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Genome-wide maps of chromatin state in drug sensitive and resistance Lewis lung carcinoma isograft mouse model

ABSTRACT: We investigated histone modifications in regulation of gene expression using chromatin immunoprecipitation (ChIP) sequencing in samples from drug-sensitive vs. resistant murine lung cancer isografts. Histone modification fluctuation was analyzed in both genome wide scale and individual genes. The data showed that both chromatin status of gene promoter and transcription profile were altered by drug-resistance. Promoter activity of most low CG promoter (LCP) and high CG promoter (HCP) related genes were increased in drug resistant samples. These LCP genes were enriched in hematopoietic cell differentiation and angiogenesis-related pathways. In contrast, the HCP genes were prone to tumorigenesis, like the p53 pathway. Further analysis revealed that the key regulators during hematopoietic cell development in the thymus branch and bone marrow branch were regulated in opposite ways, which may contribute to blood cell differentiation.

ORGANISM(S): Mus musculus

PROVIDER: GSE70753 | GEO | 2016/01/20

SECONDARY ACCESSION(S): PRJNA289490

REPOSITORIES: GEO

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Project description:A reduction in voluntary feed intake is observed in ruminants consuming nutrient deficient diets, such as those with a low CP or P content, and has been attributed to active metabolic regulation, rather than a physical constraint. The hypothalamus is the key integrator of feed intake regulation in mammals. The objectives of this experiment were to 1) establish a model of metabolic feed intake regulation in ruminants consuming diets of variable CP and P content, and 2) determine key biochemical pathways and influential points of regulation within the hypothalamus. Merino wethers [n = 40; 23.7 ± 1.4 kg liveweight (mean ± SD)] were fed one of five dietary treatments (n = 8/treatment) for 63 days in individual pens. The treatments included targeted combinations of high (H) and low (L) CP (110 and 55 g/kg DM) and high and low P (2.5 and 0.7 g/kg DM) with 9 MJ metabolisable energy (ME) per kg DM which were fed ad libitum (UMEI; unrestricted ME intake) resulting in four experimental diets (HCP-HP-UMEI, LCP-HP-UMEI, HCP-LP-UMEI and LCP-LP-UMEI). An additional nutritional treatment (HCP-HP-RMEI) restricted intake of the HCP-HP diet to an equivalent ME intake of wethers consuming the LCP-LP-UMEI treatment. Wethers offered the LCP-HP-UMEI, HCP-LP-UMEI and LCP-LP-UMEI treatments consumed 42, 32 and 49% less total DM (P ≤ 0.05), respectively than the HCP-HP-UMEI treatment, and this was not attributable to any physical limitation of the rumen. Plasma concentrations of urea nitrogen and inorganic phosphate indicated that these nutrient deficiencies were successfully established. To assess potential mechanisms, RNA-seq was conducted on samples from the arcuate nucleus (ARC), ventromedial hypothalamus and lateral hypothalamus of the wethers, yielding a total of 301, 8 and 148 differentially expressed genes across all pairwise comparisons, respectively. The expression of NPY, AGRP and CARTPT, known for their regulatory role in mammalian feed intake regulation, had a similar transcriptional response in the ARC of wethers consuming nutrient deficient treatments and those consuming a ME restricted treatment, despite these wethers expressing behaviours indicative of satiated and hungry states, respectively. In addition, genes involved with glycolysis (TPI1), the citric acid cycle (CS, OGDH, GLUD1, GOT1) and oxidative phosphorylation (COX5A, ATP5MC1, ATP5F1B, ATP5MC3) were downregulated in the ARC of wethers fed a nutrient deficient (LCP-LP-UMEI) relative to the non-deficient (HCP-HP-UMEI) treatment. In summary, a model for voluntary feed intake restriction was established to determine genome-wide molecular changes in the hypothalamus of young ruminants.

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Genome-wide maps of chromatin state in drug sensitive and resistance Lewis lung carcinoma isograft mouse model

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