81 Works

Taxonomic revision reveals potential impacts of Black Summer megafires on a cryptic species

Chris Jolly, Harry Moore, Mitchell Cowan, Teigan Cremona, Judy Dunlop, Sarah Legge, Grant Linley, Vivianna Miritis, John Woinarski & Dale Nimmo
Context: Sound taxonomy is the cornerstone of biodiversity conservation. Without a fundamental understanding of species delimitations, as well as their distributions and ecological requirements, our ability to conserve them is drastically impeded. Cryptic species – two or more distinct species currently classified as a single species – present a significant challenge to biodiversity conservation. How do we assess the conservation status and address potential drivers of extinction if we are unaware of a species’ existence?...

Host genetics, phenotype and geography structure the microbiome of a foundational seaweed

Georgina Wood, Georgina Wood, Peter Steinberg, Alexandra Campbell, Adriana Verges, Melinda Coleman & Ezequiel Marzinelli
Interactions between hosts and their microbiota are critical to the functioning and resilience of eukaryotic macro-organisms. Critically, for hosts that play foundational roles in communities, understanding what drives these interactions is essential for informing restoration and conservation of entire ecosystems. Here, we investigated the relative influence of host traits and the surrounding environment on microbial communities associated with the foundational seaweed Phyllospora comosa. We collected data on 16 morphological and functional phenotypic traits, host genetics...

Different genes are recruited during convergent evolution of pregnancy and the placenta

Charles Foster, James Van Dyke, Michael Thompson, Nicholas Smith, Colin Simpfendorfer, Christopher Murphy & Camilla Whittington
The repeated evolution of the same traits in distantly related groups (convergent evolution) raises a key question in evolutionary biology: do the same genes underpin convergent phenotypes? Here, we explore one such trait, viviparity (live birth), which, qualitative studies suggest, may indeed have evolved via genetic convergence. There are 150 independent origins of live birth in vertebrates, providing a uniquely powerful system to test the mechanisms underpinning convergence in morphology, physiology, and/or gene recruitment during...

Rates of dispersal of cane toads during their global invasion

Richard Shine, Ross Alford, Ryan Blennerhasset, Gregory Brown, Jayna DeVore, Simon Ducatez, Patrick Finnerty, Matthew Greenlees, Shannon Kaiser, Samantha McCann, Lachlan Pettit, Ligia Pizzatto, Lin Schwarzkopf, Georgia Ward-Fear & Benjamin Phillips
Invasions often accelerate through time, as dispersal-enhancing traits accumulate at the expanding range edge. How does the dispersal behaviour of individual organisms shift to increase rates of population spread? We collate data from 44 radio-tracking studies (in total, of 650 animals) of cane toads (Rhinella marina) to quantify distances moved per day, and the frequency of displacement in their native range (French Guiana) and two invaded areas (Hawai’i and Australia). Here we show that toads...

Additional file 1 of Fleas from the Silk Road in Central Asia: identification of Ctenocephalides canis and Ctenocephalides orientis on owned dogs in Uzbekistan using molecular identification and geometric morphometrics

Georgiana Deak, Alisher Safarov, Xi Carria Xie, Runting Wang, Andrei Daniel Mihalca & Jan Šlapeta
Additional file 1: Table S1. Table showing the prevalence of infested dogs. Table S2. The number of examined and positive dogs regarding their sex. Table S3. The number of examined and positive dogs regarding their age. Table S4. The number of dogs infested with C. canis from each of the locations. Table S5. The number of dogs infested with C. orientis from each of the locations. Table S6. The number of dogs infested with P....

Additional file 1 of Fleas from the Silk Road in Central Asia: identification of Ctenocephalides canis and Ctenocephalides orientis on owned dogs in Uzbekistan using molecular identification and geometric morphometrics

Georgiana Deak, Alisher Safarov, Xi Carria Xie, Runting Wang, Andrei Daniel Mihalca & Jan Šlapeta
Additional file 1: Table S1. Table showing the prevalence of infested dogs. Table S2. The number of examined and positive dogs regarding their sex. Table S3. The number of examined and positive dogs regarding their age. Table S4. The number of dogs infested with C. canis from each of the locations. Table S5. The number of dogs infested with C. orientis from each of the locations. Table S6. The number of dogs infested with P....

Curie depth points and Geothermal heat flow estimates from spectral analysis of magnetic data in the Transantarctic Mountains and Wilkes Subglacial Basin region.

Maximilian Lowe, Ben Mather, Chris Green, Tom Jordan, Joerg Ebbing & Robert Larter
We present Curie depth point (CDP) and geothermal heat flow (GHF) estimations based on spectral analysis of magnetic airborne data for the Transantarctic Mountains (TAM) and Wilkes Subglacial Basin area. The Curie depth point is defined as the depth at which the Curie Temperature of 580 degC is reached. The Curie Temperature describes the temperature at which magnetic minerals lose their ability to generate a strong magnetic field. We use exclusively high resolution magnetic airborne...

A global analysis of viviparity in squamates highlights its prevalence in cold climates

Anna Zimin, Sean Zimin, Richard Shine, Luciano Avila, Aaron Bauer, Monika Böhm, Rafe Brown, Goni Barki, Gabriel Henrique De Oliveira Caetano, Fernando-Castro Herrera, David Chapple, Laurent Chirio, Guarino Colli, Tiffany Doan, Frank Glaw, L. Lee Grismer, Yuval Itescu, Fred Kraus, Matthew LeBreton, Marcio Martins, Mariana Morado, Gopal Murali, Zoltán Nagy, Maria Novosolov, Paul Oliver … & Shai Meiri
Aim: Viviparity has evolved more times in squamates than in any other vertebrate group. Therefore, squamates offer an excellent model system to study the patterns, drivers, and implications of reproductive mode evolution. Based on current species distributions we examined three selective forces hypothesized to drive squamate viviparity evolution: (1) cold climate, (2) variable climate, and (3) hypoxic conditions, and tested whether viviparity is associated with larger body size. Location: Global. Time period: present day. Taxon:...

Additional file 1 of Tau interactome and RNA binding proteins in neurodegenerative diseases

Tomas Kavanagh, Aditi Halder & Eleanor Drummond
Additional file 1: Supplementary Table 1. List of post-translational modifications detected on tau across AD, AGD, CBD, PiD and PSP. Supplementary Table 2. Summary of human tau interactome and localised pathology proteomics studies. Supplementary Table 3. Summary of rodent Tau interactome studies. Supplementary Table 4. Gene Ontology Molecular Function Gene Sets and Enrichment Statistics. Supplementary Table 5. Summary of pathology targeted localised proteomics studies. Supplementary Table 6. GO cellular component comparison gene sets used for...

IL-27 overexpression alleviates inflammatory response in allergic asthma by inhibiting Th9 differentiation and regulating Th1/Th2 balance

Peng Xiong, Tonglin Liu, Hao Huang, Yi Yuan, Wendi Zhang, Lina Fu & Yu Chen
To investigate the effect of IL-27 on Th9 differentiation and Th1/Th2 balance. C57BL/6 (B6) mice were treated with ovalbumin to establish an allergic asthma (AA) model and subjected to IL-27 overexpression (OV) and empty vector (EV). Hematoxylin-eosin (HE) staining was performed to observe lung tissue inflammation. Flow cytometry was carried out to evaluate the percentage of Th9, Th1, and Th2 cells. The expression of IL-27, IL-27R, IL-9, T-bet, IFN-γ, and IgE was evaluated by quantitative...

IL-27 overexpression alleviates inflammatory response in allergic asthma by inhibiting Th9 differentiation and regulating Th1/Th2 balance

Peng Xiong, Tonglin Liu, Hao Huang, Yi Yuan, Wendi Zhang, Lina Fu & Yu Chen
To investigate the effect of IL-27 on Th9 differentiation and Th1/Th2 balance. C57BL/6 (B6) mice were treated with ovalbumin to establish an allergic asthma (AA) model and subjected to IL-27 overexpression (OV) and empty vector (EV). Hematoxylin-eosin (HE) staining was performed to observe lung tissue inflammation. Flow cytometry was carried out to evaluate the percentage of Th9, Th1, and Th2 cells. The expression of IL-27, IL-27R, IL-9, T-bet, IFN-γ, and IgE was evaluated by quantitative...

Data from: Integrating isotopic and nutritional niches reveals multiple dimensions of individual diet specialisation in a marine apex predator

Richard Grainger, Vincent Raoult, Victor Peddemors, Gabriel Machovsky-Capuska, Troy Gaston & David Raubenheimer
Dietary specializations are important determinants of ecological structure, particularly in species with high per-capita trophic influence like marine apex predators. These species are, however, among the most challenging in which to establish spatiotemporally integrated diets. We introduce a novel integration of stable isotopes with a multidimensional nutritional niche framework that addresses the challenges of establishing spatiotemporally integrated nutritional niches in wild populations, and apply the framework to explore individual diet specialization in a marine apex...

Dataset for Adams et al (2022). Commensal black rats (Rattus rattus) select wild vegetation over urbanised habitats

M.W.D. Adams, L.S. Grant, T.G.L Kovacs, S.Q.T Liang, N. Norris, M.M Alessi & P.B. Banks
Human commensal species are thought to depend so closely on resources provided by humans that they are effectively ‘natives’ of urban environments. However, while their adaptations to urban existence are well understood, their ecology and habitat choices have not been closely examined. This study investigated the habitat preferences of the archetypal commensal species, the invasive black rat Rattus rattus, at the urban-bushland interface in Sydney, Australia, and modelled the results using isodar analysis. Unexpectedly, we...

Viral transmission networks in an island ecosystem

Edward Holmes

Additional file 2 of Extracellular matrix profiles determine risk and prognosis of the squamous cell carcinoma subtype of non-small cell lung carcinoma

Amelia L. Parker, Elise Bowman, Adriana Zingone, Brid M. Ryan, Wendy A. Cooper, Maija Kohonen-Corish, Curtis C. Harris & Thomas R. Cox
Additional file 2: Table S1. Differentially Expressed Hallmark Pathways in ECM-High vs ECM-Low Tumors. Table S2. Differentially Expressed MSigDb C2 Pathways in ECM-High vs ECM-Low Tumors. Table S3. Ligand-Receptor Interactions in ECM-High vs ECM-Low Tumors.

Additional file 7 of Effective-component compatibility of Bufei Yishen formula III ameliorated COPD by improving airway epithelial cell senescence by promoting mitophagy via the NRF2/PINK1 pathway

Min-yan Li, Yan-qin Qin, Yan-ge Tian, Kang-chen Li, Brian G. Oliver, Xue-fang Liu, Peng Zhao & Jian-sheng Li
Additional file 7.

Additional file 7 of Folate regulates RNA m5C modification and translation in neural stem cells

Xiguang Xu, Zachary Johnson, Amanda Wang, Rachel L. Padget, James W. Smyth & Hehuang Xie
Additional file 7. Combined raw data, with each figure on a spreadsheet.

Additional file 5 of Folate regulates RNA m5C modification and translation in neural stem cells

Xiguang Xu, Zachary Johnson, Amanda Wang, Rachel L. Padget, James W. Smyth & Hehuang Xie
Additional file 5: Table 4. List of differentially translated genes.

Additional file 7 of Folate regulates RNA m5C modification and translation in neural stem cells

Xiguang Xu, Zachary Johnson, Amanda Wang, Rachel L. Padget, James W. Smyth & Hehuang Xie
Additional file 7. Combined raw data, with each figure on a spreadsheet.

An Approximated Collapsed Variational Bayes Approach to Variable Selection in Linear Regression

Chong You, John T. Ormerod, Xiangyang Li, Cheng Heng Pang & Xiao-Hua Zhou
In this work, we propose a novel approximated collapsed variational Bayes approach to model selection in linear regression. The approximated collapsed variational Bayes algorithm offers improvements over mean field variational Bayes by marginalizing over a subset of parameters and using mean field variational Bayes over the remaining parameters in an analogous fashion to collapsed Gibbs sampling. We have shown that the proposed algorithm, under typical regularity assumptions, (1) includes variables in the true underlying model...

Pace-of-life syndrome: linking personality, metabolism and colour ornamentation in male guppies

Jean-Guy Godin, Amélie Le Roy, Alicia Burns, Frank Seebacher & Ashley Ward
Within populations, there commonly exists consistent among-individual differences in behaviour. As a potential mechanism maintaining this variation, the pace-of-life-syndrome (POLS) hypothesis posits that consistent differences in the behaviour of individuals (i.e. ‘personality’) are intercorrelated and have coevolved with consistent individual differences in metabolism and life-history traits. Here, using adult male guppies, Poecilia reticulata, we tested under laboratory conditions (1) whether behavioural and metabolic traits vary consistently among individuals over time (≤ 7 days) and (2)...

Future-proofing the koala: synergizing genomic and environmental data for effective species management

Matthew Lott, Belinda Wright, Linda Neaves, Greta Frankham, Siobhan Dennison, Mark Eldridge, Sally Potter, David Alquezar-Planas, Carolyn Hogg, Katherine Belov & Rebecca Johnson
Climatic and evolutionary processes are inextricably linked to conservation. Avoiding extinction in rapidly changing environments often depends upon a species’ capacity to adapt in the face of extreme selective pressures. Here, we employed exon capture and high-throughput next-generation sequencing to investigate the mechanisms underlying population structure and adaptive genetic variation in the koala (Phascolarctos cinereus), an iconic Australian marsupial that represents a unique conservation challenge because it is not uniformly threatened across its range. An...

Restoring faith in conservation action: maintaining wild genetic diversity through the Tasmanian devil insurance program

Elspeth McLennan, Katherine Farquharson, Yuanyuan Cheng, Lauren Alexander, Samantha Fox, Andrew Lee, Katherine Belov & Carolyn Hogg
Conservation breeding programs aim to maintain 90% wild genetic diversity, but rarely assess functional diversity. Here, we compare both genome-wide and functional diversity (in over 500 genes) of Tasmanian devils (Sarcophilus harrisii) within the insurance metapopulation and across the species’ range (64,519 km2). Populations have declined by 80% since 1996 due to a contagious cancer, devil facial tumour disease (DFTD). However, predicted local extinctions have not occurred. Recent suggestions of selection for “resistance” alleles in...

Richness and abundance of both butterflies and floral resources in residential gardens across southwestern Melbourne, Australia’s greater metropolitan area

Jessica Kurylo, Karl Evans, Kirsten Parris, Nicholas Williams & Caragh Threlfall
Wildlife gardening is a popular activity undertaken within residential areas. It is broadly promoted as a means of encouraging residents to make their gardens more ‘wildlife friendly’. While theory and anecdotal evidence suggest these schemes should be effective, quantitative evaluation of wildlife gardening practices and programs is lacking across most taxa they target. Our overall objective in collecting this data was to determine if there was a difference in butterfly richness or abundance between gardens...

Phosphorus supply increases nitrogen transformation rates and retention in soil: a global meta-analysis

Ruzhen Wang, Bahareh Bicharanloo, Enqing Hou & Yong Jiang
Interactions between nitrogen (N) and phosphorus (P) are important for plant growth and ecosystem carbon (C) sequestration. While effects of N supply on P dynamics have been much studied, much less is known about the opposite (P-effect on N). We conducted a meta-analysis by compiling a total of 1734 individual experimental observations from 116 peer-reviewed publications to assess P-addition effects on soil N dynamics. Globally, P additions increased the soil total N (TN) pool, potentially...

Registration Year

  • 2022
    81

Resource Types

  • Dataset
    81

Affiliations

  • The University of Sydney
    44
  • University of Sydney
    37
  • UNSW Sydney
    21
  • Virginia–Maryland College of Veterinary Medicine
    12
  • Virginia Tech
    12
  • Concord Repatriation General Hospital
    12
  • Fudan University
    10
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    10
  • Zhejiang University
    9
  • Sichuan University
    9