Abstract：
:Animal development is controlled by gene regulation networks that are composed of sequence-specific transcription factors (TF) and cell signaling molecules (ST). Although housekeeping genes have been reported to show clustering in the animal genomes, whether the genes comprising a given regulatory network are physically clustered on a chromosome is uncertain. We examined this question in the present study. Ascidians are the closest living relatives of vertebrates, and their tadpole-type larva represents the basic body plan of chordates. The Ciona intestinalis genome contains 390 core TF genes and 119 major ST genes. Previous gene disruption assays led to the formulation of a basic chordate embryonic blueprint, based on over 3000 genetic interactions among 79 zygotic regulatory genes. Here, we mapped the regulatory genes, including all 79 regulatory genes, on the 14 pairs of Ciona chromosomes by fluorescent in situ hybridization (FISH). Chromosomal localization of upstream and downstream regulatory genes demonstrates that the components of coherent developmental gene networks are evenly distributed over the 14 chromosomes. Thus, this study provides the first comprehensive evidence that the physical clustering of regulatory genes, or their target genes, is not relevant for the genome-wide control of gene expression during development.
journal_name
Dev Bioljournal_title
Developmental biologyauthors
Shoguchi E,Hamaguchi M,Satoh Ndoi
10.1016/j.ydbio.2008.01.009subject
Has Abstractpub_date
2008-04-15 00:00:00pages
498-509issue
2eissn
0012-1606issn
1095-564Xpii
S0012-1606(08)00032-8journal_volume
316pub_type
杂志文章abstract：:Named for its assembly near exon-exon junctions during pre-mRNA splicing, the exon junction complex (EJC) regulates multiple aspects of RNA biochemistry, including export of spliced mRNAs from the nucleus and translation. Transcriptome analyses have revealed broad EJC occupancy of spliced metazoan transcripts, yet inh...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2019.09.010
更新日期：2020-01-01 00:00:00
abstract：:Alkaline phosphatase (AP) activity is expressed by endodermal cells of ascidian larvae. It was reported previously that the expression of AP activity is resistant to treatment with actinomycin D, a transcription inhibitor that inhibits the appearance of several other tissue-specific molecules and morphological markers...
journal_title：Developmental biology
pub_type： 杂志文章
doi：
更新日期：1998-06-15 00:00:00
abstract：:The chicken retina is capable of limited regeneration. In response to injury, some Müller glia proliferate and de-differentiate into progenitor cells. However, most of these progenitors fail to differentiate into neurons. The Notch pathway is upregulated during retinal regeneration in both fish and amphibians. Since t...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2007.09.046
更新日期：2007-12-01 00:00:00
abstract：:Previous studies have established that embryonal carcinoma (EC) cells produce several different growth factors, but express few, if any, receptors for epidermal growth factor, platelet-derived growth factor, or transforming growth factor type-beta. In this study, the production and utilization of fibroblast growth fac...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/0012-1606(88)90161-3
更新日期：1988-09-01 00:00:00
abstract：:Maize leaves are divided into repeated longitudinal units consisting of vascular tissue, bundle sheath (BS), and mesophyll (M) cells. We have carried out a cell lineage analysis of these cell types using six spontaneous striping mutants of maize. We show that certain cell division patterns are preferentially utilized,...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/0012-1606(89)90304-7
更新日期：1989-05-01 00:00:00
abstract：:Neural stem cells are present in specific regions of the adult central nervous system (CNS). Recent evidence suggests that the ciliary epithelium (CE), a CNS derivative, in the adult mammalian eye, harbors a quiescent population of neural stem cells. Here, we report the identification of c-Kit signaling as one of the ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2004.05.023
更新日期：2004-09-01 00:00:00
abstract：:Transcription factors are key orchestrators of the emergence of neuronal diversity within the developing spinal cord. As such, the two paralogous proteins Pax3 and Pax7 regulate the specification of progenitor cells within the intermediate neural tube, by defining a neat segregation between those fated to form motor c...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2017.06.014
更新日期：2017-12-01 00:00:00
abstract：:The release of intracellular calcium (Ca2+) via either inositol 1,4, 5-trisphosphate receptors (IP3R) or ryanodine receptors (RyR) activates a wide variety of signaling pathways in virtually every type of cell. In the present study we demonstrate that at early stages of development IP3R mRNA and functional IP3-gated C...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.1998.9120
更新日期：1999-02-15 00:00:00
abstract：:We have characterized the antigen recognized by mab10, a monoclonal antibody that has been shown to modify outgrowth of thalamic and cortical axons in vitro, and investigated the influence of this antibody on axonal growth in the chicken retina in vivo. Immunopurification, peptide sequencing, and biochemical character...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.2000.9970
更新日期：2001-01-01 00:00:00
abstract：:Cranial nerves VII, IX and X provide both gustatory (taste) and non-gustatory (touch, pain, temperature) innervation to the oral cavity of vertebrates. Gustatory neurons innervate taste buds and project centrally to the rostral nucleus of the solitary tract (NTS), whereas neurons providing general epithelial innervati...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2007.07.042
更新日期：2007-10-15 00:00:00
abstract：:PDGFB is a growth factor which is vital for the completion of normal prenatal development. In this study, we report the phenotypic analysis of placentas from mouse conceptuses that lack a functional PDGFB or PDGFRbeta gene. Placentas of both types of mutant exhibit changes in the labyrinthine layer, including dilated ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.1999.9306
更新日期：1999-08-01 00:00:00
abstract：:To analyze the molecular mechanism of the limb pattern formation, we have tried to make monoclonal antibodies against antigens from chick limb buds. We obtained one antibody named AV-1 which recognized a specific region of chick limb buds. AV-1 reacted with the distal portion of the anteroventral mesoderm of only deve...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/0012-1606(86)90337-4
更新日期：1986-10-01 00:00:00
abstract：:The migration and fate of cranial and vagal neural crest-derived progenitor cells (NCPCs) have been extensively studied; however, much less is known about sacral NCPCs particularly in regard to their distribution in the urogenital system. To construct a spatiotemporal map of NCPC migration pathways into the developing...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2017.04.011
更新日期：2017-09-01 00:00:00
abstract：:Non-syndromic mitral valve prolapse (MVP) is the most common heart valve disease affecting 2.4% of the population. Recent studies have identified genetic defects in primary cilia as causative to MVP, although the mechanism of their action is currently unknown. Using a series of gene inactivation approaches, we define ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2020.03.003
更新日期：2020-07-01 00:00:00
abstract：:Homeotic genes in the Antennapedia Complex of Drosophila specify identity of the posterior head segments; the labial segment requires Sex combs reduced (Scr) for proper development, Deformed (Dfd) specifies maxillary and mandibular identity, and labial is necessary for intercalary segment identity. Although mutations ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.1996.0290
更新日期：1996-11-25 00:00:00
abstract：:Neurons and glia are produced in stereotyped patterns after neuroblast cell division during development of the Drosophila central nervous system. The first cell division of thoracic neuroblast 6-4 (NB6-4T) is asymmetric, giving rise to a glial precursor cell and a neuronal precursor cell. In contrast, abdominal NB6-4 ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.2000.9727
更新日期：2000-06-15 00:00:00
abstract：:The cnidarian "planula" larva shows radial symmetry around a polarized, oral-aboral, body axis and comprises two epithelia cell layers, ectodermal and endodermal. This simple body plan is set up during gastrulation, a process which proceeds by a variety of modes amongst the diverse cnidarian species. In the hydrozoan ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2020.09.013
更新日期：2020-12-01 00:00:00
abstract：:Crest-derived glomus cells of the carotid body (CB) are O(2)-sensitive chemoreceptors, which resemble sympathoadrenal (SA) chromaffin cells. In this study, we tested whether perinatal rat glomus cells are sensitive to basic fibroblast growth factor (bFGF) in vitro and whether their sensitivity is regulated by oxygen. ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.1997.8539
更新日期：1997-04-15 00:00:00
abstract：:Monoclonal antibodies highly selective for developmentally regulated antigens present in the cornea (Zak and Linsenmayer, Dev. Biol. 99, 373-381, 1983) have been used to immunohistochemically evaluate differentiation in intact chick corneas cultured on the chorioallantoic membrane (CAM) of host embryos. One antibody i...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/0012-1606(85)90047-8
更新日期：1985-04-01 00:00:00
abstract：:Several Strongylocentrotus purpuratus gene cis-regulatory regions contain asymmetric C4 sequences which are core elements of target sites for a specific DNA-protein interaction. Blastula stage nuclear extract contains five proteins which specifically bind to these target sites, resulting in a characteristic pattern of...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.1995.1181
更新日期：1995-06-01 00:00:00
abstract：:For both the intricate morphogenetic layout of the sensory cells in the ear and the elegantly radial arrangement of the sensory neurons in the nose, numerous signaling molecules and genetic determinants are required in concert to generate these specialized neuronal populations that help connect us to our environment. ...
journal_title：Developmental biology
pub_type： 杂志文章,评审
doi：10.1016/j.ydbio.2014.01.023
更新日期：2014-05-01 00:00:00
abstract：:Male germline stem cells (GSCs) in Drosophila melanogaster divide asymmetrically by orienting the mitotic spindle with respect to the niche, a microenvironment that specifies stem cell identity. The spindle orientation is prepared during interphase through stereotypical positioning of the centrosomes. We recently demo...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2011.10.010
更新日期：2012-01-01 00:00:00
abstract：:The s-SHIP protein is a shorter isoform of the longer SHIP1 protein and lacks the N-terminal SH2 domain region contained in SHIP1. s-SHIP is expressed in ES cells and in enriched bone marrow stem cells, and may be controlled by a promoter within intron 5 of the ship1 gene. We therefore examined the potential specifici...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2005.04.032
更新日期：2005-07-15 00:00:00
abstract：:Congenital diseases caused by abnormal development of the cranial neural crest usually present craniofacial malformations and heart defects while the precise mechanism is not fully understood. Here, we show that the zebrafish eif3ba mutant caused by pseudo-typed retrovirus insertion exhibited a similar phenotype due t...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2013.06.009
更新日期：2013-09-01 00:00:00
abstract：:The Jonah gene family consists of approximately 20 genes, distributed in small clusters at eight or more widely dispersed chromosomal sites. Gene clusters differ in the number of genes per cluster, ranging up to four, and in the arrangement of genes within clusters, which include direct repeats, inverted repeats, and ...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/0012-1606(85)90038-7
更新日期：1985-04-01 00:00:00
abstract：:Genetic interactions regulating intermediate stages of tubulogenesis in the developing kidney have been difficult to define. A systems biology strategy using microarray was combined with in vitro/ex vivo and genetic approaches to identify pathways regulating specific stages of tubulogenesis. Analysis of the progressio...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2012.01.014
更新日期：2012-04-01 00:00:00
abstract：:The Egr family of zinc-finger transcription factors, consisting of Egr1, Egr2, Egr3, and Egr4, are involved in cellular growth and differentiation. Adult Egr3-deficient mice are ataxic and lack muscle spindle proprioceptors that normally develop at the sites of Ia afferent-myotube contacts during embryogenesis. To res...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1006/dbio.2001.0202
更新日期：2001-04-15 00:00:00
abstract：:In many organisms, like Caenorhabditis elegans and Drosophila melanogaster, establishment of spatial patterns and definition of cell fate are driven by the segregation of determinants in response to spatial cues, as early as oogenesis or fertilization. In these organisms, a family of conserved proteins, the PAR protei...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2005.03.001
更新日期：2005-06-15 00:00:00
abstract：:Genome stability relies notably on the integrity of centrosomes and on the mitotic spindle they organize. Structural and numerical centrosome aberrations are frequently observed in human cancer, and there is increasing evidence that centrosome amplification can promote tumorigenesis. Here, we use C. elegans seam cells...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2018.01.001
更新日期：2018-02-15 00:00:00
abstract：:Caenorhabditis elegans PEB-1 is a novel DNA-binding protein expressed in most pharyngeal cell types and outside the pharynx in the hypodermis, hindgut, and vulva. Previous RNAi analyses indicated that PEB-1 is required for normal morphology of these tissues and growth; however, the peb-1 null phenotype was unknown. He...
journal_title：Developmental biology
pub_type： 杂志文章
doi：10.1016/j.ydbio.2004.08.040
更新日期：2004-12-15 00:00:00
