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Expression data from Serinus canaria HVC, RA and Entopallium

ABSTRACT: Within the overall project, we performed a set of microarrays to validate RNAseq data. In this data set, we compare the expression data of song nuclei to the optical tectrum dissected from adult canaries housed at long day cycles to identify nuclei specific genes.

ORGANISM(S): Serinus canaria Taeniopygia guttata

PROVIDER: GSE50070 | GEO | 2013/08/22

SECONDARY ACCESSION(S): PRJNA215935

REPOSITORIES: GEO

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Expression data from Serinus canaria HVC, RA and Entopallium

Project description:Within the overall project, we performed a set of microarrays to validate RNAseq data (submitted to EBI: PRJEB4463). In this data set, we compare the expression data of song nuclei to the optical tectrum dissected from adult canaries housed at long day cycles to identify nuclei specific genes. 18 total S. canaria samples were analyzed, 6 HVC samples, 5 RA samles and 7 Entopallium samples. The differential expression was analyzed using the group-wise exhaustive analysis with False Discovery Rate set to zero and 10-significant probe minimum coverage, HVc/RA compared to entopallium samples. ChipInspector carries out significance analysis on the single probe level (directly generated from the CEL files). Thus, normalized probe set level data for individual Sample records are not available. Processed data files containing transcripts and the fold changes are available on Series record.

2013-08-22 | E-GEOD-50070 | biostudies-arrayexpress

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Project description:In this data set, we compare the expression data of the song nuclei from canaries treated with testosterone to untreated animals to identify gender specific stimulated gene expression. The gene expression profiles were compared to specie specific sexual dimorphic expressions.

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Project description:Female European robins routinely sing during the winter season, a time when they defend feeding territories and also show elevated circulating testosterone levels. We used wild female European robins captured during fall to examine the effects of testosterone administration on the transcriptome of the song control nucleus HVC (proper name). Robins were caught during fall, housed at short day cycles in sound-proofed recoding boxes and songs were recorded continously. A testosterone-teated robin was sacrificed one day after detection of the first high amplitude notes with a frequency above 15 kHz. Therefore, duration of testosterone treatment varied between samples. An individual of the control group was sacrificed on the same day to ensure a time-matched sampling of individuals from both groups. The differential gene expression in the HVC of 5 control and 6 testosterone birds was analyzed using the group-wise exhaustive analysis with False Discovery Rate set to zero and 10-significant probe minimum coverage. ChipInspector carries out significance analysis on the single probe level. Normalized probe set level data not provided for individual Sample records. Processed data is available on Series record.

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Single-nuclei RNA sequencing of HVC and RA in zebra finches

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Project description:Abstract: Juvenile zebra finches learn to sing by imitating songs of adult males early in life. The development of the song control circuit and the song learning and maturation processes are highly intertwined, involving gene expression, neurogenesis, circuit formation, synaptic modification, and sensory-motor learning, which eventually lead to a mature song. To better understand the genetic mechanisms underlying these events, we used RNA-sequencing (RNA-Seq) to profile genome-wide transcriptomes in the HVC, a brain nucleus controlling song behavior, in juvenile and adult zebra finches. We found that gene expression programs related to axon guidance, RNA metabolism, lipid metabolism, and ATP synthesis were enriched in the HVC relative to the rest of the brain in juveniles. As juveniles matured into adults, massive gene expression changes occurred in the HVC. Gene expression shifted from amino acid metabolism, laminin interaction, cell proliferation, and mitochondrial protein translation to synaptic functions; genes associated with G protein coupled-receptors, GTPase signaling, ion channels, and inhibitory transmission increased expression. Unexpectedly, a group of genes known for their functions in the immune system was also developmentally regulated in the HVC. These data will serve as a rich resource for further analysis of development and function of a neural circuit that controls vocal behavior.

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