Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
1,017
datasets available to search
ShareScore release 0.9.0
Dataset results
1,017 results for “antimicrobial”
Antimicrobial resistance monitoring results complementing the EU Overview Summary Report on AMR in zoonotic and indicator bacteria from humans, animals and food in 2017/2018 - Finland
<p>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 2013/652/EU. In addition, the dataset includes any other results from isolates than the ones mentioned in the Commission implementing Decision 2013/652/EU. The quantitative minimum inhibitory concentration (MIC) data from dilution methods are included. REPORTING AUTHORITIES CONTRIBUTING TO EACH DATA COLLECTION: AMR_2018_FI_20200204: >> Finnish Food Authority</p>
Antimicrobial resistance monitoring results complementing the EU Overview Summary Report on AMR in zoonotic and indicator bacteria from humans, animals and food in 2017/2018 - Norway
<p>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 2013/652/EU. In addition, the dataset includes any other results from isolates than the ones mentioned in the Commission implementing Decision 2013/652/EU. The quantitative minimum inhibitory concentration (MIC) data from dilution methods are included. REPORTING AUTHORITIES CONTRIBUTING TO EACH DATA COLLECTION: AMR_2018_NO_20200204: >> Norwegian Veterinary Institute</p>
Antimicrobial capacity is related to body colouration and reproductive success in female spotless starlings
<p>Pathogenic microorganisms select for a plethora of defensive mechanisms on their hosts. In males of some species, flashy traits might signal antimicrobial capacity and, thus, they might be favoured in scenarios of sexual selection. Antimicrobial capacity of individuals may predict reproductive success in males, and it could be adapted to changing environments. However, evidence for these associations is still scarce in females. Here, we evaluated antimicrobial capacity of spotless starling (<i>Sturnus unicolor</i>) females during the mating and nestling-provisioning phase. We did this by measuring (i) the blood plasma inhibition capacity against 12 bacterial strains (antagonistic index), (ii) the constitutive innate humoral immunity (lysis and agglutination capacity, a non-specific first barrier of protection of hosts against microbial parasites), and (iii) the uropygial gland size and volume of secretion produced, relevant traits in the protection against, among others, feather-degrading bacteria. We also measured colouration of throat and back feathers, and of leg and beak integuments. This information was collected during the pre-laying and nestling stages to compare values from these two periods. We found an increase in the plasma antagonistic index from the pre-laying to the nestling period, while a decrease on the plasma capacity of agglutination of foreign antigens. Both plasma antagonistic index and humoral immune response measured before breeding were positively related to future female reproductive success. In addition, the level of antimicrobial capacity was related to colouration of leg skin and beak integuments and of back feathers. These associations suggest that, similar to males, females might show through their physical appearance their capacity to fight microbial infections; information that could be evaluated by their potential partners and by female competitors.</p>
Practice of antibiotics use and awareness of antimicrobial resistance among undergraduate medical students
<p>Antibiotic resistance is one of the actual problems associated with the irrational use of antibiotics</p> <p>The aim of study is to investigate practice of antibiotics use and awareness of antimicrobial resistance among undergraduate medical students Siberian State Medical University (SSMU).</p> <p>Material and methods. A self-administered online questionnaire was used to assess the practice of antibiotic use and awareness of antimicrobial resistance among 5-6 year students of GP and pediatrician faculties of Siberian State Medical University.</p> <p>Results. 334 students took part in the survey. During the last year, 58.1% of respondents used antibacterial drugs. The leading reasons for the use of antibiotics were: angina - 47.3%, viral infection of upper airway- 24.4%, sinusitis and / or otitis - 20.2%, urinary tract infections - 18.3%, bronchitis - 11.5%, pneumonia - 8 %, acute intestinal infections - 5.7%. The most frequently used: amoxicillin / clavulanic acid -57.6%, amoxicillin - 29%, azithromycin - 19.4%, ciprofloxacin - 13.4%, cephalosporins of the 3rd generation - 8.1%, clarithromycin - 7.6%. Most of the students used antibiotics as prescribed by a doctor (58.8%) and adhered to the duration of treatment prescribed by the doctor. The vast majority of students (99.4%) are aware of the problem of antibiotic resistance and 95.8% consider this problem important for Russian medicine.</p> <p>Conclusions. Undergraduate students of the Siberian State Medical University demonstrated adherence to medical recommendations regarding the use of antibiotics and a high awareness of the problem of antibiotic resistance.</p>
Figure 8 from: Bulbul MZH, Chowdhury TS, Misbah MMH, Ferdous J, Dey S, Hasan I, Fujii Y, Ozeki Y, Kawsar SMA (2021) Synthesis of new series of pyrimidine nucleoside derivatives bearing the acyl moieties as potential antimicrobial agents. Pharmacia 68(1): 23-34. https://doi.org/10.3897/pharmacia.68.e56543
Figure 8 Structures of compounds 7 (octanoyl derivative), 9 (myristoyl derivative), and 14 (dichloroacetyl derivative).
Scheme 1 from: Bulbul MZH, Chowdhury TS, Misbah MMH, Ferdous J, Dey S, Hasan I, Fujii Y, Ozeki Y, Kawsar SMA (2021) Synthesis of new series of pyrimidine nucleoside derivatives bearing the acyl moieties as potential antimicrobial agents. Pharmacia 68(1): 23-34. https://doi.org/10.3897/pharmacia.68.e56543
Scheme 1 Reagents and conditions: (a) dry Py, (C6H5)3COCl, –5 °C, 6 h, (70%; Rf = 0.52); (b) dry Py, various acyl halides (3–14), 0 °C to rt, DMAP, 6 h.
Figure 5 from: Bulbul MZH, Chowdhury TS, Misbah MMH, Ferdous J, Dey S, Hasan I, Fujii Y, Ozeki Y, Kawsar SMA (2021) Synthesis of new series of pyrimidine nucleoside derivatives bearing the acyl moieties as potential antimicrobial agents. Pharmacia 68(1): 23-34. https://doi.org/10.3897/pharmacia.68.e56543
Figure 5 Percentage zone of mycelial growth inhibition for compounds 3 and 11 against A. niger (A and B, respectively). DMSO represents the negative control, whereas nystatin is the positive control.
Figure 2 from: Bulbul MZH, Chowdhury TS, Misbah MMH, Ferdous J, Dey S, Hasan I, Fujii Y, Ozeki Y, Kawsar SMA (2021) Synthesis of new series of pyrimidine nucleoside derivatives bearing the acyl moieties as potential antimicrobial agents. Pharmacia 68(1): 23-34. https://doi.org/10.3897/pharmacia.68.e56543
Figure 2 Percentage of inhibition observed for A) B. subtilis by compounds 7, 9, and 8; B) E. coli by compounds 2, 4, and 9; C) S. abony by compounds 7, 9, and 14; and D) S. aureus by compounds 7, 9, and 14. DMSO was the negative control, whereas azithromycin represented the positive control.
Figure 7 from: Bulbul MZH, Chowdhury TS, Misbah MMH, Ferdous J, Dey S, Hasan I, Fujii Y, Ozeki Y, Kawsar SMA (2021) Synthesis of new series of pyrimidine nucleoside derivatives bearing the acyl moieties as potential antimicrobial agents. Pharmacia 68(1): 23-34. https://doi.org/10.3897/pharmacia.68.e56543
Figure 7 Percentage growth inhibition observed for various concentrations of compound 9. Right figure 96-well flat-bottom experiment.
Figure 1 from: Hrytsyk RA, Kutsyk RV, Yurchyshyn OI, Struk ОА, Kireev IV, Grytsyk AR (2021) The investigation of antimicrobial and antifungal activity of some Artemisia L. species. Pharmacia 68(1): 93-100. https://doi.org/10.3897/pharmacia.68.e47521
Figure 1 Antimicrobial activity of Artemisia absinthium L., Artemisia vulgaris L., Artemisia abrotanum L. extracts in relation to the test cultures of microorganisms: АEsherichia coli, BStaphylococcus epidermidis, CCandida tropicalis, DAspergillus niger, EEnterococcus faecalis, FStaphylococcus aureus
Scheme from: Matiichuk Y, Gorak Y, Martyak R, Chaban T, Ogurtsov V, Chaban I, Matiychuk V (2021) Synthesis and antimicrobial activity of 4-(5-ARYL-2-FUROYL)morpholines and 4-[(5-ARYL-2-FURYL)carbonothioyl] morpholines. Pharmacia 68(1): 175-179. https://doi.org/10.3897/pharmacia.68.e46942
Scheme Synthesis of 4-(5-aryl-2-furoyl)morpholines and 4-[(5-aryl-2-furyl)carbonothioyl] morpholines.
Data from: Increased survival of experimentally evolved antimicrobial peptide-resistant Staphylococcus aureus in an animal host
Antimicrobial peptides (AMPs) have been proposed as new class of antimicrobial drugs, following the increasing prevalence of bacteria resistant to antibiotics. Synthetic AMPs are functional analogues of highly evolutionarily conserved immune effectors in animals and plants, produced in response to microbial infection. Therefore, the proposed therapeutic use of AMPs bears the risk of 'arming the enemy': bacteria that evolve resistance to AMPs may be cross-resistant to immune effectors (AMPs) in their hosts. We used a panel of populations of Staphylococcus aureus that were experimentally selected for resistance to a suite of individual AMPs and antibiotics to investigate the 'arming the enemy' hypothesis. We tested whether the selected strains showed higher survival in an insect model (Tenebrio molitor) and cross-resistance against other antimicrobials in vitro. A population selected for resistance to the antimicrobial peptide iseganan showed increased in vivo survival, but was not more virulent. We suggest that increased survival of AMP-resistant bacteria almost certainly poses problems to immune-compromised hosts.
Data from: Modeling the growth and decline of pathogen effective population size provides insight into epidemic dynamics and drivers of antimicrobial resistance
Non-parametric population genetic modeling provides a simple and flexible approach for studying demographic history and epidemic dynamics using pathogen sequence data. Existing Bayesian approaches are premised on stochastic processes with stationary increments which may provide an unrealistic prior for epidemic histories which feature extended period of exponential growth or decline. We show that non-parametric models defined in terms of the growth rate of the effective population size can provide a more realistic prior for epidemic history. We propose a non-parametric autoregressive model on the growth rate as a prior for effective population size, which corresponds to the dynamics expected under many epidemic situations. We demonstrate the use of this model within a Bayesian phylodynamic inference framework. Our method correctly reconstructs trends of epidemic growth and decline from pathogen genealogies even when genealogical data is sparse and conventional skyline estimators erroneously predict stable population size. We also propose a regression approach for relating growth rates of pathogen effective population size and time-varying variables that may impact the replicative fitness of a pathogen. The model is applied to real data from rabies virus and Staphylococcus aureus epidemics. We find a close correspondence between the estimated growth rates of a lineage of methicillin-resistant S. aureus and population-level prescription rates of beta-lactam antibiotics. The new models are implemented in an open source R package called skygrowth which is available at https://github.com/mrc-ide/skygrowth.
Data from: The genetic basis of the fitness costs of antimicrobial resistance: a meta-analysis approach
The evolution of antibiotic resistance carries a fitness cost, expressed in terms of reduced competitive ability in the absence of antibiotics. This cost plays a key role in the dynamics of resistance by generating selection against resistance when bacteria encounter an antibiotic-free environment. Previous work has shown that the cost of resistance is highly variable, but the underlying causes remain poorly understood. Here, we use a meta-analysis of the published resistance literature to determine how the genetic basis of resistance influences its cost. We find that on average chromosomal resistance mutations carry a larger cost than acquiring resistance via a plasmid. This may explain why resistance often evolves by plasmid acquisition. Second, we find that the cost of plasmid acquisition increases with the breadth of its resistance range. This suggests a potentially important limit on the evolution of extensive multidrug resistance via plasmids. We also find that epistasis can significantly alter the cost of mutational resistance. Overall, our study shows that the cost of antimicrobial resistance can be partially explained by its genetic basis. It also highlights both the danger associated with plasmidborne resistance and the need to understand why resistance plasmids carry a relatively low cost.
Data from: Wood ants produce a potent antimicrobial agent by applying formic acid on tree-collected resin
Wood ants fight pathogens by incorporating tree resin with antimicrobial properties into their nests. They also produce large quantities of formic acid in their venom gland, which they readily spray to defend or disinfect their nest. Mixing chemicals to produce powerful antibiotics is common practice in human medicine, yet evidence for the use of such "defensive cocktails" by animals remains scant. Here, we test the hypothesis that wood ants enhance the antifungal activity of tree resin by treating it with formic acid. In a series of experiments, we document that (i) tree resin had much higher inhibitory activity against the common entomopathogenic fungus Metarhizium brunneum after having been in contact with ants, while no such effect was detected for other nest materials; (ii) wood ants applied significant amounts of endogenous formic and succinic acid on resin and other nest materials; and (iii) the application of synthetic formic acid greatly increased the antifungal activity of resin, but had no such effect when applied to inert glass material. Together, these results demonstrate that wood ants obtain an effective protection against a detrimental microorganism by mixing endogenous and plant-acquired chemical defenses. In conclusion, the ability to synergistically combine antimicrobial substances of diverse origins is not restricted to humans and may play an important role in insect societies.
Data from: A 1,000-year-old antimicrobial remedy with antistaphylococcal activity
Plant-derived compounds and other natural substances are a rich potential source of compounds that kill or attenuate pathogens that are resistant to current antibiotics. Medieval societies used a range of these natural substances to treat conditions clearly recognizable to the modern eye as microbial infections, and there has been much debate over the likely efficacy of these treatments. Our interdisciplinary team, comprising researchers from both sciences and humanities, identified and reconstructed a potential remedy for Staphylococcus aureus infection from a 10th century Anglo-Saxon leechbook. The remedy repeatedly killed established S. aureus biofilms in an in vitro model of soft tissue infection and killed methicillin-resistant S. aureus (MRSA) in a mouse chronic wound model. While the remedy contained several ingredients that are individually known to have some antibacterial activity, full efficacy required the combined action of several ingredients, highlighting the scholarship of premodern doctors and the potential of ancient texts as a source of new antimicrobial agents.
Antimicrobial activity of G. mellonella hemolymph after infection with P. entomophila
<p>This file contains raw data for Fig. 4 DCI (2023) 147, 104749, data are available on request. The work was financed by National Science Centre, project number 2020/37/B/NZ6/00167</p>
Data from: Analysis of phytochemicals, antioxidants, and antimicrobial properties in non-polar extracts of Magnolia virginiana L. flowers from Saudi Arabia
<div> <p><em><span>Magnolia virginiana</span></em><span> (<em>M. virginiana</em>) L., a native North American plant, is globally cultivated for shade and ornamental purposes, including in Saudi Arabia. This study analyzed the chemical diversity and biological activity of non-polar extracts (n-hexane and diethyl ether) from <em>M. virginiana</em> flowers. The major components identified by </span><span>gas chromatography-mass spectroscopy (GC-MS) analysis were aromatic and aliphatic esters, triterpenes, steroids, and phenolic acids. The total phenolic content (TPC) of n-hexane and diethyl ether extracts was determined to be 29.66 and 29.44 mGAE/g, respectively. The extracts showed strong antioxidant activity, with the diethyl ether extract having more reducing power than the <em>n</em>-hexane extract. The diethyl ether extract also showed greater Trolox equivalent values in total antioxidant capacity (TAC) and ferric reducing antioxidant power (FRAP) assays, but the n-hexane extract exhibited higher metal chelating activity (MCA) and free radical scavenging activity (DPPH-SA) levels. The diethyl ether extract displayed stronger antimicrobial potential than the <em>n</em>-hexane extract, particularly against <em>Staphylococcus saprophyticus</em>, with a zone of inhibition diameter (ZID) of 20.0 ± 0.3 mm. The minimum inhibitory concentration (MIC), minimum biocidal concentration (MBC), minimum biofilm inhibitory concentration (MBIC), and minimum biofilm eradication concentration (MBEC) values were 0.78, 1.56, 1.56, and 3.125 mg/mL, respectively. </span></p> </div>
Figure 2 from: Vlasov SV, Borysov OV, Severina HI, Vlasov VS, Abu Sharkh AIM, Georgiyants VA (2024) Synthesis, in silico and in vitro antimicrobial activity of N-(benzyl)-5-methyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-6-carboxamides. Pharmacia 71: 1-9. https://doi.org/10.3897/pharmacia.71.e110013
Figure 2 Design strategy for target thieno[2,3-d]pyrimidines with benzyl amides fragment as antimicrobial activity.
Figure 4 from: Vlasov SV, Borysov OV, Severina HI, Vlasov VS, Abu Sharkh AIM, Georgiyants VA (2024) Synthesis, in silico and in vitro antimicrobial activity of N-(benzyl)-5-methyl-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-6-carboxamides. Pharmacia 71: 1-9. https://doi.org/10.3897/pharmacia.71.e110013
Figure 4 3D visualization of the compatible conformation the ligand 5.5 (blue molecule) and the reference inhibitor (yellow molecule) (Zhong et al. 2019) in the active site of TrmD P. aeruginosa.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.