21 Works

Data for: Concordant phylogeographic responses to large-scale coastal disturbance in intertidal macroalgae and their epibiota

Elahe Parvizi, Ludovic Dutoit, Ceridwen Fraser, Dave Craw & Jonathan Waters
Major ecological disturbance events can provide opportunities to assess multispecies responses to upheaval. In particular, catastrophic disturbances that regionally extirpate habitat-forming species can potentially influence the genetic diversity of large numbers of co-distributed taxa. However, due to the rarity of such disturbance events over ecological timeframes, the genetic dynamics of multispecies recolonization processes have remained little understood. Here we use single nucleotide polymorphism (SNP) data from multiple coastal species to track the dynamics of co-colonization...

Data for: Northward range extension for Durvillaea poha bull kelp: response to tectonic disturbance?

Felix Vaux, Dave Craw, Ceridwen I. Fraser & Jonathan M. Waters
Data for: Vaux F, Craw D, Fraser CI, Waters JM. (2021). Northward range extension for Durvillaea poha bull kelp: response to tectonic disturbance? Journal of Phycology. https://doi.org/10.1111/jpy.13179 Understanding the forces that shape species distributions is increasingly important in a fast-changing world. Although major disturbance events can adversely affect natural populations, they can also present new opportunities, for example by opening up habitat for colonisation by other lineages. Following extensive geographic sampling, we use genomic data...

Data for: The association between personalities, alternative breeding strategies, and reproductive success in dunnocks

Benedikt Holtmann, Carlos E. Lara, Eduardo S. A. Santos, Joanne E. Gillum, Neil J. Gemmell & Shinichi Nakagawa
Although consistent between-individual differences in behaviour (i.e. animal personality) are ubiquitous in natural populations, relatively few studies have examined how personalities influence the formation of social relationships. Yet, behavioural characteristics of both sexes might be key when it comes to pair-bond formation, and the cooperation with partners to successfully rear offspring. We here use a wild population of dunnocks (Prunella modularis) to first investigate whether individuals mate non-randomly (i.e. assortative mating) with regard to four...

Data from: First evidence of deviation from Mendelian proportions in a conservation program

Catherine Grueber, Katherine Farquharson, Belinda Wright, Graham Wallis, Carolyn J. Hogg & Katherine Belov
Classic Mendelian inheritance is the bedrock of population genetics and underpins pedigree-based management of animal populations. However, assumptions of Mendelian inheritance might not be upheld in conservation breeding programs if early viability selection occurs, even when efforts are made to equalise genetic contributions of breeders. To test this possibility, we investigated deviations from Mendelian proportions in a captive meta-population of the endangered Tasmanian devil. This marsupial population is ideal for addressing evolutionary questions in conservation...

Supplementary Material for: Adaptive markers distinguish North and South Pacific Albacore amid low population differentiation

Felix Vaux, Sandra Bohn, John R. Hyde & Kathleen G. O'Malley
Supplementary Material for: Adaptive markers distinguish North and South Pacific Albacore amid low population differentiation Files include a spreadsheet of samples and sequencing success (Appendix S1), a document containing supplementary methods, references, tables and figures (Appendix S2), lists of identified outlier loci per genome scan program (Appendix S3), full pairwise FST results for the 12 sample areas (Appendix S4), and genetic data files (genepop and vcf genotype files, and fasta consensus files for outlier loci)....

Hearing from the ocean and into the river: The evolution of the inner ear of Platanistoidea (Cetacea, Odontoceti)

Mariana Viglino, Maximiliano Gaetán, Mónica R. Buono, R. Ewan Fordyce & Travis Park
The inner ear of the two higher clades of modern cetaceans (Neoceti) is highly adapted for hearing infrasonic (mysticetes) or ultrasonic (odontocetes) frequencies. Within odontocetes, Platanistoidea comprises a single extant riverine representative, Platanista gangetica, and a diversity of mainly extinct marine species from the late Oligocene onward. Recent studies, drawing on features including the disparate tympanoperiotic, have not yet provided a consensus phylogenetic hypothesis for platanistoids. Further, cochlear morphology and evolutionary patterns have never been...

An island-hopping bird reveals how founder events shape genome-wide divergence

Ashley Sendell-Price, Kristen Ruegg, Bruce Robertson & Sonya Clegg
When populations colonise new areas, both strong selection and strong drift can be experienced due to novel environments and small founding populations, respectively. Empirical studies have predominantly focused on the phenotype when assessing the role of selection, and limited neutral-loci when assessing founder-induced loss of diversity. Consequently, the extent to which processes interact to influence evolutionary trajectories is difficult to assess. Genomic-level approaches provide the opportunity to simultaneously consider these processes. Here, we examine the...

Data from: A concise review on antimicrobial peptides for prevention and treatment of dental caries

John Yun Niu, Iris Xiaoxue Yin, William Ka Kei Wu, Quan-Li Li, May Lei Mei & Chun Hung Chu
Antimicrobial peptides have become promising candidates for the development of antimicrobial therapeutics. This paper describes the collection and analysis of data performed for a published concise review on the application of antimicrobial peptides for the management of dental caries. A literature search was performed to locate journal articles published in the English language up to 2019. The search was performed through six common databases. The search term was (Antimicrobial peptide OR AMP OR Cathelicidin OR...

Supplement to: Global impact of the COVID-19 pandemic on stroke care and intravenous thrombolysis

Raul Nogueira, Muhammed Qureshi, Mohamad Abdalkader, Sheila Martins, Hiroshi Yamagami, Zhongming Qiu, Ossama Mansour, Anvitha Sathya, Anna Czlonkowska, Georgios Tsivgoulis, Diana Aguiar De Sousa, Jelle Demeestere, Robert Mikulik, Peter Vanacker, James Siegler, Janika Korv, Jose Biller, Conrad Liang, Navdeep Sangha, Alicia Zha, Alexandra Czap, Christine Holmstedt, Tanya Turan, George Ntaios, Konark Malhotra … & Thanh Nguyen
Objective: The objectives of this study were to measure the global impact of the pandemic on the volumes for intravenous thrombolysis (IVT), IVT transfers, and stroke hospitalizations over 4 months at the height of the pandemic (March 1 to June 30, 2020) compared with two control 4-month periods. Methods: We conducted a cross-sectional, observational, retrospective study across 6 continents, 70 countries, and 457 stroke centers. Diagnoses were identified by their ICD-10 codes and/or classifications in...

Scale dependence of drilling predation in the Holocene of the northern Adriatic Sea across benthic habitats and nutrient regimes

Martin Zuschin, Rafal Nawrot, Markus Dengg, Ivo Gallmetzer, Alexandra Haselmair, Sandra Wurzer & Adam Tomašových
Predation has strongly shaped past and modern marine ecosystems, but the scale dependency of patterns in drilling predation, the most widely used proxy for predator-prey interactions in the fossil record, is a matter of debate. To assess the effects of spatial and taxonomic scale on temporal trends in the drilling frequencies (DF), we analyzed Holocene molluscan assemblages of different benthic habitats and nutrient regimes from the northern Adriatic shelf in a sequence stratigraphic context. Although...

Temperature mesocosm data

Olwyn Friesen, Robert Poulin & Clément Lagrue
Predicting the effects of climate change requires understanding complex interactions among multiple abiotic and biotic factors. By influencing key interactions among host species, parasites can affect community and ecosystem structuring. Yet, our understanding of how multiple parasites and abiotic factors interact to alter ecosystem structure remains limited. To empirically test the role of temperature variation and parasites in shaping communities, we used a multigenerational mesocosm experiment composed of four sympatric freshwater crustacean species (isopods and...

Data from: Trophic partitioning and feeding capacity in Permian bryozoan faunas of Gondwana

Catherine Reid & Yuta Tamberg
Bryozoans are epibenthic suspension-feeders and use their ciliated tentacles to generate feeding currents. Modern bryozoan mouth size limits the size of the particles that can be ingested, and lophophore diameter is linked to water pumping rates. In fossil bryozoans these soft parts are absent, however, mouth and lophophore dimensions can be inferred from preserved skeletons. Gondwanan Permian palaeostomate bryozoans show distinct order-level trophic partitioning across warm to cold-water faunas. In diverse warm-water faunas of southern...

Phylogenomic discordance in the Eared Seals is best explained by incomplete lineage sorting following explosive radiation in the Southern Hemisphere

Fernando Lopes, Larissa Oliveira, Amanda Kessler, Yago Beux, Enrique Crespo, Susana Cárdenas-Alayza, Patricia Majluf, Maritza Sepulveda, , Valentina Franco-Trecu, Diego Paez-Rosas, Jaime Chaves, Carolina Loch, Bruce Robertson, Karina Acevedo-Whitehouse, Fernando Elorriaga-Verplancken, Stephen Kirkman, Claire Peart, Jochen Wolf & Sandro Bonatto
The phylogeny and systematics of fur seals and sea lions (Otariidae) have long been studied with diverse data types, including an increasing amount of molecular data. However, only a few phylogenetic relationships have reached acceptance pointing at strong gene-tree species tree discordance. Divergence times in the group also vary largely between studies. These uncertainties impeded the understanding of the biogeographical history of the group, such as when and how trans-equatorial dispersal and subsequent speciation events...

Supplementary data for: Transposon mutagenesis identifies cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression

Michael Mann, Aziz Aiderus, Justin Newberg, Liliana Guzman-Rojas, Ana Contreras-Sandoval, Amanda Meshey, Devin Jones, Felipe Amaya-Manzanares, Roberto Rangel, Jerrold Ward, Song-Choon Lee, Kenneth Ban, Keith Rogers Rogers, Susan Rogers, Luxmanan Selvanesan, Leslie McNoe, Neal Copeland, Nancy Jenkins, Kenneth Tsai, Michael Black & Karen Mann
Supplementary Note 1: S1 Text: Oncogenomic comparisons between SB candidate Trunk driver genes and their direct orthologs in human Cancer Gene Census; Pyrosequencing analysis of SB-driven keratinocyte cancer models; References. Supplementary Figures 1-11: S1 Fig: Overview of genetic crosses to generate SB|Trp53|Onc3 mouse model. S2 Fig: SB insertion patterns in activated and inactivated drivers. S3 Fig: Evaluating the reproducibility of SBCapSeq results from bulk cuSCC and normal skin specimens. S4 Fig. Hierarchical two-dimensional clustering of...

Speciation in the abyss - genomics and morphology reveal a new species of beaked whale

Emma L. Carroll, Michael R. McGowen, Morgan L. McCarthy, Felix G. Marx, Natacha Aguilar De Soto, Merel L. Dalebout, Sascha Dreyer, Oscar E. Gaggiotti, Sabine S. Hansen, Anton Van Helden, Aubrie B. Onoufriou, Robin W. Baird, C. Scott Baker, Simon Berrow, Danielle Cholewiak, Diane Claridge, Rochelle Constantine, Nicholas J. Davison, Catarina Eira, R. Ewan Fordyce, John Gatesy, G. J. Greg Hofmeyr, Vidal Martin, James G. Mead, Antonio A. Mignucci-Giannoni … & Morten T. Olsen
Earth’s deep oceans remains less well understood than the surface of Mars. Beaked whales (ziphiids) are among the most visible inhabitants of the abyss, due to their large size and worldwide distribution, yet their diversity and ecology remain obscure. We combine genomic and morphometric analyses to reveal a new Southern Hemisphere ziphiid species, Ramari’s beaked whale, Mesoplodon eueu, whose name is linked to the Indigenous people of the lands from which the species holotype and...

Models of evolutionary rescue with plasticity and nonlinear environmental change: code and data

Philip Greenspoon & Hamish Spencer
Rapid environmental changes are putting numerous species at risk of extinction. For migration-limited species, persistence depends on either phenotypic plasticity or evolutionary adaptation (evolutionary rescue). Current theory on evolutionary rescue typically assumes linear environmental change. Yet accelerating environmental change may pose a bigger threat. Here we present the simulation code and data from a model of a species encountering an environment with accelerating or decelerating change, to which it can adapt through evolution or phenotypic...

Data from 'Convergent patterns of body size variation in distinct parasite taxa with convergent life cycles'

Robert Poulin
Aim: Interspecific variation among metazoans often follows a latitudinal pattern, with species at higher latitudes being larger-bodied than related species from lower latitudes (Bergmann’s rule). For parasitic species, body sizes within any higher taxon often correlate with the body sizes of their hosts (Harrison’s rule). Whether temperature-driven latitudinal effects or host-driven resource constraints act independently or additively to shape interspecific variation in parasite body sizes remains unknown. We use a comparative approach to test the...

Stable isotopes unravel the feeding mode-trophic position relationship in trematode parasites

Amandine Sabadel & Colin MacLeod
1. Stable isotopes have been sporadically used over the last two decades to characterise host-parasite trophic relationships. The main reason for this scarcity is the lack of an obvious pattern in the ratio of nitrogen stable isotope values (δ15N) of parasites in comparison to their host tissues, which would be key to understand any host-parasite system dynamics. 2. To circumvent this, we focused on a single snail host, Zeacumantus subcarinatus, and three of its trematode...

Data for: Parallel recolonisations generate distinct genomic sectors in kelp following high magnitude earthquake disturbance

Felix Vaux, Elahe Parvizi, Dave Craw, Ceridwen Fraser & Jonathan Waters
Large-scale disturbance events have the potential to drastically reshape biodiversity patterns. Notably, newly vacant habitat space cleared by disturbance can be colonised by multiple lineages, which can lead to the evolution of distinct spatial ‘sectors’ of genetic diversity within a species. We test for disturbance-driven sectoring of genetic diversity in intertidal southern bull kelp, Durvillaea antarctica (Chamisso) Hariot following the high-magnitude 1855 Wairarapa earthquake in New Zealand. Specifically, we use genotyping-by-sequencing (GBS) to analyse fine-scale...

A broadly resolved molecular phylogeny of New Zealand cheilostome bryozoans as a framework for hypotheses of morphological evolution

Russell Orr, E. Di Martino, D.P. Gordon, M.H. Ramsfjell, H.L. Mello, A.M. Smith & L.H. Liow
Larger and larger molecular phylogenies based on ever more genes are becoming commonplace with the advent of cheaper and more streamlined sequencing and bioinformatics pipelines. However, many groups of inconspicuous but no less evolutionarily or ecologically important marine invertebrates are still neglected in the quest for understanding species- and higher-level phylogenetic relationships using high-throughput sequencing approaches. Here, we alleviate this issue by presenting a 17 gene phylogeny of >200 newly sequenced cheilostome bryozoan species, mainly...

Projected climatic changes lead to biome changes in areas of previously constant biome

Brian Huntley, Judy Allen, Matthew Forrest, Thomas Hickler, Ralf Ohlemüller, Joy Singarayer & Paul Valdes
Aim: Recent studies in southern Africa identified past biome stability as an important predictor of biodiversity. We aimed to assess the extent to which past biome stability predicts present global biodiversity patterns, and the extent to which projected climatic changes may lead to eventual biome changes in areas with constant past biome. Location: Global. Taxon: Spermatophyta; terrestrial vertebrates. Methods: Biome constancy was assessed and mapped using results from 89 dynamic global vegetation model simulations, driven...

Registration Year

  • 2021

Resource Types

  • Dataset


  • University of Otago
  • Oregon State University
  • Emory University School of Medicine
  • New York University Langone Medical Center
  • Kwame Nkrumah University of Science and Technology
  • Ain Shams University
  • Ross University School of Veterinary Medicine
  • University of Valparaíso
  • University of Aveiro
  • Ain Shams University Hospital