Coturnix japonica
Ontology highlight
ABSTRACT:
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| DRR147606_1.fastq.gz | Fastqsanger.gz | |||
| DRR147606_2.fastq.gz | Fastqsanger.gz | |||
| DRR147607_1.fastq.gz | Fastqsanger.gz | |||
| DRR147607_2.fastq.gz | Fastqsanger.gz | |||
| DRR147608_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Japanese quail (Coturnix coturnix japonica) reach sexual maturity early, breed rapidly and successfully, and cost less and require less space than other birds raised for their meat and eggs. Given the value of this species for commercial production and experimental use as well as recent increasing demand, more studies are necessary to determine chromosomal regions and genes associated with gender and breed-differentiation in the species. Identification of sex-related genes can help target chromosomal regions for molecular sexing purposes. This study employed Trinity and edgeR for transcriptome analysis of next-generation RNA-seq data, which included 4 tissues obtained from 3 different breeds of Japanese quail (wild, miniature, and jumbo). The initial goal was to identify genes related to sexual dimorphism, as well as potential novel candidate genes for molecular sexing. Analysis and interpretation of differentially expressed genes shared between female and male tissue contrast groups provided insight into sex-related differences. Several of the genes identified in the present study as significant sex-related genes have been previously found in avian gene expression analyses (e.g. NIPBL, UBAP2), and other genes found differentially expressed in this study and not previously associated with sex-related differences may be considered potential candidates for molecular sexing (e.g. TERA, MYP0, PPR17, CASQ2). Additionally, other genes likely associated with neuronal and brain development (e.g. CHKA, NYAP), as well as body development and size differentiation (e.g. ANKRD26, GRP87) in quail were identified. Expression of homeobox protein regulating genes in the sex-related contrast group revealed two genes (HXC4, ISL1) that may regulate sex-specific anatomical development. Results of these analyses expand the currently limited pool of knowledge on the genetic features of the quail breed and could allow for more effective molecular sexing as well as selective breeding for traits important in commercial production.
2015-12-10 | GSE64961 | GEO
Project description:Japanese quail (Coturnix coturnix japonica) reach sexual maturity early, breed rapidly and successfully, and cost less and require less space than other birds raised for their meat and eggs. Given the value of this species for commercial production and experimental use as well as recent increasing demand, more studies are necessary to determine chromosomal regions and genes associated with gender and breed-differentiation in the species. Identification of sex-related genes can help target chromosomal regions for molecular sexing purposes. This study employed Trinity and edgeR for transcriptome analysis of next-generation RNA-seq data, which included 4 tissues obtained from 3 different breeds of Japanese quail (wild, miniature, and jumbo). The initial goal was to identify genes related to sexual dimorphism, as well as potential novel candidate genes for molecular sexing. Analysis and interpretation of differentially expressed genes shared between female and male tissue contrast groups provided insight into sex-related differences. Several of the genes identified in the present study as significant sex-related genes have been previously found in avian gene expression analyses (e.g. NIPBL, UBAP2), and other genes found differentially expressed in this study and not previously associated with sex-related differences may be considered potential candidates for molecular sexing (e.g. TERA, MYP0, PPR17, CASQ2). Additionally, other genes likely associated with neuronal and brain development (e.g. CHKA, NYAP), as well as body development and size differentiation (e.g. ANKRD26, GRP87) in quail were identified. Expression of homeobox protein regulating genes in the sex-related contrast group revealed two genes (HXC4, ISL1) that may regulate sex-specific anatomical development. Results of these analyses expand the currently limited pool of knowledge on the genetic features of the quail breed and could allow for more effective molecular sexing as well as selective breeding for traits important in commercial production. This study employed Trinity and edgeR for transcriptome analysis of next-generation RNA-seq data, which included 4 tissues obtained from 3 different breeds of Japanese quail (wild, miniature, and jumbo).
2015-12-10 | E-GEOD-64961 | biostudies-arrayexpress
Project description:In this study, we used RNA-seq to identify differences in gene expression patterns in ovarian follicles of female Japanese quail (Coturnix coturnix japonica) that produce large versus small eggs relative to their body size. A high quality reference genome is currently under construction by the Quail Genome Consortium (BioProject ID: PRJNA292031).
2015-10-11 | E-MTAB-3945 | biostudies-arrayexpress
Project description:Comprehensive identification of sexual dimorphism-associated differentially expressed genes in two-factorial designed RNA-seq data on Japanese Quail (Coturnix coturnix japonica)
| PRJNA272589 | ENA
Project description:The molecular mechanism of photoperiodic time measurement remains unknown in animals. Japanese quail is an excellent model for studying these phenomena because of their rapid and dramatic response to photoperiod. When quail are transferred from short to long day conditions, increase in plasma gonadotrophin (luteinising hormone: LH) can be observed by the end of the first long day and this phenomenon is called âfirst day release modelâ. To dissect the system dynamics and network structure regulating photoperiodism, we examined global gene expression using high-density oligonucleotide microarray for chicken (Affymetrix Chicken Genome Array). Experiment Overall Design: The mediobasal hypothalamus (MBH) of quail was collected from 6 birds for each time point during the photoinduction process. Pooled total RNA from three MBHs was labelled and hybridized to each Affymetrix chicken genome array. Samples were analyzed in duplicate set of array (two biological replicate).
2008-11-06 | E-GEOD-8017 | biostudies-arrayexpress