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Small RNA sequencing of two developmental stages of Ciona intestinalis

ABSTRACT: We report the comprehensive sequencing of small RNA libraries created from different developmental stages (larva and gastrula) of the basal chordate, Ciona intestinalis. These libraries were used for the identification of microRNAs in this organism.

ORGANISM(S): Ciona intestinalis

PROVIDER: GSE21078 | GEO | 2010/03/27

SECONDARY ACCESSION(S): PRJNA126717

REPOSITORIES: GEO

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small RNA sequencing of two developmental stages of Ciona intestinalis

Project description:We report the comprehensive sequencing of small RNA libraries created from different developmental stages (larva and gastrula) of the basal chordate, Ciona intestinalis. These libraries were used for the identification of microRNAs in this organism. Sequencing of small RNA libraries from 2 stages of Ciona intestinalis.

2010-03-27 | E-GEOD-21078 | biostudies-arrayexpress

Transcriptome analysis of Ciona intestinalis to identify genes expressed in the adult organs.

Project description:Among urochordates (tunicates)âthe closest living relatives of vertebratesâCiona intestinalis is increasingly being used as a model organism in the field of developmental biology. Ciona intestinalis is the seventh animal which genome published; the ~120-Mbp euchromatin region is estimated to contain ~16,000 protein-coding genes. In addition, analyses of more than one million ESTs have provided the foundation for gene models and associated transcriptomes. The fertilized Ciona intestinalis egg develops into a tadpole larva with a simplified chordate body plan, and then it metamorphose into adult sea squirt of sessile filter feeder. One of interests in the field of developmental biology is to understand what kind of genes are expressed in the body and how spatially and/or temporally coordinated expression of genes is controlled. In this study, we investigated the entire gene expression of 11 organs of adult Ciona; the neural complex, branchial sac, esophagus, stomach, endostyle, intestine, body-wall muscle, heart, blood cells, ovary, and testis. Our data would provides basic information of transcriptome in each organ and help to understand gene expression control of organ specific genes. Gene expressions in 11 organs of adult Ciona intestinalis; blood cells, branchial sac, digestive grand, endostyle, esophagus, heart, body-wall muscle, neural complex, ovary, stomach and testis. Three independent experiments were performed at each tissue using different individuals for each experiment.

2010-10-27 | E-GEOD-24941 | biostudies-arrayexpress

Transcriptome analysis of Ciona intestinalis to identify genes expressed in the adult organs.

Project description:Among urochordates (tunicates)—the closest living relatives of vertebrates—Ciona intestinalis is increasingly being used as a model organism in the field of developmental biology. Ciona intestinalis is the seventh animal which genome published; the ~120-Mbp euchromatin region is estimated to contain ~16,000 protein-coding genes. In addition, analyses of more than one million ESTs have provided the foundation for gene models and associated transcriptomes. The fertilized Ciona intestinalis egg develops into a tadpole larva with a simplified chordate body plan, and then it metamorphose into adult sea squirt of sessile filter feeder. One of interests in the field of developmental biology is to understand what kind of genes are expressed in the body and how spatially and/or temporally coordinated expression of genes is controlled. In this study, we investigated the entire gene expression of 11 organs of adult Ciona; the neural complex, branchial sac, esophagus, stomach, endostyle, intestine, body-wall muscle, heart, blood cells, ovary, and testis. Our data would provides basic information of transcriptome in each organ and help to understand gene expression control of organ specific genes.

2010-10-27 | GSE24941 | GEO

Life cycle of Ciona intestinalis

Project description:Recent whole-genome studies and in-depth expressed sequence tag (EST) analyses have identified most of the developmentally relevant genes in the urochordate, Ciona intestinalis. In this study, we made use of a large-scale oligo-DNA microarray to further investigate and identify genes with specific or correlated expression profiles. This large-scale oligo-DNA microarray for C. intestinalis should facilitate the understanding of global gene expression and gene networks during the development and ageing of a basal chordate. Keywords: gene expression, development, ageing, life cycle

2007-06-20 | GSE6308 | GEO

Gata.a, Tcf7 and Zic-r.a ChIP-chip analysis in Ciona intestinalis embryo (16-cell stage)

Project description:DNA binding profiles of three maternal factors (Tcf7, Gata.a and Zic-r.a) in chordate 16-cell stage embryo. 16-cell stage ciona intestinalis embryos were collected from multiple batches and the extracted chromatin was immunoprecipitated by the antibodies which specifically recognize ciona Gata.a, Tcf7 and Zic-r.a, respectively.

2016-04-22 | GSE70902 | GEO

Ciona intestinalis

Project description:ZicL ChIP-chip on Ciona intestinalis embryo (early gastrula)

| PRJNA123425 | ENA

Ciona intestinalis

Project description:Otx ChIP-chip on Ciona intestinalis embryo (early gastrula)

| PRJNA123633 | ENA

Ciona intestinalis

Project description:Tbx6b ChIP-chip on Ciona intestinalis embryo (early gastrula)

| PRJNA123639 | ENA

Ciona intestinalis

Project description:SoxC ChIP-chip on Ciona intestinalis embryo (early gastrula)

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