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dc.contributor.authorKenny, NJ
dc.contributor.authorde Goeij, JM
dc.contributor.authorde Bakker, DM
dc.contributor.authorWhalen, CG
dc.contributor.authorBerezikov, E
dc.contributor.authorRiesgo, A
dc.date.accessioned2019-05-29T14:39:32Z
dc.date.available2019-05-29T14:39:32Z
dc.date.issued2018-02
dc.date.submitted2018-07-27
dc.identifier.citationNathan J. Kenny, Jasper M. de Goeij, Didier M. de Bakker, Casey G. Whalen, Eugene Berezikov, Ana Riesgo, Towards the identification of ancestrally shared regenerative mechanisms across the Metazoa: A Transcriptomic case study in the Demosponge Halisarca caerulea, Marine Genomics, Volume 37, 2018, Pages 135-147,doi:10.1016/j.margen.2017.11.001.en_US
dc.identifier.issn1874-7787
dc.identifier.doi10.1016/j.margen.2017.11.001
dc.identifier.urihttp://hdl.handle.net/10141/622525
dc.descriptionpublisher: Elsevier articletitle: Towards the identification of ancestrally shared regenerative mechanisms across the Metazoa: A Transcriptomic case study in the Demosponge Halisarca caerulea journaltitle: Marine Genomics articlelink: http://dx.doi.org/10.1016/j.margen.2017.11.001 content_type: article copyright: © 2017 Elsevier B.V. All rights reserved.en_US
dc.description.abstractRegeneration is an essential process for all multicellular organisms, allowing them to recover effectively from internal and external injury. This process has been studied extensively in a medical context in vertebrates, with pathways often investigated mechanistically, both to derive increased understanding and as potential drug targets for therapy. Several species from other parts of the metazoan tree of life, including Hydra, planarians and echinoderms, noted for their regenerative capabilities, have previously been targeted for study. Less well-documented for their regenerative abilities are sponges. This is surprising, as they are both one of the earliest-branching extant metazoan phyla on Earth, and are rapidly able to respond to injury. Their sessile lifestyle, lack of an external protective layer, inability to respond to predation and filter-feeding strategy all mean that regeneration is often required. In particular the demosponge genus Halisarca has been noted for its fast cell turnover and ability to quickly adjust its cell kinetic properties to repair damage through regeneration. However, while the rate and structure of regeneration in sponges has begun to be investigated, the molecular mechanisms behind this ability are yet to be catalogued. Here we describe the assembly of a reference transcriptome for Halisarca caerulea, along with additional transcriptomes noting response to injury before, shortly following (2 h post-), and 12 h after trauma. RNAseq reads were assembled using Trinity, annotated, and samples compared, to allow initial insight into the transcriptomic basis of sponge regenerative processes. These resources are deep, with our reference assembly containing > 92.6% of the BUSCO Metazoa set of genes, and well-assembled (N50s of 836, 957, 1688 and 2032 for untreated, 2 h, 12 h and reference transcriptomes respectively), and therefore represent excellent qualitative resources as a bedrock for future study. The generation of transcriptomic resources from sponges before and following deliberate damage has allowed us to study particular pathways within this species responsible for repairing damage. We note particularly the involvement of the Wnt cascades in this process in this species, and detail the contents of this cascade, along with cell cycle, extracellular matrix and apoptosis-linked genes in this work. This resource represents an initial starting point for the continued development of this knowledge, given H. caerulea's ability to regenerate and position as an outgroup for comparing the process of regeneration across metazoan lineages. With this resource in place, we can begin to infer the regenerative capacity of the common ancestor of all extant animal life, and unravel the elements of regeneration in an often-overlooked clade.en_US
dc.publisherElsevieren_US
dc.relation.urihttps://www.biorxiv.org/content/early/2017/07/07/160689en_US
dc.rightsopenAccessen_US
dc.titleTowards the identification of ancestrally shared regenerative mechanisms across the Metazoa: A Transcriptomic case study in the Demosponge Halisarca caeruleaen_US
dc.typeJournal Articleen_US
dc.identifier.journalMarine Genomicsen_US
dc.identifier.volume37en_US
dc.identifier.startpage135 - 147en_US
pubs.organisational-group/Natural History Museum
pubs.organisational-group/Natural History Museum/Science Group
pubs.organisational-group/Natural History Museum/Science Group/Functional groups
pubs.organisational-group/Natural History Museum/Science Group/Functional groups/Other Support
pubs.organisational-group/Natural History Museum/Science Group/Functional groups/Research
pubs.organisational-group/Natural History Museum/Science Group/Functional groups/Research/LS Research
pubs.organisational-group/Natural History Museum/Science Group/Life Sciences
dc.embargoNot knownen_US
elements.import.authorKenny, NJen_US
elements.import.authorde Goeij, JMen_US
elements.import.authorde Bakker, DMen_US
elements.import.authorWhalen, CGen_US
elements.import.authorBerezikov, Een_US
elements.import.authorRiesgo, Aen_US
dc.description.nhm© 2017 Elsevier B.V. All rights reserved. The attached document is the authors’ final submitted (pre-refereeing) version of the journal article. You are advised to consult the publisher’s version if you wish to cite from it.en_US
dc.subject.nhmRegenerationen_US
dc.subject.nhmTranscriptomeen_US
dc.subject.nhmHalisarca caeruleaen_US
dc.subject.nhmPoriferaen_US
dc.subject.nhmancestral cassetteen_US
refterms.dateFOA2019-05-29T14:39:32Z


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