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PROVIDER: PRJNA488525 | ENA |
REPOSITORIES: ENA
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Project description:Tibetan chickens, a unique plateau breed, have good performances to adapt to high-altitude hypoxic environments. A number of positively selected genes have been reported in Tibetan chickens; however, the mechanisms of gene expression for hypoxia adaptation are not fully understood. In the present study, eggs from Tibetan (TC) and Chahua (CH) chickens were incubated under hypoxic and normoxic conditions, and vascularization in the chorioallantoic membrane (CAM) of embryos was observed. We found that the vessel density index (VDI) in CAM of TCs was lower than in CHs under hypoxia incubation.Proteomic analyses of CAM tissues were performed in TC and CH embryos under hypoxic incubation using iTRAQ. We obtained 387 differentially expressed proteins (DEPs) that were mainly enriched in angiogenesis, vasculature development, blood vessel morphogenesis, blood circulation, renin-angiotensin system, and HIF-1 and VEGF signaling pathways. Twenty-six genes involved in angiogenesis and blood circulation, two genes involved in ion transport, and six genes that regulated energy metabolism were identified as candidate functional genes in regulating hypoxic adaption of chicken embryos. Therefore, this research provided insights into the molecular mechanism of hypoxia adaptation in Tibetan chickens.
2021-09-08 | PXD012607 | Pride
Project description:Haliotis diversicolor Raw sequence reads
| PRJNA481417 | ENA
Project description:The present study reports the gene expression data of Mycobacterium tuberculosis H37Rv and H37RvΔdosSΔdosT (DKO) grown on 0.2 % acetate/glucose under aerobic/hypoxic conditions. Acetate was reported to be present in granulomas of Mycobacterium tuberculosis infected guinea pigs which are also hypoxic. By exposing Mycobacterium tuberculosis H37Rv and H37RvΔdosSΔdosT to different combinations of granulomatous stresses (acetate/glucose and aerobic/hypoxic conditions) alongwith other experimental data, we were able to delineate a new signaling pathway that activates DevR (DosR) regulon through Acetyl phosphate. The presence of two pathways highlights the importance of targeting DevR and not DevS/DosT for intercepting DevRST signalling cascade.
2019-01-01 | GSE117428 | GEO
Project description:Haliotis diversicolor Transcriptome or Gene expression
| PRJNA86631 | ENA
Project description:Background/Aims: Tibetan chickens, a unique plateau breed, have good performances to adapt to high-altitude hypoxic environments. A number of positively selected genes have been reported in Tibetan chickens; however, the mechanisms of gene expression for hypoxia adaptation are not fully understood. Methods: Eggs from Tibetan (TC) and Chahua (CH) chickens were incubated under hypoxic and normoxic conditions, and vessel density index (VDI) in the chorioallantoic membrane (CAM) of embryos was measured. Meanwhile, Transcriptomic and proteomic analyses of CAM tissues were performed in TC and CH embryos under hypoxic incubation using RNA-seq and iTRAQ. Results: We found that the vessel density index (VDI) in CAM of TCs was lower than in CHs under hypoxia incubation. In the transcriptomic and proteomic analyses, 160 differentially expressed genes (DEGs) and 387 differentially expressed proteins (DEPs) that were mainly enriched in angiogenesis, vasculature development, blood vessel morphogenesis, blood circulation, renin-angiotensin system, and HIF-1 and VEGF signaling pathways. Twenty-six genes involved in angiogenesis and blood circulation, two genes involved in ion transport, and six genes that regulated energy metabolism were identified as candidate functional genes in regulating hypoxic adaption of chicken embryos. Conclusion: Combination of transcriptomic and proteomic data revealed several key candidate regulators and pathways that might play high-priority roles in the hypoxic adaptation of Tibetan chickens by regulating angiogenesis and promoting blood circulation, thus explaining the blunt responses to hypoxic conditions on CAM angiogenesis in Tibetan chicken embryos. This research provided insights into the molecular mechanism of hypoxia adaptation in Tibetan chickens.
2020-07-13 | GSE126082 | GEO
Project description:Dissolved oxygen (DO) has an important impact on fish survival and reproduction, and is also one of the keys limiting conditions for healthy fish life. Rainbow trout (Oncorhynchus mykiss), an economically significant cold-water fish globally, are highly susceptible to hypoxia stress. However, the physiological changes and molecular mechanisms of rainbow trout under different hypoxic conditions are still unknown. In the present study, we used RNA-seq analysis and measurement of biochemical parameters at different time points (0-, 4-, 8-, 12-, 24 h) under acute (3.0 ± 0.1 mg/L), chronic (4.5 ± 0.1 mg/L) hypoxic stress and reoxygenation (R12-, R24 h) to reveals the physiological changes and molecular mechanism of the hypoxic stress response in rainbow trout. The transcriptome results showed that a total of 424 differentially expressed genes (DEGs) were identified in the CM-vs-Tm12M, CM-vs-Ts12M and Tm12M-vs-Ts12M groups and the genes for FOXO signaling pathway, p53 signaling pathway, Adipocytokine signaling pathway, Autophagy, Glycine, serine and threonine metabolism, etc. were significantly enriched under hypoxic stress, as shown by Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes enrichment analyses (KEGG) and Gene Set Enrichment Analysis (GSEA). Based on DEGS expression trend analysis, the most significant 2 clusters were selected to construct protein-protein interaction (PPI) networks, which resulted in the prediction of ddit4, txnip, slc3a2 and p4ha1 as the hypoxia-induced hub genes in cluster 7. fgg, f7, serpina1 and serpinf2 are the hypoxia-induced hub genes of cluster 3. This study preliminarily elucidated the adaptive mechanism of rainbow trout in response to hypoxic stress and provide a basis for the study of the molecular mechanism of fish adaptation to different hypoxic stresses.
2024-01-18 | GSE253274 | GEO