Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Zebra_finches_skin_microbiome

ABSTRACT: Family matters: Skin microbiome reflects the social group and spatial proximity in wild zebra finches

PROVIDER: PRJEB37771 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR4026960_1.fastq.gz	Fastqsanger.gz
	ERR4026960_2.fastq.gz	Fastqsanger.gz
	ERR4026970_1.fastq.gz	Fastqsanger.gz
	ERR4026970_2.fastq.gz	Fastqsanger.gz
	ERR4026980_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 80

Similar Datasets

Neural transcriptomic responses to endotoxin challenge across social treatments

Project description:The aim of this experiment was to test whether the social setting changed neural transcriptomic responses to an endotoxin challenge in zebra finches

2023-03-06 | GSE203528 | GEO

Expression data from testes of zebra finch males artificially selected for long or short sperm

Project description:Male zebra finches of a captive population in the University of Sheffield were artificially selected for long or short sperm based on their breeding values for three generations. We used Affymetrix microarrays to examine gene expression differences between testes of selection line male birds.

2017-07-17 | GSE96970 | GEO

Zebra Finch: m. tracheobronchialis dorsalis (DTB) muscle

Project description:LCMS .raw files resulting from the analysis of tryptic digests of ~1 mg pieces of m. tracheobronchialis dorsalis (DTB) muscle from 3 male zebra finches. The use of the right side of the syringeal muscle was prevented by unilateral section of the hypoglossal nerve. The birds were euthanized 21 days after the nerve cut. The right side of the muscle served as the experimental group and the left side (uncut nerve) served as the control group. All of the samples were muscle samples reduced and treated with iodoacetamide prior to digestion.

2023-02-23 | MSV000091352 | MassIVE

Project description:Trio sequencing of captive zebra finches

| PRJNA1083753 | ENA

Transcriptome profiling of the HVC of the young and adult zebra finch brain by RNA-Seq

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.

2020-01-01 | GSE140470 | GEO

Weighted gene coexpression analysis of RNA-seq data from 65d juvenile Area X and adjacent non-song ventral striatopallidum (VSP).

Project description:Human speech is one of the few examples of vocal learning among mammals, yet ~half of avian species exhibit this ability. Its genetic basis is unknown beyond a shared requirement for FoxP2 in both humans and zebra finches. Here we manipulated FoxP2 isoforms in Area X during a critical period for song development, delineating, for the first time, unique contributions of each to vocal learning. We used weighted gene coexpression network analysis of RNA-seq data to construct transcriptional profiles and found gene modules correlated to singing, learning, or vocal variability. The juvenile song modules were preserved adults, whereas the learning modules were not. The learning modules were preserved in the striatopallidum adjacent to Area X whereas the song modules were not. The confluence of learning and singing coexpression in juvenile, but not adult, Area X may underscore molecular processes that drive vocal learning in zebra finches and, by analogy, humans.

2018-01-25 | GSE96843 | GEO

Cell type specializations of the vocal-motor cortex in songbirds

Project description:The identification of molecular specializations in cortical circuitry supporting complex behaviors, such as learned vocalizations, requires understanding the neuroanatomical context from which these circuits arise. In songbirds, the robust nucleus of the arcopallium (RA) provides the sole descending projection for fine motor control of vocalizations. Using single nuclei transcriptomics and spatial gene expression mapping in zebra finches, we were able to define cell types and molecular specializations that distinguish RA from adjacent regions involved in non-vocal motor and sensory processing. We describe an RA-specific vocal projection neuron, differential composition of inhibitory neuron subtypes, and unique glial specializations. We show how several cell-specific molecular features arise in a sex-dependent manner during development. Based on the molecular data, we were also able to electrophysiologically probe, for the first time, predicted GABAergic subtypes within RA. To facilitate future utilization of the data, we have developed interactive apps that allow integration of cell level molecular data with developmental and spatial distribution data from our gene expression brain atlas (ZEBrA). With this resource, users can explore molecular specializations of vocal-motor neurons and support cells that likely reflect adaptations key to the physiology and evolution of vocal control circuits.

2023-06-10 | GSE233643 | GEO

Transcriptomic changes in the posterior pallium of male zebra finches associated with social niche conformance

Project description:Transcriptomic changes in the posterior pallium of male zebra finches associated with social niche conformance

| PRJEB63186 | ENA

Developmental shifts in gene expression in the auditory forebrain during the sensitive period for song learning

Project description:A male zebra finch begins to learn to sing by memorizing a tutorM-bM-^@M-^Ys song during a sensitive period in juvenile development. Tutor song memorization requires molecular signaling within the auditory forebrain. Using microarray and in situ hybridizations, we tested whether the auditory forebrain at an age just before tutoring expresses a different set of genes compared with later life after song learning has ceased. Microarray analysis revealed differences in expression of thousands of genes in the male auditory forebrain at posthatch day 20 (P20) compared with adulthood. Furthermore, song playbacks had essentially no impact on gene expression in P20 auditory forebrain, but altered expression of hundreds of genes in adults. Most genes that were song-responsive in adults were expressed at constitutively high levels at P20. Using in situ hybridization with a representative sample of 44 probes, we confirmed these effects and found that birds at P20 and P45 were similar in their gene expression patterns. Additionally, eight of the probes showed maleM-bM-^@M-^Sfemale differences in expression. We conclude that the developing auditory forebrain is in a very different molecular state from the adult, despite its relatively mature gross morphology and electrophysiological responsiveness to song stimuli. Developmental gene expression changes may contribute to fine-tuning of cellular and molecular properties necessary for song learning. Post-hatch day 20 male zebra finches that had been raised in acoustic isolation with a foster female or adult male zebra finches were placed in a song playback chamber. The next day, birds heard either silence (control) or 30 minutes of novel song. All samples were hybridized against the universal SoNG RNA reference pool, 6 biological replicates per group in each of 4 groups.

2012-03-24 | E-GEOD-36657 | biostudies-arrayexpress

Taeniopygia guttata breed:several

Project description:Physiological implications of pheomelanin synthesis in Zebra finches

| PRJNA773662 | ENA