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Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Austria

This dataset contains AMR monitoring results in animals and food at the isolate level pursuant to Article 9 of Directive 2003/99/EC and to Annex, part B, of Commission implementing Decision (EU) 2020/1729. In addition, the dataset includes any other results from isolates than the ones mentioned in the Commission implementing Decision (EU) 2020/172. The quantitative minimum inhibitory concentration (MIC) data from dilution methods are included. Reporting authorities contributing to 2021 AMR data collection: Austrian Agency for Health and Food Safety

Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Lithuania

Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Romania

Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Germany

This dataset contains AMR monitoring results in animals and food at the isolate level pursuant to Article 9 of Directive 2003/99/EC and to Annex, part B, of Commission implementing Decision (EU) 2020/1729. In addition, the dataset includes any other results from isolates than the ones mentioned in the Commission implementing Decision (EU) 2020/172. The quantitative minimum inhibitory concentration (MIC) data from dilution methods, as well as the voluntary reporting of and Whole Genome Sequencing (WGS) data are included. Reporting authorities contributing to 2021 AMR data collection: Federal Institute for Risk Assessment

Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Estonia

Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Finland

This dataset contains AMR monitoring results in animals and food at the isolate level pursuant to Article 9 of Directive 2003/99/EC and to Annex, part B, of Commission implementing Decision (EU) 2020/1729. In addition, the dataset includes any other results from isolates than the ones mentioned in the Commission implementing Decision (EU) 2020/172. The quantitative minimum inhibitory concentration (MIC) data from dilution methods, as well as the voluntary reporting of and Whole Genome Sequencing (WGS) data are included. Reporting authorities contributing to 2021 AMR data collection: Finnish Food Authority

Antimicrobial resistance monitoring results complementing the European Union Summary Report on Antimicrobial Resistance in zoonotic and indicator bacteria from humans, animals and food in 2020/2021 – Luxembourg

Animations and figures for Report - If light is stretched by gravitational waves, why can we use light as a ruler to detect them?

Package for .gifs and images for report, the two .gif animations are to better represent the images used to explain the entire process from section 3.

Data for: Ancient gene linkages support ctenophores as sister to other animals

A central question in evolutionary biology is whether sponges or ctenophores (comb jellies) are the sister group to all other animals. These alternative phylogenetic hypotheses imply different scenarios for the evolution of complex neural systems and other animal-specific traits1–6. Conventional phylogenetic approaches based on morphological characters and increasingly extensive gene sequence collections have not been able to definitively answer this question7–11. Here we develop chromosome-scale gene linkage, also known as synteny, as a novel phylogenetic character for resolving this question12. We report new chromosome-scale genomes for a ctenophore and two marine sponges, and for three unicellular relatives of animals (a choanoflagellate, a filasterean amoeba, and an ichthyosporean) that serve as outgroups for phylogenetic analysis. Remarkably, we find ancient syntenies that are conserved between animals and their close unicellular relatives. Ctenophores and unicellular eukaryotes share ancestral metazoan patterns while sponges, bilaterians, and cnidarians share derived chromosomal rearrangements. Conserved syntenic characters unite sponges with bilaterians, cnidarians, and placozoans in a monophyletic clade to the exclusion of ctenophores, placing ctenophores as the sister group to all other animals. The patterns of synteny shared by sponges, bilaterians, and cnidarians are the result of rare and irreversible chromosome fusion-and-mixing events that provide robust and unambiguous phylogenetic support for the ctenophore-sister hypothesis. These findings provide a new framework for resolving deep, recalcitrant phylogenetic problems and have implications for our understanding of animal evolution. 1. Ryan, J. F. et al. The genome of the ctenophore Mnemiopsis leidyi and its implications for cell type evolution. Science 342, 1242592 (2013). 2. Halanych, K. M. The ctenophore lineage is older than sponges? That cannot be right! Or can it? J. Exp. Biol. 218, 592–597 (2015). 3. Jékely, G., Paps, J. & Nielsen, C. The phylogenetic position of ctenophores and the origin(s) of nervous systems. Evodevo 6, 1 (2015). 4. Ryan, J. F. & Chiodin, M. Where is my mind? How sponges and placozoans may have lost neural cell types. Philos. Trans. R. Soc. Lond. B Biol. Sci. 370, 20150059– (2015). 5. Moroz, L. L. et al. The ctenophore genome and the evolutionary origins of neural systems. Nature 510, 109–114 (2014). 6. Burkhardt, P. Ctenophores and the evolutionary origin(s) of neurons. Trends Neurosci. 45, 878–880 (2022). 7. Philippe, H. et al. Phylogenomics revives traditional views on deep animal relationships. Curr. Biol. 19, 706–712 (2009). 8. Simion, P. et al. A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals. Curr. Biol. 27, 958–967 (2017). 9. Dunn, C. W. et al. Broad phylogenomic sampling improves resolution of the animal tree of life. Nature 452, 745–749 (2008). 10. Whelan, N. V. et al. Ctenophore relationships and their placement as the sister group to all other animals. Nat. Ecol. Evol. 1, 1737–1746 (2017). 11. Li, Y., Shen, X.-X., Evans, B., Dunn, C. W. & Rokas, A. Rooting the animal tree of life. Mol. Biol. Evol. 38, 4322–4333 (2021). 12. Simakov, O. et al. Deeply conserved synteny and the evolution of metazoan chromosomes. Sci. Adv. 8, eabi5884 (2022).

Animal data associated with: Pattern dynamics and stochasticity of the brain rhythms

Our current understanding of brain rhythms is based on quantifying their instantaneous or time-averaged characteristics. What remains unexplored, is the actual structure of the waves–their shapes and patterns over finite timescales. The data published here are used to study brain wave patterning in different physiological contexts using two independent approaches: the first is based on quantifying stochasticity relative to the underlying mean behavior, and the second assesses "orderliness'' of the waves' features. The corresponding measures capture the waves' characteristics and abnormal behaviors, such as atypical periodicity or excessive clustering, and demonstrate coupling between the patterns' dynamics and the animal's location, speed, and acceleration. Specifically, patterns of θ, γ, and ripple waves recorded in mice hippocampi and observed speed-modulated changes of the wave's cadence, an antiphase relationship between orderliness and acceleration, as well as spatial selectiveness of patterns, are derived from the data. The results offer a complementary–mesoscale–perspective on brain wave structure, dynamics, and functionality.

Migration statistics and animal biometrics for mule deer that migrated long-distances (2011–2020), Wyoming, USA

Billions of animals migrate to track seasonal pulses in resources. Optimally timing migration is a key strategy, yet the ability of animals to compensate for phenological mismatches en route is largely unknown. We studied a population of mule deer (Odocoileus hemionus) in Wyoming that lack reliable cues on their desert winter range, causing them to start migration 70 days ahead to 52 days behind the wave of spring green-up. By adjusting movement speed and stopover use, however, individual deer arrive at the summer range within an average 6-day window. Late migrants move 2.5 times faster and spend 72% less time on stopovers than early migrants, which allows them to catch the green wave. Ungulates, and potentially other migratory species, possess cognitive abilities to recognize where they are in space and time relative to key resources. Such behavioral capacity may allow migratory taxa to maintain foraging benefits amid rapidly changing phenology.

Intensified livestock farming increases antibiotic resistance genotypes and phenotypes in animal feces

Animal feces from livestock farming can be a major source of antibiotic resistance to the environment, but a clear gap exists on how the resistance reservoir in feces alters as farming activities intensify. Here, we sampled feces from eight Chinese farms, where yak, sheep, pig, and horse were reared under free-range to intensive conditions, and determined fecal resistance using both genotype and phenotype approaches. Animals reared intensively exhibited increased diversity of antibiotic resistance genes (ARGs) and greater resistance phenotypes in feces, which were cross-correlated. Furthermore, at the metagenome contig level, ARGs were co-located with mobile genetic elements at a higher frequency (27.38%) as farming intensified, with associated resistance phenotypes being less coupled with bacterial phylogeny. Intensified farming also expanded the multidrug resistance preferentially carried on pathogens in fecal microbiomes. Overall, farming intensification can increase antibiotic resistance genotypes and phenotypes in domestic animal feces, with implications for environmental health.

Tracing the future of epidemics: Coincident niche distribution of host animals and disease incidence revealed climate-correlated risk shifts of main zoonotic diseases in China

This dataset contains host occurrence data from NACRC database and disease incidence data for the paper "Tracing the future of epidemics: Coincident niche distribution of host animals and disease incidence revealed climate-correlated risk shifts of main zoonotic diseases in China".

opencc-zeroApr 2023View details →

Bringing light onto the Raunkiæran shortfall: A comprehensive review of traits used in functional animal ecology

Trait-based approaches elucidate the mechanisms underlying biodiversity response to, or effects on, the environment. Nevertheless, the Raunkiæran shortfall – the dearth of knowledge on species traits and their functionality – presents a challenge in the application of these approaches. We conducted a systematic review to investigate the trends and gaps in trait-based animal ecology in terms of taxonomic resolution, trait selection, ecosystem type, and geographical region. In addition, we suggest a set of crucial steps to guide trait selection and aid future research to conduct within and cross-taxon comparisons. We identified 1,655 articles using virtually all animal groups published from 1999 to 2020. Studies were concentrated in vertebrates, terrestrial habitats, and the Palearctic realm, and mostly investigated trophic and habitat dimensions. Additionally, they focused on response traits (79.4%) and largely ignored intraspecific variation (94.6%). Almost 36% of the datasets did not provide the rationale behind the selection of morphological traits. The main limitations of trait-based animal ecology were the use of trait averages and a rare inclusion of intraspecific variability. Nearly one-fifth of the studies based only on response traits conclude that trait diversity impacts ecosystem processes or services without justifying the connection between them or measuring them. We propose a guide for standardising trait collection that includes: (i) determining the type of trait and the mechanism linking the trait to the environment, ecosystem, or the correlation between the environment, trait, and ecosystem, (ii) using a "periodic table of niches" to select the appropriate niche dimension to support a mechanistic trait selection, and (iii) selecting the relevant traits for each retained niche dimension. By addressing these gaps, trait-based animal ecology can become more predictive. This implies that future research will likely focus on collaborating to understand how environmental changes impact animals and their capacity to provide ecosystem services and goods.

opencc-by-4.0Apr 2023View details →

Draft Genome Sequences of Two Bacteriocin-Producing Enterococcus faecium Strains Isolated from Nonfermented Animal Foods in Spain

Raw sequences of two bacteriocin-producing Enterococcus faecium.

opencc-by-4.0Apr 2023View details →

Dog guardians and genetic testing: Survey textbox responses & human-animal bond influences

Project was exported from Atlas.ti version 23, data analysis was completed using version 9. This subset data was derived from Wisdom PanelTM consumers in which participants provided qualitative responses and answered HAB related questions (see <a href="https://doi.org/10.3390/ani12233360">https://doi.org/10.3390/ani12233360</a>). Qualitative data were obtained via open-ended textboxes. In light of a number of participants providing meaningful data, a post-hoc analysis was added to report central themes present and provide further characterization of potential human-dog relationship influences. Please contact the author directly with any questions about the data.

opencc-zeroDec 2022View details →

Understanding the incidence and timing of rabies cases in domestic animals and wildlife in south-east Tanzania in the presence of widespread domestic dog vaccination campaigns

The "Zero by 30" strategic plan aims to eliminate human deaths from dog-mediated rabies by 2030, and domestic dog vaccination is a vital component of this strategic plan. In areas where domestic dog vaccination has been implemented, it is important to assess the impact of this intervention. Additionally, understanding temporal and seasonal trends in the incidence of animal rabies cases may assist in optimizing such interventions. Data on the incidence of probable rabies cases in domestic and wild animals were collected between January 2011 and December 2018 in thirteen districts of south-east Tanzania where jackals comprise over 40% of reported rabies cases. Vaccination coverage was estimated over this period, as five domestic dog vaccination campaigns took place in all thirteen districts between 2011 and 2016. Negative binomial generalized linear models were used to explore the impact of domestic dog vaccination on the annual incidence of animal rabies cases, whilst generalized additive models were used to investigate the presence of temporal and/or seasonal trends. Increases in domestic dog vaccination coverage were significantly associated with a decreased incidence of rabies cases in both domestic dogs and jackals. A 35% increase in vaccination coverage was associated with a reduction in the incidence of probable dog rabies cases of between 78.0 and 85.5% (95% confidence intervals ranged from 61.2 to 92.2%) and a reduction in the incidence of probable jackal rabies cases of between 75.3 and 91.2% (95% confidence intervals ranged from 53.0 to 96.1%). A statistically significant common seasonality was identified in the monthly incidence of probable rabies cases in both domestic dogs and jackals with the highest incidence from February to August and lowest incidence from September to January. These results align with evidence supporting the use of domestic dog vaccination as part of control strategies aimed at reducing animal rabies cases in both domestic dogs and jackals in this region. The presence of a common seasonal trend requires further investigation but may have implications for the timing of future vaccination campaigns.

opencc-by-4.0Apr 2023View details →

Adapting camera-trap placement based on animal behaviour for rapid detection: a focus on the Endangered, white-bellied pangolin (Phataginus tricuspis)

Table containing detection data of species using two camera trap placement strategies (log vs non-log)

opencc-by-4.0May 2023View details →

dataset of paper Bibliometric Analysis of Veterinary Medicine on Embryo of Animals in Textbook in Conceptualizing Disease

this is the dataset of meta-data of books and book chapter downloaded from scopus website using subscription service

The Case of the Missing Meleagris: Diet and Animal Management at Copán, Honduras

Senior thesis at Harvard College. Topic: Diet and Animal Management at Copán, Honduras