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Hypothalamic DNA-methylation differences in Red Junglefowl divergently selected for reduced fear of humans

ABSTRACT: Hypothalamic DNA-methylation differences in Red Junglefowl divergently selected for reduced fear of humans

PROVIDER: PRJEB24705 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2275170.fastq.gz	Fastqsanger.gz
	ERR2275171.fastq.gz	Fastqsanger.gz
	ERR2275172.fastq.gz	Fastqsanger.gz
	ERR2275173.fastq.gz	Fastqsanger.gz
	ERR2275174.fastq.gz	Fastqsanger.gz

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Similar Datasets

Hypothalamic DNA-methylation differences in Red Junglefowl divergently selected for reduced fear of humans

Project description:Domestication of animals causes large phenotypic alterations during a brief evolutionary window of time. These alterations are caused by genomic variation, yet the prevalence of modified traits is larger than expected if caused only by classical genetics and mutations. Two selection lines of Red Junglefowl (ancestors of modern chickens), bred for either high or low fear of human for five generations, were used to study the differences in hypothalamic DNA methylation between the two populations.

2018-05-29 | E-MTAB-6407 | biostudies-arrayexpress

Epigenetics and early domestication: differences in hypothalamic DNA methylation between red junglefowl divergently selected for high or low fear of humans.

Project description:BackgroundDomestication of animals leads to large phenotypic alterations within a short evolutionary time-period. Such alterations are caused by genomic variations, yet the prevalence of modified traits is higher than expected if they were caused only by classical genetics and mutations. Epigenetic mechanisms may also be important in driving domesticated phenotypes such as behavior traits. Gene expression can be modulated epigenetically by mechanisms such as DNA methylation, resulting in modifications that are not only variable and susceptible to environmental stimuli, but also sometimes transgenerationally stable. To study such mechanisms in early domestication, we used as model two selected lines of red junglefowl (ancestors of modern chickens) that were bred for either high or low fear of humans over five generations, and investigated differences in hypothalamic DNA methylation between the two populations.ResultsTwenty-two 1-kb windows were differentially methylated between the two selected lines at p < 0.05 after false discovery rate correction. The annotated functions of the genes within these windows indicated epigenetic regulation of metabolic and signaling pathways, which agrees with the changes in gene expression that were previously reported for the same tissue and animals.ConclusionsOur results show that selection for an important domestication-related behavioral trait such as tameness can cause divergent epigenetic patterns within only five generations, and that these changes could have an important role in chicken domestication.

| S-EPMC5880090 | biostudies-literature

WGS of VLDL divergently selected fat and lean broilers

Project description:DNA sequencing of 8 individual broiler divergently selected for high and low VLDL

| PRJEB15288 | ENA

Comparative RNA sequencing of the jejuna of two lines of chickens divergently selected for antibody response to sheep red blood cells, with and without antigen exposure

Project description:Two lines of White Leghorn chickens have been continuously divergently selected for high (HAS) or low (LAS) 5 day post injection antibody titer to injection with sheep red blood cells (SRBC) for over 40 generations. Much remains to be understood about their antibody response phenotypes, therfore we chose to sequence the transcriptomes of the jejunum from individuals of the two lines which had (HASI/LASI) and had not (HASN/LASN) been injected with SRBC to examine differences in gene expression related to divergent selection and antibody response.

2023-06-07 | GSE206804 | GEO

Fasting differentially alters the hypothalamic proteome of chickens from lines selected for low or high body weight

Project description:The hypothalamic proteomes of low and high body weight selected chicks were compared at both a fed and fasted state.

2019-07-12 | PXD009086 | Pride

Hepatic transcriptional profiling of juvenile broiler chickens divergently selected for abdominal fatness or leanness

Project description:Chickens divergently selected for either high abdominal fat content (fat genotype) or low abdominal fat content (lean genotype) at SRA-INRA, France were used to profile hepatic gene expression during juvenile development (1 to 11 weeks of age) and to identify differentially expressed genes associated with genotype and age. The fat line (FL) and lean line (LL) chickens are different in various phenotypic and metabolic measurements, including abdominal fatness, plasma glycemia and T3. The FL and LL chickens represent unique models for characterizing biomedical and agricultural traits. The Del-Mar 14K Chicken Integrated Systems microarrays were used for a transcriptional scan in liver during juvenile development using a balanced block hybridization design. Log2-transformed fluorescence intensities were analyzed with a two-stage mixed model. A total of 905 differentially expressed "functional" genes were identified (FDR<0.10). The greatest number of differentially expressed genes (400) was detected at 7 weeks of age. The differentially expressed genes include metabolic enzymes, acute phase proteins, growth factors, immune factors and transcription factors involved in various pathways. Several of the functional genes are also identified as positional candidate genes within QTLs in an F2 population established from an intercross between the FL and LL lines. Keywords: Divergently selected chickens, fatness, transcriptional profiling, differentially expressed genes

2007-09-01 | GSE8812 | GEO

Multi-omics association reveals the effects of intestinal microbiome-host interactions on fat deposition in broiler lines divergently selected for abdominal fat content

Project description:The lean and fat broilers were derived from the 21st generation of the Northeast Agricultural University broiler lines divergently selected for abdominal fat content (NEAUHLF). In brief, broilers in the two lines (lean line and fat line) of the NEAUHLF have the same Arbor Acres ancestry, but were divergently selected by the concentration of very low-density lipoprotein and abdominal fat percentage (AFP) at 7 weeks old. After 21 generations of selection, there is over a 10-fold difference in abdominal fat percentage between the two lines, representing a classical obese-lean-study model. At age of 7 weeks, ten male individuals of each line were selected randomly to investigate the interactions between gut microbiome, host gene expression and obesity.

2022-02-02 | GSE179459 | GEO

RNA sequencing analysis of abdominal adipose tissue in 7 week old juvenile broiler chickens divergently selected for high or low body weight

Project description:Chickens divergently selected for either high growth (HG genotype) or low growth (LG genotype) at SRA-INRA, France were used to profile abdominal adipose gene expression at 7 wk of age. The HG and LG chickens are different in various phenotypic and metabolic measurements, including growth rate, abdominal fat, plasma glycemia, insulinemia, T4, T3, triglyceride and NEFA. The HG and LG chickens are valuable as a model for biomedical and agricultural traits. Massively parallel RNA sequencing (RNA-Seq) was completed on an Illumina HiSeq 2000 System for transcription analysis of HG and LG abdominal fat. Need information on data processing, statistical analysis, and differential expression. Keywords: abdominal fat, divergently selected chickens, growth, transcriptional profiling, differentially expressed genes

2015-03-14 | GSE49121 | GEO

Hepatic transcriptional profiling of juvenile broiler chickens divergently selected for high or low body weight

Project description:Divergently selected chickens for either high growth (HG genotype) or low growth (LG genotype) developed at SRA-INRA, France were used to profile hepatic gene expression during juvenile development (1 to 11 weeks of age) and to identify differentially expressed genes associated with genotype and age. The HG and LG chickens are different in various phenotypic and metabolic measurements, including growth rate, abdominal fat, plasma glycemia, insulinemia, T4, T3, triglyceride and NEFA. The HG and LG chickens are valuable as a model for biomedical and agricultural traits. The Del-Mar 14K Chicken Integrated Systems microarrays were used for a transcriptional scan in liver during juvenile development using a balanced block hybridization design. Log2-transformed fluorescence intensities were analyzed with a two-stage mixed model. A total number of 531 differentially expressed genes were identified. The greatest number of genes was detected at 7 weeks of age where 178 genes were up-regulated in the HG and 162 genes up-regulated in the LG. The differentially expressed genes include metabolic enzymes, acute phase proteins, immune factors and transcription factors involved in various pathways (i.e., fatty acid and amino acid metabolism, glycolysis, oxidative phosphorylation, growth factor signaling and immune defense). Several of these functional genes are also identified as positional candidate genes within QTLs in an F2 population established from an intercross between the HG and LG lines. Keywords: divergently selected chickens, growth, transcriptional profiling, differentially expressed genes

2007-05-30 | GSE7254 | GEO

Post-weaning blood transcriptomic differences between Yorkshire pigs divergently selected for residual feed intake

Project description:Global gene expression profiles of peripheral blood of 35 to 42 day-old Yorkshire pigs with extremely low (more efficient) and high RFI (less efficient) values from two Iowa State University lines (the low RFI line, n = 15, and the high RFI line, n =16) that were divergently selected for RFI during the grow-finish phase were determined by Illumina RNA-seq (100 bp, paired-end) on the Hiseq2000 platform to explore the transcription biomarkers for feed efficiency in pigs.

2016-01-15 | E-MTAB-4179 | biostudies-arrayexpress

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