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Τύπος: Άρθρο σε επιστημονικό περιοδικό
Τίτλος: A de novo transcriptome assembly for the bath sponge Spongia officinalis, adjusting for microsymbionts
Συγγραφέας: [EL] Μανουσάκη, Τερέζα[EN] Manousaki, Tereza
[EN] Koutsouveli, Vasiliki
[EN] Lagnel, Jacques
[EN] Kollias, Spyridon
[EL] Τσιγκενόπουλος, Κωνσταντίνος[EN] Tsigenopoulos, Constantinos
[EL] Αρβανιτίδης, Χρήστος[EN] Arvanitidis, Christos
[EL] Μαγουλάς, Αντώνιος[EN] Magoulas, Antonios
[EL] Ντούνας, Κωνσταντίνος[EN] Dounas, Costas
[EL] Νταϊλιάνης, Αθανάσιος[EN] Dailianis, Thanos
Ημερομηνία: 18-Δεκ-2019
Περίληψη: Objectives: We report a transcriptome acquisition for the bath sponge Spongia officinalis, a non-model marine organism that hosts rich symbiotic microbial communities. To this end, a pipeline was developed to efficiently separate between bacterial expressed genes from those of eukaryotic origin. The transcriptome was produced to support the assessment of gene expression and, thus, the response of the sponge, to elevated temperatures, replicating conditions currently occurring in its native habitat. Data description: We describe the assembled transcriptome along with the bioinformatic pipeline used to discriminate between signals of metazoan and prokaryotic origin. The pipeline involves standard read pre-processing steps and incorporates extra analyses to identify and filter prokaryotic reads out of the analysis. The proposed pipeline can be followed to overcome the technical RNASeq problems characteristic for symbiont-rich metazoan organisms with low or non-existent tissue differentiation, such as sponges and cnidarians. At the same time, it can be valuable towards the development of approaches for parallel transcriptomic studies of symbiotic communities and the host.
Γλώσσα: Αγγλικά
Σελίδες: 3
DOI: 10.1186/s13104-019-4843-6
ISSN: 1756-0500
Θεματική κατηγορία: [EL] Θαλάσσια βιολογία και Βιολογία γλυκών υδάτων[EN] Marine and Freshwater Biology
Λέξεις-κλειδιά: Poriferamarine invertebrateprokaryotic symbiontsRNAseqheat stressbioinformatics
Κάτοχος πνευματικών δικαιωμάτων: © The Author(s) 2019.
Όροι και προϋποθέσεις δικαιωμάτων: This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativeco mmons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/ zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
Διατίθεται ανοιχτά στην τοποθεσία: https://www.researchgate.net/publication/338028021_A_de_novo_transcriptome_assembly_for_the_bath_sponge_Spongia_officinalis_adjusting_for_microsymbionts
https://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-019-4843-6
Ηλεκτρονική διεύθυνση του τεκμηρίου στον εκδότη: https://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-019-4843-6
Ηλεκτρονική διεύθυνση περιοδικού: https://bmcresnotes.biomedcentral.com
Τίτλος πηγής δημοσίευσης: BMC Research Notes
Τόμος: 12
Σελίδες τεκμηρίου (στην πηγή): Article no 813
Σημειώσεις: This research is co-fnanced by Greece and the European Union (European Social Fund-ESF) through the Operational Programme «Human Resources Development, Education and Lifelong Learning» in the context of the project “Reinforcement of Postdoctoral Researchers” (MIS-5001552 - 7834), implemented by the State Scholarships Foundation (ΙΚΥ). Funding was awarded to the corresponding author in the form of a postdoctoral scholarship.
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