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At least 1,153 records · Page 64Linked to original sources
PubMed2002

The guts of endoderm formation.

In this chapter, we will review the formation of the definitive endoderm, the population of cells that give rise to the lining of the digestive tract, its associated organs and the pharyngeal pouches. At the cellular level, we will describe the location and movement of endodermal cells from the onset of epiboly until the end of gastrulation. At the molecular level, we will discuss the genes associated with endoderm formation beginning with Nodal signaling. For convenience, we use the term involution, sometimes referred to as internalization; we also separate endoderm formation into the pre-involution (blastula) and post-involution (gastrula) periods although of course endoderm formation involves a continuous series of events. In addition, we refer to the cells that contribute to the endoderm as progenitors prior to their involution and precursors after their involution.

Animals↗
PubMed2004

The Hoxa2 enhancer 2 contains a critical Hoxa2 responsive regulatory element.

Rhombomeres are embryonic territories arising from the transient segmentation of the hindbrain. Their identity is specified by Hox genes from paralogous groups 1-4. Hoxa2 is the only Hox gene to be expressed in the second rhombomere and the regulatory cues leading to this region-specific expression have been poorly investigated. A 2.5-kb DNA fragment overlapping with the 3' end of Hoxa2 was previously shown to specifically direct the expression of a reporter gene in the second rhombomere and the rostral somites of mouse embryos. Here, we report that this enhancer region is activated in vitro by Hoxa2 and that this activation is strictly dependent on a short 10-bp sequence matching the consensus for Hox-Pbx recognition sites.

Animals↗
PubMed2004

Medaka genomics: a bridge between mutant phenotype and gene function.

Recent advances in medaka genetics have proven that the medakafish is an excellent model system for developmental and evolutionary biology studies and that it can complement similar studies in zebrafish. Large-scale mutagenesis projects are now being conducted by several groups in Japan and are delivering a vastly expanded pool of medaka mutant stocks. This growing availability of genomic resources will greatly accelerate progress in moving from mutant phenotypes to the elucidation of gene function. This phenotype-driven approach can be expected to lead to the identification and characterization of novel genes and pathways in vertebrate genomes. This review discusses the current state of medaka genomic resources, the state of medaka gene mapping and medaka genome sequencing projects.

Animals↗
PubMed2001

The early steps of neural crest development.

The neural crest is an intriguing cell population that gives rise to many derivatives which are all generated far from their final destinations. From its induction to the delamination of the cells, multiple signalling pathways converge to regulate the expression of effector genes, the products of which endow the cells with invasive and migratory properties reminiscent of those displayed by malignant cells in tumours. As such, the neural crest constitutes an excellent model to study cell migration.

Animals↗
PubMed2006

Gene prioritization through genomic data fusion.

The identification of genes involved in health and disease remains a challenge. We describe a bioinformatics approach, together with a freely accessible, interactive and flexible software termed Endeavour, to prioritize candidate genes underlying biological processes or diseases, based on their similarity to known genes involved in these phenomena. Unlike previous approaches, ours generates distinct prioritizations for multiple heterogeneous data sources, which are then integrated, or fused, into a global ranking using order statistics. In addition, it offers the flexibility of including additional data sources. Validation of our approach revealed it was able to efficiently prioritize 627 genes in disease data sets and 76 genes in biological pathway sets, identify candidates of 16 mono- or polygenic diseases, and discover regulatory genes of myeloid differentiation. Furthermore, the approach identified a novel gene involved in craniofacial development from a 2-Mb chromosomal region, deleted in some patients with DiGeorge-like birth defects. The approach described here offers an alternative integrative method for gene discovery.

Algorithms↗
PubMed2002

Molecular mechanisms of ventricular hypoplasia.

We have established the beginnings of a road map to understand how ventricular cells become specified, differentiate, and expand into a functional cardiac chamber (Fig. 5). The transcriptional networks described here provide clear evidence that disruption of pathways affecting ventricular growth could be the underlying etiology in a subset of children born with malformation of the right or left ventricle. As we learn details of the precise mechanisms through which the critical factors function, the challenge will lie in devising innovative methods to augment or modify the effects of gene mutations on ventricular development. Because most congenital heart disease likely occurs in a setting of heterozygous, predisposing mutations of one or more genes, modulation of activity of critical pathways in a preventive fashion may be useful in averting disease in genetically susceptible individuals.

Animals↗
PubMed2001

Second-harmonic imaging microscopy of living cells.

Second harmonic generation (SHG) has been developed in our laboratories as a high-resolution nonlinear optical imaging microscopy for cellular membranes and intact tissues. SHG shares many of the advantageous features for microscopy of another more established nonlinear optical technique: two-photon excited fluorescence (TPEF). Both are capable of optical sectioning to produce three-dimensional images of thick specimens and both result in less photodamage to living tissue than confocal microscopy. SHG is complementary to TPEF in that it uses a different contrast mechanism and is most easily detected in the transmitted light optical path. It can be used to image membrane probes with high membrane specificity and displays extraordinary sensitivity in reporting membrane potential; it also has the ability to image highly ordered structural proteins without any exogenous labels.

Animals↗
PubMed2004

Tandem mass spectrometry in discovery of disorders of the metabolome.

Genetic disorders of amino acid and fatty acid metabolism can be detected with tandem mass spectrometry (MS/MS). MS/MS screening of mice subjected to chemical mutagenesis (see the related article beginning on page 434) defined a new disorder of branched-chain amino acid metabolism resembling human maple syrup urine disease. This approach has general application to the discovery of gene function in developmental and metabolic disorders.

Animals↗
PubMed2001

Neurochemical anatomy of the zebrafish retina as determined by immunocytochemistry.

The zebrafish retina is rapidly becoming a major preparation for the study of molecular genetic mechanisms underlying neural development and visual behavior. Studies utilizing retinal mutants would benefit by the availability of a data base on the distribution of neurotransmitter systems in the wild-type fish. To this end, the neurochemical anatomy of the zebrafish retina was surveyed by light microscopic immunocytochemistry. An extensive series of 60 separate antibodies were used to describe the distribution of major transmitter systems and a variety of neuron-associated membrane channels and proteins. These include markers (i.e., antibodies against enzymes, receptors, transporters) for transmitters: GABA, glycine, glutamate, biogenic amines, acetylcholine, cannabinoids and neuropeptides; as well as a sample of voltage-gated channels and synapse associated membrane proteins. Discussion of the comparative localization of these antibodies is restricted to other teleost fishes, particularly goldfish. Overall, there was great similarity in the distribution of the various markers, as might be expected. However, there were some notable differences, including several antibodies that did not label zebrafish at all, even though goldfish retinas that were processed in parallel, labeled beautifully. This survey is extensive, but not exhaustive, and hopefully will serve as a valuable resource for future studies of the zebrafish retina.

Animals↗
PubMed2001

A zebrafish nanos-related gene is essential for the development of primordial germ cells.

Asymmetrically distributed cytoplasmic determinants collectively termed germ plasm have been shown to play an essential role in the development of primordial germ cells (PGCs). Here, we report the identification of a nanos-like (nanos1) gene, which is expressed in the germ plasm and in the PGCs of the zebrafish. We find that several mechanisms act in concert to restrict the activity of Nanos1 to the germ cells including RNA localization and control over the stability and translatability of the RNA. Reducing the level of Nanos1 in zebrafish embryos revealed an essential role for the protein in ensuring proper migration and survival of PGCs in this vertebrate model organism.

Amino Acid Sequence↗
PubMed2007

Specification of epibranchial placodes in zebrafish.

In all vertebrates, the neurogenic placodes are transient ectodermal thickenings that give rise to sensory neurons of the cranial ganglia. Epibranchial (EB) placodes generate neurons of the distal facial, glossopharyngeal and vagal ganglia, which convey sensation from the viscera, including pharyngeal endoderm structures, to the CNS. Recent studies have implicated signals from pharyngeal endoderm in the initiation of neurogenesis from EB placodes; however, the signals underlying the formation of placodes are unknown. Here, we show that zebrafish embryos mutant for fgf3 and fgf8 do not express early EB placode markers, including foxi1 and pax2a. Mosaic analysis demonstrates that placodal cells must directly receive Fgf signals during a specific crucial period of development. Transplantation experiments and mutant analysis reveal that cephalic mesoderm is the source of Fgf signals. Finally, both Fgf3 and Fgf8 are sufficient to induce foxi1-positive placodal precursors in wild-type as well as Fgf3-plus Fgf8-depleted embryos. We propose a model in which mesoderm-derived Fgf3 and Fgf8 signals establish both the EB placodes and the development of the pharyngeal endoderm, the subsequent interaction of which promotes neurogenesis. The coordinated interplay between craniofacial tissues would thus assure proper spatial and temporal interactions in the shaping of the vertebrate head.

Animals↗
PubMed2003

Visuomotor behaviors in larval zebrafish after GFP-guided laser ablation of the optic tectum.

The optic tectum is the largest visual center in most vertebrates and the main target for retinal ganglion cells (RGCs) conveying visual information from the eye to the brain. The retinotectal projection has served as an important model in many areas of developmental neuroscience. However, knowledge of the function of the tectum is limited. We began to address this issue using laser ablations and subsequent behavioral testing in zebrafish. We used a transgenic zebrafish line that expresses green-fluorescent protein in RGCs projecting to the tectum. By aiming a laser beam at the labeled retinal fibers demarcating the tectal neuropil, the larval tectum could be selectively destroyed. We tested whether tectum-ablated zebrafish larvae, when presented with large-field movements in their surroundings, displayed optokinetic responses (OKR) or optomotor responses (OMR), two distinct visuomotor behaviors that compensate for self-motion. Neither OKR nor OMR were found to be dependent on intact retinotectal connections. Also, visual acuity remained unaffected. Tectum ablation, however, slowed down the OKR by reducing the frequency of saccades but left tracking velocity, gain, and saccade amplitude unaffected. Removal of the tectum had no effect on the processing of second-order motion, to which zebrafish show both OKR and OMR, suggesting that the tectum is not an integral part of the circuit that extracts higher-order cues in the motion pathway.

Animals↗
PubMed2006

In vivo migration: a germ cell perspective.

The basic concepts of the molecular machinery that mediates cell migration have been gleaned from cell culture systems. However, the three-dimensional environment within an organism presents migrating cells with a much greater challenge. They must move between and among other cells while interpreting multiple attractive and repulsive cues to choose their proper path. They must coordinate their cell adhesion with their surroundings and know when to start and stop moving. New insights into the control of these remaining mysteries have emerged from genetic dissection and live imaging of germ cell migration in Drosophila, zebrafish, and mouse embryos. In this review, we first describe germ cell migration in cellular and mechanistic detail in these different model systems. We then compare these systems to highlight the emerging principles. Finally, we contrast the migration of germ cells with that of immune and cancer cells to outline the conserved and different mechanisms.

Animals↗
PubMed2003

Structure and evolution of the horizontal septum in vertebrates.

Although the horizontal septum (HS) has been identified as playing a role in fish biomechanics and in path finding of cells during zebrafish development, its morphology is poorly known. However, it is generally regarded as an evolutionarily conserved structure. To test this idea, we applied a novel combination of techniques to analyse the HS of 35 species from all major gnathostome clades in which is visualized its collagen fibre architecture. Results show that the HS is a conserved trait only with respect to the presence of caudolateral [= epicentral] and craniolateral [= posterior oblique] collagen fibre tracts, but differs remarkably with respect to the specifications of these tracts. Our data revealed several evolutionary changes within vertebrates. In the gnathostome ancestor, the two tracts are represented by evenly distributed epicentral fibres (ECFs) and posterior oblique fibres (POFs). ECFs are condensed to distinct epicentral tendons (ECTs) in the actinopteran ancestor. POFs independently evolved to distinct posterior oblique tendons (POTs) at least two times within teleosts. Within basal teleostomes, POFs as well as ECFs or ECTs were lost two times independently. POTs were lost at least three times independently within teleosts. This view of a homoplastic HS remains stable regardless of the competing phylogenies used for analysis. Our data make problematic any generalization of biomechanical models on fish swimming that include the HS. They indicate that the pathfinding role of the HS in zebrafish may be extended to gnathostome fishes, but not to agnathans, sarcopterygian fishes and tetrapods.

Adaptation, Physiological↗
PubMed2026

Genetic evidence and cross-species functional characterization implicate CNN2 in age-related macular degeneration susceptibility.

Age-related macular degeneration (AMD) is a leading cause of irreversible visual impairment in the aging population globally. Although genome-wide association studies (GWAS) have identified many AMD susceptibility loci, the genes and mechanisms underlying many of these associations remain unresolved. Here, we integrated expression quantitative trait locus (eQTL) data with AMD GWAS to prioritize nine putative genes. Through in vivo screening in zebrafish, we demonstrated that the downregulation of cnn2 and sarm1 expression led to ocular structural abnormalities and visual functional impairment. Subsequent mouse model studies confirmed that Cnn2 deficiency affected photoreceptor structure and function, impaired contrast sensitivity, and caused abnormalities in cone cell immunostaining. Given that CNN2 is predominantly expressed in endothelial cells, we propose that endothelial dysfunction may cascade to impair photoreceptor function. Collectively, through in silico prioritization and cross-species functional characterization, we identify CNN2 as a candidate susceptibility gene in AMD pathogenesis, providing vital underlying mechanistic insights.

Animals↗
PubMedDate not supplied

A long-term toxicity test comprising reproduction and growth of zebrafish with 4-chloroaniline.

This study describes a long-term test over three generations, using zebrafish (Brachydanio rerio) as the test species and concentrations of 1, 0.2, and 0.04 mg/L 4-chloroaniline (CA) as a model substance. The effect of the compound on the ecologically important parameters reproduction and growth was the focus of interest. Reduction in egg release by fish raised under CA was the most sensitive parameter in the test. Compared to the toxic threshold concentration for growth (0.4 mg/L), egg release was affected by a ten-fold lower concentration (0.04 mg/L). This study demonstrates that a long-term test is still the most appropriate method to assess the chronic toxicity of a substance on fish. A chronic toxicity test is proposed which comprises two generations, with the zebrafish as test species.

Aniline Compounds↗