Data from: Assessing the effects of iron enrichment across holobiont compartments reveals reduced microbial nitrogen fixation in the Red Sea coral Pocillopora verrucosaNils Rädecker, Claudia Pogoreutz, Maren Ziegler, Ananya Ashok, Marcelle M. Barreto, Veronica Chaidez, Carsten G. B. Grupstra, Yi Mei Ng, Gabriela Perna, Manuel Aranda & Christian R. Voolstra
The productivity of coral reefs in oligotrophic tropical waters is sustained by an efficient uptake and recycling of nutrients. In reef-building corals, the engineers of these ecosystems, this nutrient recycling is facilitated by a constant exchange of nutrients between the animal host and endosymbiotic photosynthetic dinoflagellates (zooxanthellae), bacteria, and other microbes. Due to the complex interactions in this so-called coral holobiont, it has proven difficult to understand the environmental limitations of productivity in corals. Among...
Data from: Empirical phylogenies and species abundance distributions are consistent with pre-equilibrium dynamics of neutral community models with gene flowAnne-Sophie Bonnet-Lebrun, Andrea Manica, Anders Eriksson, Ana S.L. Rodrigues & Ana S. L. Rodrigues
Community characteristics reflect past ecological and evolutionary dynamics. Here, we investigate whether it is possible to obtain realistically shaped modelled communities – i.e., with phylogenetic trees and species abundance distributions shaped similarly to typical empirical bird and mammal communities – from neutral community models. To test the effect of gene flow, we contrasted two spatially explicit individual-based neutral models: one with protracted speciation, delayed by gene flow, and one with point mutation speciation, unaffected by...
Data from: Pushing the limits of photoreception in twilight conditions: The rod-like cone retina of the deep-sea pearlsidesFanny De Busserolles, Fabio Cortesi, Jon Vidar Helvik, Wayne I. L. Davies, Rachel M. Templin, Robert K. P. Sullivan, Craig T. Michell, Jessica K. Mountford, Shaun P. Collin, Xabier Irigoien, Stein Kaartvedt & Justin Marshall
Most vertebrates have a duplex retina comprising two photoreceptor types, rods for dim-light (scotopic) vision and cones for bright-light (photopic) and color vision. However, deep-sea fishes are only active in dim-light conditions; hence, most species have lost their cones in favor of a simplex retina composed exclusively of rods. Although the pearlsides, Maurolicus spp., have such a pure rod retina, their behavior is at odds with this simplex visual system. Contrary to other deep-sea fishes,...
Data from: Widespread hybridization and bidirectional introgression in sympatric species of coral reef fishHugo B. Harrison, Michael L. Berumen, Pablo Saenz-Agudelo, Eva Salas, David H. Williamson & Geoffrey P. Jones
Coral reefs are highly diverse ecosystems, where numerous closely related species often coexist. How new species arise and are maintained in these high geneflow environments have been long-standing conundrums. Hybridization and patterns of introgression between sympatric species provide a unique insight into the mechanisms of speciation and the maintenance of species boundaries. In this study, we investigate the extent of hybridization between two closely related species of coral reef fish: the common coral trout (Plectropomus...
Data from: Using a butterflyfish genome as a general tool for RAD-Seq studies in specialized reef fishJoseph D. DiBattista, Pablo Saenz-Agudelo, Marek J. Piatek, Xin Wang, Manuel Aranda & Michael L. Berumen
Data from a large-scale restriction site associated DNA (RAD-Seq) study of nine butterflyfish species in the Red Sea and Arabian Sea provided a means to test the utility of a recently published draft genome (Chaetodon austriacus) and assess apparent bias in this method of isolating nuclear loci. We here processed double-digest restriction-site (ddRAD) associated DNA sequencing data to identify single nucleotide polymorphism (SNP) markers and their associated function with and without our reference genome to...
Data from: Particle-association lifestyle is a phylogenetically conserved trait in bathypelagic prokaryotesGuillem Salazar Guiral, Francisco Cornejo-Castillo, Encarna Borrull, Cristina Díez-Vives, Elena Lara, Dolors Vaqué, Jesús Arrieta, Carlos Duarte, Josep Gasol & Silvia Acinas
The free-living (FL) and particle-attached (PA) marine microbial communities have repeatedly been proved to differ in their diversity and composition in the photic ocean and also recently in the bathypelagic ocean at a global scale. However, although high taxonomic ranks have been proved to exhibit preferences for a PA or FL mode of life, it remains poorly understood whether two clear lifestyles do exist and how these are distributed across the prokaryotic phylogeny. We studied...
Data from: Group elicitations yield more consistent, yet more uncertain experts in understanding risks to ecosystem services in New Zealand baysGerald G. Singh, Jim Sinner, Joanne Ellis, Milind Kandlikar, Benjamin S. Halpern, Terre Satterfield & Kai Chan
The elicitation of expert judgment is an important tool for assessment of risks and impacts in environmental management contexts, and especially important as decision-makers face novel challenges where prior empirical research is lacking or insufficient. Evidence-driven elicitation approaches typically involve techniques to derive more accurate probability distributions under fairly specific contexts. Experts are, however, prone to overconfidence in their judgements. Group elicitations with diverse experts can reduce expert overconfidence by allowing cross-examination and reassessment of...
Data from: Entangled fates of holobiont genomes during invasion: nested bacterial and host diversities in Caulerpa taxifoliaSophie Arnaud-Haond, Tania Aires, Rui Candeias, Sara J. L. Teixeira, Carlos M. Duarte, Myriam Valero & Ester A. Serrão
Successful prevention and mitigation of biological invasions requires retracing the initial steps of introduction, as well as understanding key elements enhancing the adaptability of invasive species. We studied the genetic diversity of the green alga Caulerpa taxifolia and its associated bacterial communities in several areas around the world. The striking congruence of α and ß diversity of the algal genome and endophytic communities reveals a tight association, supporting the holobiont concept as best describing the...
Relatively small volumes of water may contain sufﬁcient environmental DNA (eDNA) to detect target aquatic organisms via genetic sequencing. We therefore assessed the utility of eDNA to document the diversity of coral reef fishes in the central Red Sea. DNA from seawater samples was extracted, amplified using fish-specific 16S mitochondrial DNA primers, and sequenced using a metabarcoding workflow. DNA sequences were assigned to taxa using available genetic repositories or custom genetic databases generated from reference...
Data from: Dominance of Endozoicomonas bacteria throughout coral bleaching and mortality suggests structural inflexibility of the Pocillopora verrucosa microbiomeClaudia Pogoreutz, Nils Rädecker, Anny Cardenas, Astrid Gärdes, Christian Wild & Christian R. Voolstra
The functional importance of Symbiodinium algal endosymbionts and a diverse suite of bacteria for coral holobiont health and functioning is widely acknowledged. Yet, we know surprisingly little about microbial community dynamics and the stability of host-microbe associations under adverse environmental conditions. To gain insight into the stability of coral host-microbe associations and holobiont structure, we assessed changes in the community structure of Symbiodinium and bacteria associated with the coral Pocillopora verrucosa under excess organic nutrient...
King Abdullah University of Science and Technology10
University Austral de Chile2
University of Eastern Finland1
Université Paul-Valéry Montpellier1
University of Queensland1
University of Cambridge1
University of Algarve1
Oak Ridge National Laboratory1
University of Oslo1