Glycoconjugates in the epidermis of Pleurodeles waltii. Ultrastructural aspects of venom secretion in anuran cutaneous glands, pp.
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In: Tu A. Merocrine secretion from serous cutaneous glands in Rana esculenta complex and Rana iberica. Alytes — Integumentary effects of prolactin in the lower vertebrates. Prolactin receptors in the male Rana esculenta. Histology and lectin-binding patterns in the skin of the terrestrial horned frog Ceratophrys ornate. Cell Tissue Res. Hormonal effects on mitotic rhythm in the epidermis of the red-spotted newt. The morphology of the mucous gland and its responses to prolactin in the skin of the red-spotted newt.
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Hormonal control of urodele reproductive behavior. Basic Histology. Temperature and humidity alter prolactin receptor expression in the skin of toad Bufo bankorensis and Bufo melanostictus. Water relations of tetrapod integument. Further study on the changes in the concentration of prolactin-binding sites in different organs of Xenopus laevis male and female, kept under dry conditions and then returned to water their natural habitat. Active peptides in amphibian skin.
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This protein family has five different members in elephant shark: Rhag, Rhbg, Rhcg, Rhp2 and Rhlike, of which only three, Rhag, Rhbg and Rhp2, have been described in spiny dogfish so far [ 14 ]. Our transcriptome analysis predicted proteins with complete sequence identity to these three proteins.
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In addition, we found partial length contigs coding for Rh and a transcript that encoded a putative Rhcg, which sequence has not been previously described in spiny dogfish. This is the first study to generate large-scale NGS data and single tissue transcriptome characterization for the model species Squalus acanthias. We present an extensive multi-tissue transcriptome analysis and the annotation of our assemblies showed that the predicted proteins have a high percentage of significant hits in the SwissProt and UniRef90 databases.
Querying annotation reports provided important new sequence information in genes involved in urea-based osmoregulation, a scientific field where elasmobranchs and particularly spiny dogfish as an animal model are of great interest. Taken together, our data collected provides a new resource as well as an extended catalogue of genes involved in osmoregulation in spiny dogfish. Due to the detailed annotation generated, the same approach would be suitable to extract sequence information related to other areas of biological interests. Consequently, we believe the data generated will be of great support for the ongoing research in elasmobranchs and in spiny dogfish shark, particularly.
It is important to emphasize that the shark did not get euthanized as part of this investigation and that the tissue material became opportunistically available for research. Thus, no ethical approval or permit for animal experimentation was required, as the individual was not sacrificed specifically for this study.
Libraries were prepared with a selected insert size of bp using ScriptSeq v2 RNA-Seq Library Preparation Kit Epicentre for strand-specific and multiplexed libraries following manufacturer instructions. Paired-end sequencing was performed on the Illumina HiSeq platform to a read length of bp. De-multiplexing was performed with Illumina software allowing zero mismatches in the barcode. The reads that did not map to these indexes were considered non-ribosomal and non-mitochondrial and were used for downstream filtering steps. Trimmomatic version 0. High quality paired-end reads were assembled using Trinity software version 2.
For the combined assembly, reads from the four tissues were merged into a single fastq file and assembled together. RSEM version 1. Assemblies were aligned with blastx version ncbi-blast Blastx output was filtered to an e-value of at least 1e Transcripts with zero fragments per kilo base per million reads FPKM , transcripts per million TPM , and IsoPct percentage of the reads that align to each isoform over the reads that aligned to all the gene isoforms were removed. A second filter was performed to remove transcripts shorter than bp.
Tabulated expression values for the genes of each tissue are available to allow more stringent filtering S9 , S10 , S11 and S12 Files. Trinotate version 2. In order to annotate the transcriptome, SwissProt, Uniref 90, Pfam databases and the Trinotate boilerplate compatible with those databases and Trinotate v2. Additionally, ncbi-blast Finally, the annotation reports for the assemblies were generated using an e-value cutoff of 1e and the per domain noise score in Pfam as cutoff.
In order to get a reliable set of orthologues between both datasets, only proteins with at least amino acids of length where kept. Finally, Inparanoid version 4. The Venn diagram was generated using Venny 2.
Trimmed alignments were used as input for RaXML version 8. The resulting best trees were visualized with FigTree version 1. Groups were identified by Inparanoid after redundancy removal between elephant shark and spiny dogfish predicted proteins in the different assemblies. The funder had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
National Center for Biotechnology Information , U. PLoS One. Published online Aug Jan K. Peter A. Peng Xu, Editor. Author information Article notes Copyright and License information Disclaimer.
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