Cerveau, Nicolas Marcel

[["dc.bibliographiccitation.firstpage","2959"],["dc.bibliographiccitation.issue","11"],["dc.bibliographiccitation.journal","Molecular Biology and Evolution"],["dc.bibliographiccitation.lastpage","2969"],["dc.bibliographiccitation.volume","34"],["dc.contributor.author","Jackson, Daniel J."],["dc.contributor.author","Reim, Laurin"],["dc.contributor.author","Randow, Clemens"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Degnan, Bernard M."],["dc.contributor.author","Fleck, Claudia"],["dc.date.accessioned","2020-12-10T18:19:33Z"],["dc.date.available","2020-12-10T18:19:33Z"],["dc.date.issued","2017"],["dc.identifier.doi","10.1093/molbev/msx232"],["dc.identifier.eissn","1537-1719"],["dc.identifier.issn","0737-4038"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/75288"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Variation in Orthologous Shell-Forming Proteins Contribute to Molluscan Shell Diversity"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","81"],["dc.bibliographiccitation.journal","Frontiers in Marine Science"],["dc.bibliographiccitation.volume","4"],["dc.contributor.author","Germer, Juliane"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Jackson, Daniel J."],["dc.date.accessioned","2019-07-09T11:43:18Z"],["dc.date.available","2019-07-09T11:43:18Z"],["dc.date.issued","2017"],["dc.description.abstract","djackso@uni-goettingen.de Specialty section: This article was submitted to Aquatic Microbiology, a section of the journal Frontiers in Marine Science Received: 31 October 2016 Accepted: 10 March 2017 Published: 28 March 2017 Citation: Germer J, Cerveau N and Jackson DJ (2017) The Holo-Transcriptome of a Calcified Early Branching Metazoan. Front. Mar. Sci. 4:81. doi: 10.3389/fmars.2017.00081 The Holo-Transcriptome of a Calcified Early Branching Metazoan Juliane Germer, Nicolas Cerveau and Daniel J. Jackson Department of Geobiology, Georg-August University of Göttingen, Göttingen, Germany Symbiotic interactions are widespread throughout the animal kingdom and are increasingly recognized as an important trait that can shape the evolution of a species. Sponges are widely understood to be the earliest branching clade of metazoans and often contain dense, diverse yet specific microbial communities which can constitute up to 50% of their biomass. These bacterial communities fulfill diverse functions influencing the sponge’s physiology and ecology, and may have greatly contributed to the evolutionary success of the Porifera. Here we have analyzed and characterized the holo-transcriptome of the hypercalcifying demosponge Vaceletia sp. and compare it to other sponge transcriptomic and genomic data. Vaceletia sp. harbors a diverse and abundant microbial community; by identifying the underlying molecular mechanism of a variety of lipid pathway components we show that the sponge seems to rely on the supply of short chain fatty acids by its bacterial community. Comparisons to other sponges reveal that this dependency may be more pronounced in sponges with an abundant microbial community. Furthermore, the presence of bacterial polyketide synthase genes suggests bacteria are the producers of Vaceletia’s abundant mid-chain branched fatty acids, whereas demospongic acids may be produced by the sponge host via elongation and desaturation of short-chain precursors. We show that the sponge and its microbial community have the molecular tools to interact through different mechanisms including the sponge’s immune system, and the presence of eukaryotic-like proteins in bacteria. These results expand our knowledge of the complex gene repertoire of sponges and show the importance of metabolic interactions between sponges and their endobiotic microbial communities."],["dc.identifier.doi","10.3389/fmars.2017.00081"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/14420"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/58857"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation.issn","2296-7745"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0/"],["dc.title","The Holo-Transcriptome of a Calcified Early Branching Metazoan"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","e0201396"],["dc.bibliographiccitation.issue","8"],["dc.bibliographiccitation.journal","PLOS ONE"],["dc.bibliographiccitation.volume","13"],["dc.contributor.author","Affenzeller, Susanne"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Jackson, Daniel John"],["dc.date.accessioned","2019-07-09T11:46:04Z"],["dc.date.available","2019-07-09T11:46:04Z"],["dc.date.issued","2018"],["dc.description.abstract","Identifying and understanding mechanisms that generate phenotypic diversity is a fundamental goal of evolutionary biology. With a diversity of pigmented shell morphotypes governed by Mendelian patterns of inheritance, the common grove snail Cepaea nemoralis (Linnaeus, 1758) has been a model for evolutionary biologists and population geneticists for decades. However, the genetic mechanisms by which C. nemoralis generates this pigmented shell diversity remain unknown. An important first step in investigating this pigmentation pattern is to establish a set of validated reference genes for differential gene expression assays. Here we have evaluated eleven candidate genes for reverse transcription quantitative polymerase chain reaction (qPCR) in C. nemoralis. Five of these were housekeeping genes traditionally employed as qPCR reference genes in other species, while six alternative genes were selected de novo from C. nemoralis transcriptome data based on the stability of their expression levels. We tested all eleven candidates for expression stability in four sub-adult tissues of C. nemoralis: pigmented mantle, unpigmented mantle, head and foot. We find that two commonly employed housekeeping genes (alpha tubulin, glyceraldehyde 3-phosphate dehydrogenase) are unsuitable for use as qPCR reference genes in C. nemoralis. The traditional housekeeping gene UBIquitin on the other hand performed very well. Additionally, an RNAdirected DNA polymerase (RNAP), a Potassium Channel Protein (KCHP) and a Prenylated Rab acceptor protein 1 (PRAP), identified de novo from transcriptomic data, were the most stably expressed genes in different tissue combinations. We also tested expression stability over two seasons and found that, although other genes are more stable within a single season, beta actin (BACT) and elongation factor 1 alpha (EF1α) were the most reliable reference genes across seasons."],["dc.identifier.doi","10.1371/journal.pone.0201396"],["dc.identifier.pmid","30157182"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15393"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15688"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/59376"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.subject.ddc","550"],["dc.title","Identification and validation of reference genes for qPCR in the terrestrial gastropod Cepaea nemoralis"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","71"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Gene"],["dc.bibliographiccitation.lastpage","77"],["dc.bibliographiccitation.volume","540"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Bouchon, Didier"],["dc.contributor.author","Bergès, Thierry"],["dc.contributor.author","Grève, Pierre"],["dc.date.accessioned","2021-06-01T10:49:37Z"],["dc.date.available","2021-06-01T10:49:37Z"],["dc.date.issued","2014"],["dc.identifier.doi","10.1016/j.gene.2014.02.024"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/86356"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-425"],["dc.relation.issn","0378-1119"],["dc.title","Molecular evolution of the androgenic hormone in terrestrial isopods"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","9"],["dc.bibliographiccitation.journal","General and Comparative Endocrinology"],["dc.bibliographiccitation.lastpage","19"],["dc.bibliographiccitation.volume","272"],["dc.contributor.author","Herran, Benjamin"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Houdelet, Camille"],["dc.contributor.author","Bernier, Clémentine"],["dc.contributor.author","Debenest, Catherine"],["dc.contributor.author","Delaunay, Carine"],["dc.contributor.author","Raimond, Maryline"],["dc.contributor.author","Bertaux, Joanne"],["dc.contributor.author","Grève, Pierre"],["dc.date.accessioned","2020-12-10T15:21:47Z"],["dc.date.available","2020-12-10T15:21:47Z"],["dc.date.issued","2019"],["dc.identifier.doi","10.1016/j.ygcen.2018.11.006"],["dc.identifier.issn","0016-6480"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/73159"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","IGFBP-rP1, a strongly conserved member of the androgenic hormone signalling pathway in Isopoda"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","International Journal of Speleology"],["dc.bibliographiccitation.lastpage","14"],["dc.bibliographiccitation.volume","50"],["dc.contributor.author","Montanari, Alessandro"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Fiasca, Barbara"],["dc.contributor.author","Flot, Jean-François"],["dc.contributor.author","Galassi, Diana"],["dc.contributor.author","Mainiero, Maurizio"],["dc.contributor.author","McGee, David"],["dc.contributor.author","Namiotko, Tadeusz"],["dc.contributor.author","Recanatini, Stefano"],["dc.contributor.author","Stoch, Fabio"],["dc.date.accessioned","2021-04-14T08:29:35Z"],["dc.date.available","2021-04-14T08:29:35Z"],["dc.date.issued","2021"],["dc.identifier.doi","10.5038/1827-806X.50.1.2342"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/82937"],["dc.notes.intern","DOI Import GROB-399"],["dc.relation.eissn","1827-806X"],["dc.relation.issn","0392-6672"],["dc.title","Stygobitic crustaceans in an anchialine cave with an archeological heritage at Vodeni Rat (Island of Sveti Klement, Hvar, Croatia)"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","4"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Mobile DNA"],["dc.bibliographiccitation.volume","5"],["dc.contributor.author","Dupeyron, Mathilde"],["dc.contributor.author","Leclercq, Sébastien"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Bouchon, Didier"],["dc.contributor.author","Gilbert, Clément"],["dc.date.accessioned","2019-07-09T11:39:42Z"],["dc.date.available","2019-07-09T11:39:42Z"],["dc.date.issued","2014"],["dc.description.abstract","Background Horizontal transfer of transposable elements (HTT) is increasingly appreciated as an important source of genome and species evolution in eukaryotes. However, our understanding of HTT dynamics is still poor in eukaryotes because the diversity of species for which whole genome sequences are available is biased and does not reflect the global eukaryote diversity. Results In this study we characterized two Mariner transposable elements (TEs) in the genome of several terrestrial crustacean isopods, a group of animals particularly underrepresented in genome databases. The two elements have a patchy distribution in the arthropod tree and they are highly similar (>93% over the entire length of the element) to insect TEs (Diptera and Hymenoptera), some of which were previously described in Ceratitis rosa (Crmar2) and Drosophila biarmipes (Mariner-5_Dbi). In addition, phylogenetic analyses and comparisons of TE versus orthologous gene distances at various phylogenetic levels revealed that the taxonomic distribution of the two elements is incompatible with vertical inheritance. Conclusions We conclude that the two Mariner TEs each underwent at least three HTT events. Both elements were transferred once between isopod crustaceans and insects and at least once between isopod crustacean species. Crmar2 was also transferred between tephritid and drosophilid flies and Mariner-5 underwent HT between hymenopterans and dipterans. We demonstrate that these various HTTs took place recently (most likely within the last 3 million years), and propose iridoviruses and/or Wolbachia endosymbionts as potential vectors of these transfers."],["dc.identifier.doi","10.1186/1759-8753-5-4"],["dc.identifier.pmid","24472097"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/10054"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/58026"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation.orgunit","Fakultät für Geowissenschaften und Geographie"],["dc.rights","CC BY 2.0"],["dc.rights.uri","http://creativecommons.org/licenses/by/2.0"],["dc.title","Horizontal transfer of transposons between and within crustaceans and insects"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","11"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Proteome Science"],["dc.bibliographiccitation.volume","16"],["dc.contributor.author","Mann, Karlheinz"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Gummich, Meike"],["dc.contributor.author","Fritz, Monika"],["dc.contributor.author","Mann, Matthias"],["dc.contributor.author","Jackson, Daniel J"],["dc.date.accessioned","2019-07-09T11:45:31Z"],["dc.date.available","2019-07-09T11:45:31Z"],["dc.date.issued","2018"],["dc.description.abstract","Abstract Background The shells of various Haliotis species have served as models of invertebrate biomineralization and physical shell properties for more than 20 years. A focus of this research has been the nacreous inner layer of the shell with its conspicuous arrangement of aragonite platelets, resembling in cross-section a brick-and-mortar wall. In comparison, the outer, less stable, calcitic prismatic layer has received much less attention. One of the first molluscan shell proteins to be characterized at the molecular level was Lustrin A, a component of the nacreous organic matrix of Haliotis rufescens. This was soon followed by the C-type lectin perlucin and the growth factor-binding perlustrin, both isolated from H. laevigata nacre, and the crystal growth-modulating AP7 and AP24, isolated from H. rufescens nacre. Mass spectrometry-based proteomics was subsequently applied to to Haliotis biomineralization research with the analysis of the H. asinina shell matrix and yielded 14 different shell-associated proteins. That study was the most comprehensive for a Haliotis species to date. Methods The shell proteomes of nacre and prismatic layer of the marine gastropod Haliotis laevigata were analyzed combining mass spectrometry-based proteomics and next generation sequencing. Results We identified 297 proteins from the nacreous shell layer and 350 proteins from the prismatic shell layer from the green lip abalone H. laevigata. Considering the overlap between the two sets we identified a total of 448 proteins. Fifty-one nacre proteins and 43 prismatic layer proteins were defined as major proteins based on their abundance at more than 0.2% of the total. The remaining proteins occurred at low abundance and may not play any significant role in shell fabrication. The overlap of major proteins between the two shell layers was 17, amounting to a total of 77 major proteins. Conclusions The H. laevigata shell proteome shares moderate sequence similarity at the protein level with other gastropod, bivalve and more distantly related invertebrate biomineralising proteomes. Features conserved in H. laevigata and other molluscan shell proteomes include short repetitive sequences of low complexity predicted to lack intrinsic three-dimensional structure, and domains such as tyrosinase, chitin-binding, and carbonic anhydrase. This catalogue of H. laevigata shell proteins represents the most comprehensive for a haliotid and should support future efforts to elucidate the molecular mechanisms of shell assembly."],["dc.identifier.doi","10.1186/s12953-018-0139-3"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15237"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/59249"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.publisher","BioMed Central"],["dc.relation.orgunit","Fakultät für Geowissenschaften und Geographie"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0/"],["dc.title","In-depth proteomic analyses of Haliotis laevigata (greenlip abalone) nacre and prismatic organic shell matrix"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","525"],["dc.bibliographiccitation.journal","BMC Bioinformatics"],["dc.bibliographiccitation.volume","17"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Jackson, Daniel John"],["dc.date.accessioned","2018-11-07T10:04:34Z"],["dc.date.available","2018-11-07T10:04:34Z"],["dc.date.issued","2016"],["dc.description.abstract","Background: Next-generation sequencing (NGS) technologies are arguably the most revolutionary technical development to join the list of tools available to molecular biologists since PCR. For researchers working with nonconventional model organisms one major problem with the currently dominant NGS platform (Illumina) stems from the obligatory fragmentation of nucleic acid material that occurs prior to sequencing during library preparation. This step creates a significant bioinformatic challenge for accurate de novo assembly of novel transcriptome data. This challenge becomes apparent when a variety of modern assembly tools (of which there is no shortage) are applied to the same raw NGS dataset. With the same assembly parameters these tools can generate markedly different assembly outputs. Results: In this study we present an approach that generates an optimized consensus de novo assembly of eukaryotic coding transcriptomes. This approach does not represent a new assembler, rather it combines the outputs of a variety of established assembly packages, and removes redundancy via a series of clustering steps. We test and validate our approach using Illumina datasets from six phylogenetically diverse eukaryotes (three metazoans, two plants and a yeast) and two simulated datasets derived from metazoan reference genome annotations. All of these datasets were assembled using three currently popular assembly packages (CLC, Trinity and IDBA-tran). In addition, we experimentally demonstrate that transcripts unique to one particular assembly package are likely to be bioinformatic artefacts. For all eight datasets our pipeline generates more concise transcriptomes that in fact possess more unique annotatable protein domains than any of the three individual assemblers we employed. Another measure of assembly completeness (using the purpose built BUSCO databases) also confirmed that our approach yields more information. Conclusions: Our approach yields coding transcriptome assemblies that are more likely to be closer to biological reality than any of the three individual assembly packages we investigated. This approach (freely available as a simple perl script) will be of use to researchers working with species for which there is little or no reference data against which the assembly of a transcriptome can be performed."],["dc.description.sponsorship","Deutsche Forschungsgemeinschaft [JA 2108/1-2]"],["dc.identifier.doi","10.1186/s12859-016-1406-x"],["dc.identifier.isi","000389958300001"],["dc.identifier.pmid","27938328"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/13937"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/38723"],["dc.notes.intern","Merged from goescholar"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Biomed Central Ltd"],["dc.relation.issn","1471-2105"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0/"],["dc.title","Combining independent de novo assemblies optimizes the coding transcriptome for nonconventional model eukaryotic organisms"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.journal","Cellular Microbiology"],["dc.contributor.author","Herran, Benjamin"],["dc.contributor.author","Houdelet, Camille"],["dc.contributor.author","Raimond, Maryline"],["dc.contributor.author","Delaunay, Carine"],["dc.contributor.author","Cerveau, Nicolas"],["dc.contributor.author","Debenest, Catherine"],["dc.contributor.author","Grève, Pierre"],["dc.contributor.author","Bertaux, Joanne"],["dc.date.accessioned","2021-09-01T06:38:35Z"],["dc.date.available","2021-09-01T06:38:35Z"],["dc.date.issued","2021"],["dc.identifier.doi","10.1111/cmi.13381"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/88966"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-455"],["dc.relation.eissn","1462-5822"],["dc.relation.issn","1462-5814"],["dc.title","Feminising Wolbachia disrupt Armadillidium vulgare insulin‐like signalling pathway"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]