Project description:In the present study, we were interested in gene expression changes in the pectoralis muscle of juvenile king penguins during the transition from terrestrial to marine life. Strictly terrestrial during their first year after hatching, king penguin chicks must then depart to sea to reach nutritional emancipation and pectoralis muscle is largely involved in penguin adaptation to the marine environment. To compare these transcriptomic profiles, we realized heterologous hybridization on Affymetrix GeneChip Chicken Genome Arrays, as the chicken is the closest model species for which microarrays are available. The development of a new algorithm, MaxRS, allow us to determine differentially expressed genes implicated in energetic metabolism or involved in cellular defense against reactive oxygen species and associated injuries. We compared muscle sample biopsy from 4 penguin juveniles captured just before they undergone their first immersion to cold water (named NI for Never Immersed) and 3 penguin juveniles that had completly accomplished their acclimation to marine life (named SA for Sea Acclimated).

2010-06-08 | E-GEOD-17725 | biostudies-arrayexpress

Gene expression profile in the pectoralis muscle of penguin juveniles artificially acclimated to marine life

Project description:In the present study, we were interested in gene expression changes in the pectoralis muscle of juvenile king penguins during the transition from terrestrial to marine life. Strictly terrestrial during their first year after hatching, king penguin chicks must then depart to sea to reach nutritional emancipation and pectoralis muscle is largely involved in penguin adaptation to the marine environment. To compare these transcriptomic profiles, we realized heterologous hybridization on Affymetrix GeneChip Chicken Genome Arrays, as the chicken is the closest model species for which microarrays are available. The development of a new algorithm, MaxRS, allow us to determine differentially expressed genes implicated in energetic metabolism or involved in cellular defense against reactive oxygen species and associated injuries. Data from NI and SA penguin juveniles are already on GEO n°GSE17725

2016-08-31 | GSE82344 | GEO

The PENGUIN approach to reconstruct protein interactions at enhancer-promoter regions and its application to prostate cancer

Project description:We introduce the Promoter-ENhancer-GUided Interaction Networks (PENGUIN) approach to identify protein-protein interactions (PPI) within enhancer-promoter (E-P) interactions. By integrating high-coverage H3K27ac-HiChIP data and tissue-specific PPI networks, PENGUIN identifies functional clusters in E-P networks. Here, we applied PENGUIN to E-P networks of prostate cancer (PrCa) cell line LNCaP. We validated PENGUIN's structural classification by observing clear differential enrichment of the architectural protein CTCF. One of our 8 main clusters, comprising 273 promoters, showed significant enrichment for PrCa-associated single nucleotide polymorphisms (SNPs) and oncogenes. Our approach provides a mechanistic explanation for 208 PrCa SNPs located within DNA-binding protein (DBP) binding sites or intermediate protein-encoding genes involved in E-P contacts. CRISPR analysis in the LNCaP cell line confirmed the relevance of these SNPs in PrCa. PENGUIN confirms the importance of key regulators in PrCa and identifies new intervention candidates, offering new directions for identifying molecular targets in disease treatment. Data was generated in the Matthew L. Freedman lab.

2023-09-30 | GSE235245 | GEO

Gene expression profile in the pectoralis muscle of penguin before and after acclimatisation to marine life

2010-05-25 | GSE17725 | GEO

Gastrointestinal microbiota

Project description:Gastrointestinal microbiota of children 6-8 years of age living in Cuenca, Guayllabamba and Uyumbicho

| PRJEB34457 | ENA

African Penguin (Spheniscus demersus) Plasma Samples

Project description:Fractionation of normal and abnormal African penguin samples via capillary electrophoresis demonstrated a change from a left skewed composition to a right skewed composition. Further analysis of this fraction via mass spectrometry revealed key proteins associated with this skewed.

2021-09-09 | PXD018096 | Pride

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