We used two forest plantation experiments, the Sardinilla site in Panama (containing monocultures, 2-, 3- and 5-species mixtures in the main plantation, established in 2001, and 6-, 9- and18-species mixtures in the high-diversity plantation, established in 2003), and the Anhembi site in Brazil (established in 2006, containing 20-, 58- and 114-species mixtures), to investigate the effects of forest tree richness on the amount and distribution (horizontal, vertical and temporal) of intercepted ligh (red:far-red ratio -...
Source pool diversity and proximity shape the compositional uniqueness of insular mammal assemblages worldwideKatherine Hébert, Virginie Millien & Jean-Philippe Lessard
Islands have been the test bed of several theories in community ecology, biogeography, and evolutionary biology. Progress within these disciplines has given a more comprehensive and mechanistic understanding of the processes governing variation in species richness among islands. However, it remains unclear whether these same processes also explain variation in species and phylogenetic composition among islands. Integrating theory from ecology and biogeography, we infer the roles of dispersal, selection, and stochasticity on the composition of...
Nearly 50 different mouse retinal ganglion cell (RGC) types sample the visual scene for distinct features. RGC feature selectivity arises from its synapses with a specific subset of amacrine (AC) and bipolar cell (BC) types, but how RGC dendrites arborize and collect input from these specific subsets remains poorly understood. Here we examine the hypothesis that RGCs employ molecular recognition systems to meet this challenge. By combining calcium imaging and type-specific histological stains we define...
Construction of a novel risk model based on the random forest algorithm to distinguish pancreatic cancers with different prognoses and immune microenvironment featuresYalan Lei, Rong Tang, Jin Xu, Bo Zhang, Jiang Liu, Chen Liang, Qingcai Meng, Jie Hua, Xianjun Yu, Wei Wang & Si Shi
Immune-related long noncoding RNAs (irlncRNAs) are actively involved in regulating the immune status. This study aimed to establish a risk model of irlncRNAs and further investigate the roles of irlncRNAs in predicting prognosis and the immune landscape in pancreatic cancer. The transcriptome profiles and clinical information of 176 pancreatic cancer patients were retrieved from The Cancer Genome Atlas (TCGA). Immune-related genes (irgenes) downloaded from ImmPort were used to screen 1903 immune-related lncRNAs (irlncRNAs) using Pearson’s...
Comparative analysis of SARS-CoV-2 envelope viroporin mutations from COVID-19 deceased and surviving patients revealed implications on its ion-channel activities and correlation with patient mortalityTayyeba Rizwan, Akansha Kothidar, Himanshu Meghwani, Vaibhav Sharma, Rahul Shobhawat, Rajpal Saini, Hemendra Kumar Vaishnav, Vikramaditya Singh, Mukut Pratap, Hitaishi Sihag, Shakti Kumar, Joy Kumar Dey & Sanjay Kumar Dey
One major obstacle in designing a successful therapeutic regimen to combat COVID-19 pandemic is the frequent occurrence of mutations in the SARS-CoV-2 resulting in patient to patient variations. Out of the four structural proteins of SARS-CoV-2 namely, spike, envelope, nucleocapsid and membrane, envelope protein governs the virus pathogenicity and induction of acute-respiratory-distress-syndrome which is the major cause of death in COVID-19 patients. These effects are facilitated by the viroporin (ion-channel) like activities of the envelope...
Data from: Northwest range shifts and shorter wintering period of an Arctic seabird in response to four decades of changing ocean climateAllison Patterson, Grant Gilchrist, Anthony Gaston & Kyle Elliott
Climate change is altering the marine environment at a global scale, with some of the most dramatic changes occurring in Arctic regions. These changes may affect the distribution and migration patterns of marine species throughout the annual cycle. Species distribution models have provided detailed understanding of the responses of terrestrial species to climate changes, often based on observational data; biologging offers the opportunity to extend those models to migratory marine species that occur in marine...
Supplemental material: Astrocyte biomarkers in Alzheimer’s disease: a systematic review and meta-analysisBruna Bellaver, João Pedro Ferrari-Souza, Lucas Uglione Da Ros, Stephen F. Carter, Elena Rodriguez-Vieitez, Agneta Nordberg, Luc Pellerin, Pedro Rosa-Neto, Douglas Teixeira Leffa & Eduardo R. Zimmer
Objective: To perform a systematic review and meta-analysis to determine whether fluid and imaging astrocyte biomarkers are altered in Alzheimer's disease (AD). Methods: PubMed and Web of Science databases were searched for articles reporting fluid or imaging astrocyte biomarkers in AD. Pooled effect sizes were determined with mean differences (SMD) using the Hedge’s G method with random-effects to determine biomarker performance. Adapted questions from QUADAS-2 were applied for quality assessment. A protocol for this study...
Data to Prior exposure to stress allows the maintenance of an ecosystem cycle following severe acidificationSofia Van Moorsel, Justin Marleau, Andrew Gonzalez, Owen Petchey, Charles Bazerghi & Jorge Negrin Dastis
This freshwater mesocosm study was conducted in 19 out of 110 mesocosms at the Large Experimental Array of Ponds (LEAP) at the Gault Nature Reserve in Mont-St-Hilaire, QC, Canada (45°32' N, 73°08' W, 122 m a.s.l.) between May and October 2018 for a total of 147 days. On 24 May 2018, the mesocosms (1100L stock tanks, Rubbermaid, Huntersville, NC, USA) were filled with approximately 1000 liters of unfiltered lake water via a pipeline from oligotrophic...
Data & R code for: Paquette & Hargreaves 'Biotic interactions are more often important at species' warm vs. cool range edges'Anna Hargreaves
Predicting which ecological factors constrain species distributions is a fundamental ecological question and critical to forecasting geographic responses to global change. Darwin hypothesized that abiotic factors generally impose species’ high-latitude and high-elevation (typically cool) range limits, whereas biotic interactions more often impose species’ low-latitude/low-elevation (typically warm) limits, but empirical support has been mixed. Here, we clarify three predictions arising from Darwin’s hypothesis, and show that previously mixed support is partially due to researchers testing different...
Sexual reproduction often declines towards range edges, reducing fitness, dispersal, and adaptive potential at range edges. For plants, sexual reproduction is frequently limited by inadequate pollination. While case studies show that pollen limitation can limit plant distributions, the extent to which pollination commonly declines toward plant range edges is unknown. Here, we leverage global databases of pollen-supplementation experiments and plant occurrence data to test whether pollen limitation increases toward plant range edges, using a phylogenetically...
Data for: Environmental and anthropogenic constraints on animal space use drive extinction risk worldwideMyriam R. Hirt, Andrew D. Barnes, Alessandro Gentile, Laura J. Pollock, Benjamin Rosenbaum, Wilfried Thuiller, Marlee A. Tucker & Ulrich Brose
Animals require a certain amount of habitat to persist and thrive, and habitat loss is one of the most critical drivers of global biodiversity decline. While habitat requirements have been predicted by relationships between species traits and home range size, little is known about constraints imposed by environmental conditions and human impacts on a global scale. Our meta-analysis of 395 vertebrate species shows that global climate gradients in temperature and precipitation exert indirect effects via...
DNA sequences of transgenes detected via environmental DNA (raw ABI files, processed FASTA files, and reference alignments)Charles Xu, Claire Ramsay, Mitra Cowan, Mehrnoush Dehghani, Paul Lasko & Rowan Barrett
We demonstrate that simple, non-invasive environmental DNA (eDNA) methods can detect transgenes of genetically modified (GM) animals from terrestrial and aquatic sources in invertebrate and vertebrate systems. We detected transgenic fragments between 82-234 bp through targeted PCR amplification of environmental DNA extracted from food media of GM fruit flies (Drosophila melanogaster), feces, urine, and saliva of GM laboratory mice (Mus musculus), and aquarium water of GM tetra fish (Gymnocorymbus ternetzi). With rapidly growing accessibility of...
Mass spectrometry of natively decorated doublet microtubule from Tetrahymena thermophila WT and mutantsKhanh Huy Bui, Daniel Dai, Ichikawa Muneyoshi, Kubo Shintaroh & Shun Kai Yang
Cilia are thin microtubule-based protrusions of eukaryotic cells. The swimming of ciliated protists and sperm cells is propelled by the beating of cilia. Cilia propagate the flow of mucus in the trachea and protect the human body from viral infections. The main force generators of ciliary beating are the outer dynein arms (ODAs) which attach to the doublet microtubules. The bending of cilia is driven by the ODAs' conformational changes caused by ATP hydrolysis. Here,...
University of Toronto3
University of British Columbia3
University of Tennessee Health Science Center2
North West Agriculture and Forestry University2
Sixth Affiliated Hospital of Sun Yat-sen University2
Sun Yat-sen University2
University of Pennsylvania2
Central South University2