Abstract:The master circadian clock in fish has been considered to reside in the pineal gland. This dogma is challenged, however, by the finding that most zebrafish tissues contain molecular clocks that are directly reset by light. To further examine the role of the pineal gland oscillator in the zebrafish circadian system, we generated a transgenic line in which the molecular clock is selectively blocked in the melatonin-producing cells of the pineal gland by a dominant-negative strategy. As a result, clock-controlled… Show more
“…In judging the utility and accuracy of the RNA‐Seq data, it should be noted that there is good agreement with data from other methods for the analysis of pineal gland and retina material, including microarray, Northern blot and qRT‐PCR as regards day/night differences 5‐13 . Accordingly, the RNA‐Seq data can be viewed as highly useful and reliable.…”
Section: Discussionmentioning
confidence: 60%
“…The pineal transcriptome has been studied for over 30 years, starting with Northern blot detection of single transcripts encoding proteins involved in melatonin synthesis, including those encoding Tph1 and Asmt (Hiomt) 1‐4 . Since then, pineal transcriptomics has spanned the development of transcriptomic assays including cDNA‐based hybridization technology, qRT‐PCR, and RNA‐Seq 5‐15 …”
The website and database https://snengs.nichd.nih.gov provides RNA sequencing data from multi‐species analysis of the pineal glands from zebrafish (Danio rerio), chicken (White Leghorn), rat (Rattus novegicus), mouse (Mus musculus), rhesus macaque (Macaca mulatta), and human (Homo sapiens); in most cases, retinal data are also included along with results of the analysis of a mixture of RNA from tissues. Studies cover day and night conditions; in addition, a time series over multiple hours, a developmental time series and pharmacological experiments on rats are included. The data have been uniformly re‐processed using the latest methods and assemblies to allow for comparisons between experiments and to reduce processing differences. The website presents search functionality, graphical representations, Excel tables, and track hubs of all data for detailed visualization in the UCSC Genome Browser. As more data are collected from investigators and improved genomes become available in the future, the website will be updated. This database is in the public domain and elements can be reproduced by citing the URL and this report. This effort makes the results of 21st century transcriptome profiling widely available in a user‐friendly format that is expected to broadly influence pineal research.
“…In judging the utility and accuracy of the RNA‐Seq data, it should be noted that there is good agreement with data from other methods for the analysis of pineal gland and retina material, including microarray, Northern blot and qRT‐PCR as regards day/night differences 5‐13 . Accordingly, the RNA‐Seq data can be viewed as highly useful and reliable.…”
Section: Discussionmentioning
confidence: 60%
“…The pineal transcriptome has been studied for over 30 years, starting with Northern blot detection of single transcripts encoding proteins involved in melatonin synthesis, including those encoding Tph1 and Asmt (Hiomt) 1‐4 . Since then, pineal transcriptomics has spanned the development of transcriptomic assays including cDNA‐based hybridization technology, qRT‐PCR, and RNA‐Seq 5‐15 …”
The website and database https://snengs.nichd.nih.gov provides RNA sequencing data from multi‐species analysis of the pineal glands from zebrafish (Danio rerio), chicken (White Leghorn), rat (Rattus novegicus), mouse (Mus musculus), rhesus macaque (Macaca mulatta), and human (Homo sapiens); in most cases, retinal data are also included along with results of the analysis of a mixture of RNA from tissues. Studies cover day and night conditions; in addition, a time series over multiple hours, a developmental time series and pharmacological experiments on rats are included. The data have been uniformly re‐processed using the latest methods and assemblies to allow for comparisons between experiments and to reduce processing differences. The website presents search functionality, graphical representations, Excel tables, and track hubs of all data for detailed visualization in the UCSC Genome Browser. As more data are collected from investigators and improved genomes become available in the future, the website will be updated. This database is in the public domain and elements can be reproduced by citing the URL and this report. This effort makes the results of 21st century transcriptome profiling widely available in a user‐friendly format that is expected to broadly influence pineal research.
Small teleost fish including zebrafish and medaka have been used as animal models for research because of their small body size, vast amounts of eggs produced, their rapid development, low husbandry costs, and transparency during embryogenesis. Although the body size and appearance seem different, fish and mammals including human still possess anatomical and functional similarities in their brains. This review summarizes the similarities of brain structures and functions between teleost fish and mammalian brains, focusing on the dopamine system, functional regionalization of the cerebellum, and presence of the nucleus ruber.
“…This research avenue was extended to describe the entire light-induced transcriptome of the zebrafish pineal gland, resulting in functional analysis of light-induced genes and their molecular and behavioral consequences (Ben-Moshe et al, 2014a). A major current and future focus in Gothilf's lab is the importance of the central clock within the pineal gland and other brain centers, and of peripheral clocks, for the functioning of the entire circadian timing system (Ben-Moshe et al, 2016).…”
The zebrafish has become a model of choice in fundamental and applied life sciences and is widely used in various fields of biomedical research as a human disease model for cancer, metabolic and neurodegenerative diseases, and regenerative medicine. The transparency of the zebrafish embryo allows real-time visualization of the development and morphogenesis of practically all of its tissues and organs. Zebrafish are amenable to genetic manipulation, for which innovative genetic and molecular techniques are constantly being introduced. These include the study of gene function and regulation using gene knockdown, knockout and knock-in, as well as transgenesis and tissue-specific genetic perturbations. Complementing this genetic toolbox, the zebrafish exhibits measurable behavioral and hormonal responses already at the larval stages, providing a viable vertebrate animal model for high-throughput drug screening and chemical genetics. With the available tools of the genomic era and the abundance of disease-associated human genes yet to be explored, the zebrafish model is becoming the preferred choice in many studies. Its advantages and potential are being increasingly recognized within the Israeli scientific community, and its use as a model system for basic and applied science has expanded in Israel in recent years. Since the first zebrafish-focused laboratory was introduced at Tel Aviv University 16 years ago, seven more zebrafish-centric research groups have been established, along with more than two dozen academic research groups and three bio-medical companies that are now utilizing this model.
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