Ciona intestinalis cDNA projects: expressed sequence tag analyses and gene expression profiles during embryogenesis

Satou, Yutaka; Takatori, Naohito; Fujiwara, Shigeki; Nishikata, Takahito; Saiga, Hidetoshi; Kusakabe, Takehiro; Shin-I, Tadasu; Kohara, Yuji; Satoh, Nori

doi:10.1016/s0378-1119(01)00826-5

Cited by 130 publications

(108 citation statements)

References 47 publications

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“…In that analysis, A6 and B2 comprised 10.2% and 5.6%, respectively, of the 1,066 ESTs from cleavage-stage embryos, or 9.6% and 5.0%, respectively, of the 1,213 ESTs from tailbud-stage embryos (Satou et al, 2002). These differences may reflect the expectation that most genes that belong to categories A6 and B2 are expressed ubiquitously, as is exemplified by the intracellular components of Wnt, FGF, BMP and activin/nodal signaling in early embryogenesis (Schohl and Fagotto, 2002).…”

Section: Gene Profiles Of Ests From the Ane Librarymentioning

confidence: 98%

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Systematic screening for genes specifically expressed in the anterior neuroectoderm during early Xenopus development

Takahashi¹,

Tochimoto²,

Ohmori³

et al. 2005

Int. J. Dev. Biol.

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A cDNA library derived from the anterior neuroectoderm (ANE) of Xenopus lategastrula embryos was systematically screened to isolate novel developmental regulatory genes involved in early brain development. We isolated 1,706 5´ expressed sequence tags (ESTs), which were subdivided into 1,383 clusters and categorized into 19 classes based on predicted functions according to their similarities to other known genes. Of these, 757 clusters that were considered possible novel regulatory genes or unknown genes were subjected to expression pattern analysis using whole-mount in situ hybridization. Genes from 69 clusters (9%) were expressed in the ANE region. Based on their expression patterns and predicted amino acid sequences, 25 genes were selected for further analysis as novel Xenopus genes expressed broadly or region-specifically in the ANE. Eighteen genes were expressed in postulated patterning centers in the neuroectoderm, including the anterior (four genes) and lateral (nine genes) neural ridges, the midbrain-hindbrain boundary region (one gene) and the midline region of the neural plate (two genes), whereas 13 genes were expressed in the eye anlagen. Therefore, early regionalization of the neuroectoderm appears to occur mainly in those neural patterning centers and the eye anlagen. We determined the entire coding regions of p54nrb, Semaphorin 6D and a novel gene designated scribble-related protein 1 (SCRP1). Interestingly, Semaphorin 6D is expressed in the mesoderm with a dorsoventral gradient, as well as in the ectoderm at the gastrula stage, implying a new role for this protein in development other than in axon guidance.

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Section: Gene Profiles Of Ests From the Ane Librarymentioning

confidence: 98%

“…of times isolated Insert (kbp) Homology search method TABLE 4 eral studies using systematic analyses of ESTs and expression patterns successfully isolated candidate genes of developmental regulators (Gawantka et al, 1998, Lee et al, 1999, Kudoh et al, 2001, Satou et al, 2001, Shibata et al, 2001, Satou et al, 2002, Pollet et al, 2005.…”

Section: Clone Namementioning

confidence: 99%

Systematic screening for genes specifically expressed in the anterior neuroectoderm during early Xenopus development

Takahashi¹,

Tochimoto²,

Ohmori³

et al. 2005

Int. J. Dev. Biol.

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“…Expression patterns of genes can be analyzed by whole-mount in situ hybridization (WISH) during embryogenesis and later developmental stages (Fig. 1E) [30,49]. Knockdown and overexpression of genes of interest have been established in Ciona by microinjecting antisense morpholino oligonucleotides (MOs) and in vitro-synthesized mRNAs into eggs [17,45].…”

Section: Ciona Intestinalis As Subjects In the Study Of Genetic Functmentioning

confidence: 99%

Ciona intestinalis and Oxycomanthus japonicus, Representatives of Marine Invertebrates

et al. 2009

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Abstract:The study of marine invertebrates is useful in various biological research fields. However, genetic analyses of these animals are limited, mainly due to difficulties in culturing them, and the genetic resources of marine invertebrates have not been organized. Recently, advances have been made in the study of two deuterostomes, an ascidian Ciona intestinalis and a feather star Oxycomanthus japonicus. The draft genome sequence of Ciona intestinalis has been determined, and its compact genome, which has less redundancy of genes compared with vertebrates, provides us with a useful experimental system for analyzing the functions of genes during development. The life cycle of Ciona intestinalis is approximately 2-3 months, and the genetic techniques including a perfect inland culture system, germline transformation with a transposon Minos, enhancer detection and insertional mutagenesis, have been established. The feather star Oxycomanthus japonicus conserves the characteristics of the basic echinoderm body plan with a segmented mesoderm, which is a fascinating characteristic for understanding the evolution of echinoderms. Oxycomanthus japonicus shows strong regeneration ability and is a suitable subject for analysis of the mechanisms of regeneration. In consideration of these features, the National BioResource Project (NBRP) has started to support the supply of wild-types, transgenic lines and inbred lines of Ciona intestinalis and Oxycomanthus japonicus.

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“…The cDNA clones used were cicl002e04 (Ci-ZicL), cicl016e09 (Ci-chordin), cieg005o22 (Ci-Delta-like), cign044b23 (Ci-Mnx), cilv005f18 (Ci-cdx), cilv050a24 (Ci-FoxC), and citb028e11 (Ci-ETR) (Satou et al 2002a; the C. intestinalis cDNA project web site: http://ghost.zool.kyoto-u.ac.jp/indexr1.html). A Ci-sna cDNA (Corbo et al 1997a) and the above-mentioned pBluescript II SK+ containing the Ci-nodal cDNA were also used to prepare the probe.…”

Section: Drug Administrationmentioning

confidence: 99%

Nodal regulates neural tube formation in the Ciona intestinalis embryo

Mita

Fujiwara

2007

Dev Genes Evol

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Ciona intestinalis cDNA projects: expressed sequence tag analyses and gene expression profiles during embryogenesis

Cited by 130 publications

References 47 publications

Systematic screening for genes specifically expressed in the anterior neuroectoderm during early Xenopus development

Systematic screening for genes specifically expressed in the anterior neuroectoderm during early Xenopus development

Ciona intestinalis and Oxycomanthus japonicus, Representatives of Marine Invertebrates

Nodal regulates neural tube formation in the Ciona intestinalis embryo

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