Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR18905488_1.fastq.gz | Fastqsanger.gz | |||
| SRR18905488_2.fastq.gz | Fastqsanger.gz | |||
| SRR18905489_1.fastq.gz | Fastqsanger.gz | |||
| SRR18905489_2.fastq.gz | Fastqsanger.gz | |||
| SRR18905490_1.fastq.gz | Fastqsanger.gz |
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Project description:Listeria monocytogenes in rabbit meat processing plant
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Project description:In order to further improve the meat quality performance of Shuxing No. 1 rabbit, IRA rabbits with better meat quality performance were selected for comparative study. The proteomic data of longissimus dorsi muscle of two breeds of rabbits were obtained.
2023-11-22 | PXD047148 |
Project description:<p>This study aims to investigate the potential regulatory network responsible for the meat quality using multi-omics to help developing better varieties. Slaughter performance and meat quality of Shuxing No.1 rabbit outperformed Yila rabbit. Differentially expressed genes (DEGs) and differentially abundance proteins (DAPs) were involved in meat quality-related pathways, such as PI3K-Akt and MAPK signaling pathway. Only SMTNL1 and PM20D2 shared between DEGs and DAPs. Olfactory-sensitive undecanal, a differentially abundant metabolite (DAM) in volatilomics (vDAMs), correlated with all of the remaining 11 vDAMs and most of 12 vDAMs were associated with amino acid metabolism. Integration revealed that 829 DEGs/DAPs were associated with 15 DAMs in four KEGG pathways, such as melatonin (a DAM in widely targeted metabolomics) was significantly positively correlated with ALDH and negatively correlated with RAB3D and CAT in tryptophan metabolism pathway. This study sheds light on the potential mechanisms that contribute to the improved meat quality and flavor.</p><p><br></p><p><strong>SPME-GC-MS assay</strong> is reported in the current study <a href='https://www.ebi.ac.uk/metabolights/MTBLS8958' rel='noopener noreferrer' target='_blank'><strong>MTBLS8958</strong></a>.</p><p><strong>UPLC-MS/MS assays</strong> are reported in <a href='https://www.ebi.ac.uk/metabolights/MTBLS8957' rel='noopener noreferrer' target='_blank'><strong>MTBLS8957</strong></a>.</p>
2024-01-18 | MTBLS8958 | MetaboLights
Project description:<p>This study aims to investigate the potential regulatory network responsible for the meat quality using multi-omics to help developing better varieties. Slaughter performance and meat quality of Shuxing No.1 rabbit outperformed Yila rabbit. Differentially expressed genes (DEGs) and differentially abundance proteins (DAPs) were involved in meat quality-related pathways, such as PI3K−Akt and MAPK signaling pathway. Only SMTNL1 and PM20D2 shared between DEGs and DAPs. Olfactory-sensitive undecanal, a differentially abundant metabolite (DAM) in volatilomics (vDAMs), correlated with all of the remaining 11 vDAMs, and most of 12 vDAMs were associated with amino acid metabolism. Integration revealed that 829 DEGs/DAPs were associated with 15 DAMs in four KEGG pathways, such as melatonin (a DAM in widely targeted metabolomics) was significantly positively correlated with ALDH and negatively correlated with RAB3D and CAT in tryptophan metabolism pathway. This study sheds light on the potential mechanisms that contribute to the improved meat quality and flavor.</p><p><br></p><p><strong>UPLC-MS/MS assays</strong> are reported in the current study <a href='https://www.ebi.ac.uk/metabolights/MTBLS8957' rel='noopener noreferrer' target='_blank'><strong>MTBLS8957</strong></a>.</p><p><strong>SPME-GC-MS assay</strong> is reported in <a href='https://www.ebi.ac.uk/metabolights/MTBLS8958' rel='noopener noreferrer' target='_blank'><strong>MTBLS8958</strong></a>.</p>
2024-01-18 | MTBLS8957 | MetaboLights
Project description:To understand how Pou4f1 functions in RGC lineage specification and subtype formation, we performed “Cleavage Under Targets & Tagmentation” (CUT&Tag) analysis using a rabbit anti-Pou4f1 antibody and embryonic 16.5 (E16.5) retinal cells to generate barcoded PCR libraries that are enriched for Pou4f1-mediated binding. In parallel, rabbit IgG was used as a negative control for peak calling analysis, and rabbit anti-H3K9ac antibody was used to mark active enhancers and promoters.
2023-04-30 | GSE221209 | GEO
Project description:It has been proposed that endogenously formed N-nitroso compounds (NOCs) are partly responsible for the link between red meat consumption and colorectal cancer (CRC) risk. As nitrite has been indicated as one of the critical factors in the formation of endogenous NOCs, it is of high importance to replace or reduce the nitrite levels in meat. Therefore, the PHYTOME project was initiated (Phytochemicals to reduce nitrite in meat products; www.phytome.eu), an EU funded research project aiming to develop innovative meat products in which the food additive sodium nitrite (E251) has been replaced by natural compounds originating from fruits and vegetables. A human dietary intervention study was conducted in which healthy subjects consumed 300 grams of meat for two weeks, in subsequent order: normal processed red meat, white meat, and red processed meat with standard or reduced levels of nitrite and added phytochemicals. Consumption of standard-nitrite PHYTOME meat products leads to a significant reduction in Apparent Total N-nitroso Compounds (ATNC) levels in faecal water, a surrogate marker of endogenously formed NOCs, as compared to the consumption of conventional processed red meat products. A reduction of nitrite in the PHYTOME meat lowered these levels even further. In addition, DNA strand breaks induced in ex-vivo faecal water exposed Caco-2 cells and O6-methyl-guanine adducts levels in colonic DNA were significantly higher after consumption of normal processed red meat as compared to white meat intake. PHYTOME meat intake resulted in reduced levels of these genotoxic markers, however, these were not statistically significant. Whole genome gene expression analyses in colonic tissue identified differentially expressed genes and genes associated with ATNC, which are related to molecular pathways which may explain cancer risk initiation after intake of processed red meat and cancer risk prevention after intake of the PHYTOME meat. Together these results indicate that addition of natural extracts to conventional processed red meat products results in reduced endogenous formation of NOCs, and may therefore contribute to a reduced risk of CRC, which is mechanistically supported by gene expression analyses.
2021-08-17 | GSE147996 | GEO
Project description:To find a promoter upregulated in the presence of rotten meat, we exposed B. subtilis 168 to the volatiles of rotten meat (mixed beef/pork) and performed a microarray comparing it to B. subtilis which was not exposed to the meat. The results where used to build iGEM Groningen 2012s Food Warden, a spoiled meat detector. Find more information at: 2012.igem.org/Team:Groningen
2013-09-04 | GSE50538 | GEO