining new perspectives and detailed scientific data for the continued development within this field.
2014-04-18 | GSE56873 | GEO
Project description:To understand the complex mechanism of estrogen action, multiple assays based on different biological principles is important. Here, multiple assays based on cell, protein and transcription assays were used to evaluate estrogenic activity of soymilk extracts before and after fermentation, and four soy compounds, genistein and daidzein, and their glycosides, genistin and daidzin, respectively. The data obtained by a transcription assay, RNA-sequencing (RNA-seq), was further examined by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) database analysis to understand cell functions, i.e. biological processes and metabolic pathways. Among the cell functions identified, the sets of genes for cell division/cell cycle and DNA replication/DNA repair are significantly up-regulated, whereas those for autophagy are significantly down-regulated, which explains well the enhanced activity of cell proliferation by these materials. The applications of estrogenic activity of soymilk extracts and soy flavonoids, and the contribution of fermentation, include pharmacological benefits, such as bone protection/bone regeneration, cancer chemoprevention, neuroprotection and the treatment of menopausal syndromes.
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