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Dataset results
160 results for “molecular detection”
Underlying data for 'Rapid molecular assays for the detection of the four dengue viruses in infected mosquitoes'
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Data from: Comparative patterns of temporal decay and detectability of eDNA and eRNA across molecular markers in connected and isolated freshwater mesocosms using digital PCR
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Data from: Molecular analysis of carnivore Protoparvovirus detected in white blood cells of naturally infected cats
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Detection of gene function - bioinformatics and molecular methods
<p>On December 28, 2020, we organized the first 1st IPANEMA Invited Scientific Online Lecture. The lecture was held by Mladen Petreš, from the Faculty of Agriculture, University of Novi Sad. Through this lecture, our researchers had a chance to learn more about the detection of gene function - bioinformatics and molecular methods.</p>
Data from: Molecular detection of trophic links in a complex insect host-parasitoid food web
Previously, host-parasitoid links have been unveiled almost exclusively by time-intensive rearing, while molecular methods were used only in simple agricultural host-parasitoid systems in the form of species specific primers. Here we present a general method for molecular detection of these links applied to a complex caterpillar-parasitoid food web from tropical rainforest of Papua New Guinea. We DNA barcoded hosts, parasitoids and their tissue remnants and matched the sequences to our extensive library of local species. We were thus able to match 87% of host sequences and 36% of parasitoid sequences to species, and infer subfamily or family in almost all cases. Our analysis affirmed 93 hitherto unknown trophic links between 37 host species from a wide range of Lepidoptera families and 46 parasitoid species from Hymenoptera and Diptera by identifying DNA sequences for both the host and the parasitoid involved in the interaction. Molecular detection proved especially useful in cases where distinguishing host species in caterpillar stage was difficult morphologically, or when the caterpillar died during rearing. We have even detected a case of extreme parasitoid specialization in a pair of Choreutis species which do not differ in caterpillar morphology and ecology. Using the molecular approach outlined here leads to better understanding of parasitoid host specificity, opens new possibilities for rapid surveys of food web structure and allows inference of species associations not already anticipated.
Data from: Improving PCR detection of prey in molecular diet studies: importance of group-specific primer set selection and extraction protocol performances
While morphological identification of prey remains in feces of predators is the method most commonly used to study trophic interactions, many studies indicate that this method does not detect all consumed prey. Polymerase Chain Reaction based methods are increasingly used to detect prey DNA in the predator food bolus and have proved themselves efficient, with high accuracy. When studying complex diet samples, the extraction of total DNA is a critical step, as PCR inhibitors may be co-extracted. Another critical step consist in carefully select suitable group-specific primer sets that should only amplify prey DNA from the targeted taxon. In this study, the food boluses of five Rattus rattus and seven Rattus exulans were analyzed using both morphological and molecular methods. We tested a panel of 30 PCR specific primer sets targeting Bird, Invertebrate and Plant sequences and four were finally selected to be use as group-specific primer pairs in PCR protocols. The performances of four DNA extraction protocols (QIAamp DNA stool mini kit, DNeasy mericon food kit and two CTAB-based methods) were compared using four variables: DNA concentration, A260/A280 absorbance ratio, food compartment analyzed (stomach or fecal contents), total number of prey specific PCR amplification per sample. Our results clearly indicate that the A260/A280 absorbance ratio, which varies between extraction protocols, is positively correlated to the number of PCR amplifications of each prey taxon. We recommend using the DNeasy mericon food kit (Qiagen), which yielded results very similar to those achieved with the morphological approach.
Molecular assays to detect the presence and viability of Phytophthora ramorum and Grosmannia clavigera
<p>Protocols for the RNA and DNA extractions, cDNA synthesis and qPCR and RT-qPCR for detecting and assessing viability of the Phytophthora ramorum and Grosmannia clavigera tree pathogens.</p>
Data from: Seasonally varying marine influences on the coastal ecosystem detected through molecular gut analysis
Terrestrial predators on marine shores benefit from the inflow of organisms and matter from the marine ecosystem, often causing very high predator densities and indirectly affecting the abundance of other prey species on shores. This indirect effect may be particularly strong if predators shift diets between seasons. We therefore quantified the seasonal variation in diet of two wolf spider species that dominate the shoreline predator community, using molecular gut content analyses with general primers to detect the full prey range. Across the season, spider diets changed, with predominantly terrestrial prey from May until July and predominantly marine prey (mainly chironomids) from August until October. This pattern coincided with a change in the spider age and size structure, and prey abundance data and resource selection analyses suggest that the higher consumption of chironomids during autumn is due to an ontogenetic diet shift rather than to variation in prey abundance. The analyses suggested that small dipterans with a weak flight capacity, such as Chironomidae, Sphaeroceridae, Scatopsidae and Ephydridae, were overrepresented in the gut of small juvenile spiders during autumn, whereas larger, more robust prey, such as Lepidoptera, Anthomyidae and Dolichopodidae, were overrepresented in the diet of adult spiders during spring. The effect of this inflow may be that the survival and growth of juvenile spiders is higher in areas with high chironomid abundances, leading to higher densities of adult spiders and higher predation rates on the terrestrial prey next spring.
Twisting and tilting of a mechanosensitive molecular probe detects order in membranes
<p>Original data and procedures underlying Figures S11 and S12.</p> <p>Data can be viewed using freely distributed Origin Viewer (https://www.originlab.com/viewer/)</p>
Data from: Molecular detection of invertebrate prey in vertebrate diets: trophic ecology of Caribbean island lizards
Understanding community assembly and population dynamics frequently requires detailed knowledge of food web structure. For many consumers, obtaining precise information about diet composition has traditionally required sacrificing animals or other highly invasive procedures, generating tension between maintaining intact study populations and knowing what they eat. We developed 16S mitochondrial DNA sequencing methods to identify arthropods in the diets of generalist vertebrate predators without requiring a blocking primer. We demonstrate the utility of these methods for a common Caribbean lizard that has been intensively studied in the context of small island food webs: Anolis sagrei (a semi-arboreal 'trunk-ground' anole ecomorph). Novel PCR primers were identified in silico and tested in vitro. Illumina sequencing successfully characterized the arthropod component of 168 faecal DNA samples collected during three field trips spanning 12 months, revealing 217 molecular operational taxonomic units (mOTUs) from at least nine arthropod orders (including Araneae, Blattodea, Coleoptera, Hemiptera, Hymenoptera, Isoptera, Lepidoptera and Orthoptera). Three mOTUs (one beetle, one cockroach and one ant) were particularly frequent, occurring in ≥50% of samples, but the majority of mOTUs were infrequent (180, or 83%, occurred in ≤5% of samples). Species accumulation curves showed that dietary richness and composition were similar between size-dimorphic sexes; however, female lizards had greater per-sample dietary richness than males. Overall diet composition (but not richness) was significantly different across seasons, and we found more pronounced interindividual variation in December than in May. These methods will be generally useful in characterizing the diets of diverse insectivorous vertebrates.
Retention time with molecular mass detection for pemetrexed, PEG, GABA, Pemetrexed-PEG conjugate, Pemetrexed-GABA conjugate
<p>This data represent the Retention time with molecular mass detection for pemetrexed, PEG, GABA, Pemetrexed-PEG conjugate, Pemetrexed-GABA conjugate</p>
Molecular and structural insights into H2 indicator supraparticles: lowering the limit of detection by tuning incorporated catalyst nanoparticles
<p>Raw data from DRIFTS experiments, TEM and SEM microscopy, Zeta potential measurements, and TGA measurements for the article "Molecular and structural insights into H2 indicator supraparticles: lowering the limit of detection by tuning incorporated catalyst nanoparticles" published in Chemistry of Materials <a href="https://doi.org/10.1021/acs.chemmater.3c01105">https://doi.org/10.1021/acs.chemmater.3c01105</a>.</p>
Low-dose Molecular Breast Imaging: Comparison of Breast Cancer Detection Rate at Initial Screening and Two-year Follow-up
ClinicalTrials.gov study NCT01723124. IPD Sharing: NO. Countries: 1. Publications: 1.
Coronary Obstruction Detection by Molecular Personalized Gene Expression (Corus CAD or ASGES)
ClinicalTrials.gov study NCT01117506. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Exosome-based Detection of Molecular Residual Disease in Stage II-III Colorectal Cancer
ClinicalTrials.gov study NCT06654622. IPD Sharing: UNDECIDED. Countries: 1. Publications: 10.
RNASARC - Molecular Screening Program of Soft Tissue Sarcomas With Complex Genomic Profile to Detect NTRK1/2/3, ROS1 or ALK Gene Fusions.
ClinicalTrials.gov study NCT03375437. IPD Sharing: Not stated. Countries: 1. Publications: 14.
Molecular Biosensors for Detection of Bladder Cancer
ClinicalTrials.gov study NCT02957370. IPD Sharing: Not stated. Countries: 1. Publications: 38.
Pilot Study: Combined Molecular Breast Imaging/Ultrasound System for Diagnostic Evaluation of MBI-detected Lesions
ClinicalTrials.gov study NCT01806558. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Comparison Of Cytology And Molecular Screening For Detecting Cervical Reactive Cellular Changes In General Population
ClinicalTrials.gov study NCT07211204. IPD Sharing: NO. Countries: 1. Publications: 36.
Molecular Detection of Antibiotic Resistance and H Pylori Eradication
ClinicalTrials.gov study NCT01168063. IPD Sharing: Not stated. Countries: 1. Publications: 2.
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.