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      Tools for Gene-Regulatory Analyses in the Marine Annelid Platynereis dumerilii

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          Abstract

          The advent of high-throughput sequencing technology facilitates the exploration of a variety of reference species outside the few established molecular genetic model systems. Bioinformatic and gene expression analyses provide new ways for comparative analyses between species, for instance, in the field of evolution and development. Despite these advances, a critical bottleneck for the exploration of new model species remains the establishment of functional tools, such as the ability to experimentally express genes in specific cells of an organism. We recently established a first transgenic strain of the annelid Platynereis, using a Tc1/mariner-type Mos1 transposon vector. Here, we compare Mos1 with Tol2, a member of the hAT family of transposons. In Platynereis, Tol2-based constructs showed a higher frequency of nuclear genome insertion and sustained gene expression in the G0 generation. However, in contrast to Mos1-mediated transgenes, Tol2-mediated insertions failed to retain fluorescence in the G1 generation, suggesting a germ line-based silencing mechanism. Furthermore, we present three novel expression constructs that were generated by a simple fusion-PCR approach and allow either ubiquitous or cell-specific expression of a reporter gene. Our study indicates the versatility of Tol2 for transient transgenesis, and provides a template for transgenesis work in other emerging reference species.

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          The Tol2kit: a multisite gateway-based construction kit for Tol2 transposon transgenesis constructs.

          Transgenesis is an important tool for assessing gene function. In zebrafish, transgenesis has suffered from three problems: the labor of building complex expression constructs using conventional subcloning; low transgenesis efficiency, leading to mosaicism in transient transgenics and infrequent germline incorporation; and difficulty in identifying germline integrations unless using a fluorescent marker transgene. The Tol2kit system uses site-specific recombination-based cloning (multisite Gateway technology) to allow quick, modular assembly of [promoter]-[coding sequence]-[3' tag] constructs in a Tol2 transposon backbone. It includes a destination vector with a cmlc2:EGFP (enhanced green fluorescent protein) transgenesis marker and a variety of widely useful entry clones, including hsp70 and beta-actin promoters; cytoplasmic, nuclear, and membrane-localized fluorescent proteins; and internal ribosome entry sequence-driven EGFP cassettes for bicistronic expression. The Tol2kit greatly facilitates zebrafish transgenesis, simplifies the sharing of clones, and enables large-scale projects testing the functions of libraries of regulatory or coding sequences. Copyright 2007 Wiley-Liss, Inc.
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            Using FlyAtlas to identify better Drosophila melanogaster models of human disease.

            FlyAtlas, a new online resource, provides the most comprehensive view yet of expression in multiple tissues of Drosophila melanogaster. Meta-analysis of the data shows that a significant fraction of the genome is expressed with great tissue specificity in the adult, demonstrating the need for the functional genomic community to embrace a wide range of functional phenotypes. Well-known developmental genes are often reused in surprising tissues in the adult, suggesting new functions. The homologs of many human genetic disease loci show selective expression in the Drosophila tissues analogous to the affected human tissues, providing a useful filter for potential candidate genes. Additionally, the contributions of each tissue to the whole-fly array signal can be calculated, demonstrating the limitations of whole-organism approaches to functional genomics and allowing modeling of a simple tissue fractionation procedure that should improve detection of weak or tissue-specific signals.
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              The Schistosoma japonicum genome reveals features of host-parasite interplay.

              (2009)
              Schistosoma japonicum is a parasitic flatworm that causes human schistosomiasis, which is a significant cause of morbidity in China and the Philippines. Here we present a draft genomic sequence for the worm. The genome provides a global insight into the molecular architecture and host interaction of this complex metazoan pathogen, revealing that it can exploit host nutrients, neuroendocrine hormones and signalling pathways for growth, development and maturation. Having a complex nervous system and a well-developed sensory system, S. japonicum can accept stimulation of the corresponding ligands as a physiological response to different environments, such as fresh water or the tissues of its intermediate and mammalian hosts. Numerous proteases, including cercarial elastase, are implicated in mammalian skin penetration and haemoglobin degradation. The genomic information will serve as a valuable platform to facilitate development of new interventions for schistosomiasis control.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, USA )
                1932-6203
                2014
                8 April 2014
                : 9
                : 4
                : e93076
                Affiliations
                [1 ]Max Ferdinand Perutz Laboratories (MFPL), University of Vienna, Vienna, Austria
                [2 ]Research Platform “Marine Rhythms of Life,” University of Vienna, Vienna, Austria
                [3 ]Department of Embryology, St. Petersburg State University, St. Petersburg, Russia
                Institute of Molecular and Cell Biology, Singapore
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                Conceived and designed the experiments: FR KT-R. Performed the experiments: BB VVK. Analyzed the data: BB VVK KT-R FR. Contributed reagents/materials/analysis tools: SK. Wrote the paper: KT-R FR.

                Current address: Centre for Organismal Studies, University of Heidelberg, Heidelberg, Germany

                Article
                PONE-D-13-12642
                10.1371/journal.pone.0093076
                3979674
                24714200
                ea0c60ac-d4ac-4493-a6ff-7b87ac1a3725
                Copyright @ 2014

                This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 26 March 2013
                : 3 March 2014
                Page count
                Pages: 11
                Funding
                Our work was supported by the Research Platform “Marine Rhythms of Life” as well as start-up funds of the University of Vienna (to F.R. and K.T.-R.), and the Research the Austrian Science Fund (FWF): AY0041321 (to K.T.-R.). The research leading to these results has received funding from the European Research Council under the European Community’s Seventh Framework Programme (FP7/2007–2013)/ERC Grant Agreement 260304 (to F.R.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Biology and life sciences
                Cell Biology
                Molecular Cell Biology
                Developmental Biology
                Evolutionary Developmental Biology
                Genetics
                Genetic elements
                Mobile genetic elements
                Transposable elements
                DNA transposons
                Gene expression
                DNA transcription
                Evolutionary Biology
                Marine Biology
                Marine Technology
                Earth Sciences
                Marine and Aquatic Sciences
                Research and Analysis Methods
                Model Organisms
                Animal Models

                Uncategorized
                Uncategorized

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