Protocols

All (1474)Explore Protocol Graph

1,474 protocols

sampling

GPS coordinate collection (Limnephilidae)

Hand-held GPS units were used to map study site locations and boundaries at Judd Falls sites.

spatial mapping1 paperhand-held GPS
measurement

GPS plot location mapping (Apidae)

Recording precise locations of study plots and nest locations using GPS equipment for spatial analysis and reference.

spatial positioning1 paperGeoXT Terrasync
operational

GPS unit checkout and data processing workflow

System for researchers to check out GPS units, collect field data, and receive processed results from department staff

equipment management1 paperGeoXT, Hiper Pro...
computational

GRASS GIS r.sun solar radiation model

Calculation of potential solar radiation at study sites using topographic variables including sun angle, latitude, ground slope, local shading, and day length.

spatial analysis1 paperGRASS GIS r.sun package
analytical

Generalized Linear Models (Insecta)

Statistical analysis using Gaussian-distributed generalized linear models with data transformation to meet normality assumptions. Includes paired experimental design controls.

statistical modeling1 paperR 3.0.1 statistical software
computational

Genetic bottleneck simulation and detection (Sciuridae)

Computer simulation of population genetic changes during bottlenecks using BOTTLESIM software combined with multiple analytical approaches to detect bottleneck signatures.

population genetics modeling1 paperBOTTLESIM software, BOTTLENECK software...
experimental

Genome-wide Association Study (Plantae)

Researchers employ manipulative provenance trials with pedigreed populations or GWAS panels planted into multiple gardens arrayed across environmental gradients, manipulating key environmental factors...

environmental manipulation1 paper
observational

Geological field mapping

Systematic field investigation and mapping of vein systems, structural relationships, and ore distributions in mining districts. Includes documentation of fracture patterns, vein orientations, and spa...

geological mapping1 papergeological mapping tools
sampling

Geological field sampling for thermochronology

Collection of rock samples from specific geographic locations in mountainous terrain for subsequent thermochronological analysis. Samples are GPS-located and systematically labeled for tracking throug...

geological1 paperGPS units for location marking, rock sampling tools
analytical

Geostatistical analysis

Analysis of spatial patterns in ecological data using geostatistical techniques to quantify spatial heterogeneity through nugget-to-sill ratios and autocorrelation ranges. This approach reveals patch ...

spatial statistics1 papermeasuring tapes, mapping equipment...
analytical

Global wetland macroinvertebrate assemblage analysis (144 families)

A comprehensive approach combining taxonomic standardization, climatic variable extraction, and statistical modeling to assess global patterns of wetland macroinvertebrate diversity in relation to cli...

community ecology1 paperWorldClim Global Climate Data v2.1, R software...
analytical

Glutathione reductase activity assay (Polemoniaceae)

Spectrophotometric measurement of glutathione reductase activity as an indicator of oxidative stress through GSSG-dependent oxidation of NAD(P)H at 340 nm.

biochemical1 paperMilton Roy Spectronic 401 spectrophotometer, Mortar and pestle...
analytical

Graphical NCE prediction model (Animalia)

A graphical framework that plots growth rate and predation rate as functions of defensive trait change to predict optimal trait expression and resulting nonconsumptive effects magnitude. The model dec...

theoretical modeling1 paper
sampling

Grassland warming experiment field sampling (Poaceae)

Collection of leaf and root tissues from dominant grass species in established warming experiments during growing season. Samples collected separately by tissue type and combined by species within plo...

field collection1 paperelectric heaters, infrared heaters...
measurement

Gravimetric water content determination

Fresh plant tissue is collected during peak hydration, weighed fresh, dried at controlled temperature, then reweighed to calculate water content as the difference between wet and dry weights.

physiological1 paperscale, drying oven...
analytical

Gumbel extreme-value extrapolation

Statistical method to extrapolate extreme event magnitudes (300-year return period) from historical data using extreme value distribution theory.

extreme value statistics1 paperstatistical analysis software for Gumbel extrapolation
analytical

HPLC (Plantae)

High-performance liquid chromatography analysis of anthocyanin production in both reproductive and vegetative plant tissues from dried herbarium specimens.

chemical analysis1 paperHPLC equipment
analytical

Habitat-based species classification (Picidae)

Classification of bird species into habitat preference categories based on published nesting preferences and local field observations to test habitat-specific responses to riparian proximity.

ecological classification1 paperpublished references (Ehrlich et al. 1988, Poole 2005), field observation records
sampling

Hair sample collection from social mammals (Vespertilionidae)

Systematic collection of hair samples from specific body sites of wild and captive mammals, targeting hair bulbs for DNA extraction.

field collection1 papergloved hands, surgical mosquito forceps...
sampling

Haphazard sampling technique for plant individuals (Plantae)

Random sampling method involving throwing a ruler and selecting nearest individual to avoid bias toward most visible plants.

spatial sampling1 paperruler
computational

HeFTy modeling

Forward modeling approach using HeFTy software to simulate time-temperature conditions and map out thermal history of samples by matching predicted ages to measured thermochronological data.

thermal history modeling1 paperHeFTy version 1.9.3 software
laboratory

Heated dimethyl sulfoxide matrix dissolution (Chondrichthyes)

Chemical breakdown of fossil-bearing sedimentary matrix using heated dimethyl sulfoxide to extract microvertebrate fossils for taxonomic identification.

fossil extraction1 paperheated dimethyl sulfoxide
laboratory

Hepatitis virus serological testing (Sciuridae)

Laboratory testing of mammalian sera for woodchuck hepatitis virus antigens, antibodies, and viral DNA polymerase activity using established protocols.

viral diagnostics1 paperlaboratory testing equipment for viral assays
sampling

Herbarium specimen preparation

Collection of plant specimens from field sites followed by proper labeling and preparation for herbarium storage to create reference collections for taxonomic study.

specimen preservation1 paperCollection materials, Herbarium labels
measurement

Hierarchical branch classification and measurement (Plantae)

A systematic approach to classifying willow branches by hierarchical position (primary, secondary, tertiary) and measuring diameters at specific locations relative to sap well positions, with size thr...

morphometric1 paperblue tree crayon, calipers
sampling

Hierarchical leaf trait sampling in aspen clones (Salicaceae)

Hierarchical sampling design with nested random effects (site, plot, tree, branch) to assess intraspecific trait variation while accounting for clonal structure. Multiple leaves collected per branch t...

functional traits1 paperportable photosynthesis system, drying oven...
analytical

Hierarchical multivariate covariance reaction norm modeling (Bovidae)

A Bayesian hierarchical model that allows phenotypic correlations between life history traits to vary continuously with environmental predictors using logit-link transformations. Accounts for both amo...

statistical modeling1 paperStan statistical language, R software...
measurement

High Spectral Resolution Lidar

High spectral resolution lidar measurement of aerosol backscatter profiles to detect aerosol layer boundaries and depth. Uses Haar Wavelet transform gradient detection to identify significant changes ...

atmospheric profiling1 paperHigh Spectral Resolution Lidar (HSRL)
measurement

High-frequency acoustic recording of bird sonations (Trochilidae)

High sampling rate audio recording and spectrographic analysis of mechanical sounds produced by birds during flight, including wing and tail-generated sonations.

acoustic recording1 papermicrophones with 192 kHz sampling capability, acoustic analysis software...
sampling

High-frequency river thorium monitoring

Frequent collection and ICP-MS analysis of river water samples to detect thorium concentration excursions as indicators of bedrock fracture processes. Samples collected up to daily frequency and analy...

water chemistry monitoring1 papersample bottles, 0.45 μm polyethersulfone syringe filters...
laboratory

High-pressure root washing (Plantae)

Separation of plant root systems from soil and rocks using high-pressure washing, followed by careful removal of inter-specific root networks and dead tissue.

specimen preparation1 paperhigh-pressure root washing station
analytical

High-resolution meander delineation using NHD and DEM data

Integration of USGS Digital Elevation Models with National Hydrography Dataset to accurately delineate stream meanders for hydrological modeling when standard DEM resolution is insufficient.

geospatial analysis1 paperUSGS Digital Elevation Models, National Hydrography Dataset (NHD)
observational

High-speed video analysis of hummingbird courtship dives (Trochilidae)

High-frame-rate video recording and motion tracking of wild hummingbird aerial courtship displays to quantify dive kinematics and timing. Uses GoPro cameras at 120 fps to capture rapid courtship behav...

behavioral recording1 paperGoPro cameras, motion tracking software...
analytical

Historical DBP trend analysis for watershed export assessment

Long-term analysis of drinking water treatment facility DBP concentrations to identify seasonal and decadal trends in organic matter export from source watersheds. Uses quarterly regulatory compliance...

water quality monitoring1 paperTableau version 2020.4
analytical

Historical census record linkage for dispersal analysis

Method for linking individuals in a historical cohort to their childhood census records using multiple matching criteria including name, birth date, birthplace, and parental information. Employs proba...

historical demography1 paper1880 US Census records, ancestry.com database...
analytical

Historical climate trend analysis (Pieridae)

Analysis of long-term temperature records from weather station data to characterize climate change trends and temperature frequency distributions over multi-decade periods.

climatological1 paperNational Climate Data Center database
observational

Historical cohort reconstruction from mining frontier records

Systematic identification of dispersers through newspaper records followed by retrospective family background analysis using census data. Compares family economic and demographic characteristics of lo...

demographic reconstruction1 paperhistorical newspapers, US Federal Census records...
analytical

Historical hunting regulation documentation and mapping (Aves)

Comprehensive compilation and spatial analysis of hunting season regulations across jurisdictions over 150-year period, including digitization of harvest boundaries and calculation of area-weighted re...

regulatory analysis1 paperArcMap version 10.2, literature sources...
analytical

Historical trapping record analysis (Dipodidae)

Retrospective analysis of existing long-term trapping data to examine relationships between capture success and environmental variables like distance to water and riparian vegetation.

spatial pattern analysis1 paperexisting census grid trap data
sampling

Human pressure point count surveys (Aves)

Four-minute point counts within 100m radius to quantify instantaneous and prolonged human activity including people, dogs, vehicles, and infrastructure. Provides measure of human disturbance pressure ...

human activity quantification1 papertimer, data recording materials
computational

Hybrid Single Particle Lagrangian Integrated Trajectory

Back-trajectory analysis to determine air mass origins and transport pathways for correlating with microplastic deposition patterns.

atmospheric modeling1 paperHybrid Single Particle Lagrangian Integrated Trajectory (HYSPLIT) model
computational

Hybrid soil thickness mapping using mass conservation and empirical methods

Combines process-based mass conservation equations with empirical curvature relationships to predict soil thickness. Applies different methods based on erosional vs depositional terrain classification...

geomorphological modeling1 paper0.5 m lidar DEM, GIS software...
analytical

Hypogene mineral zoning analysis

Systematic mapping and analysis of mineral assemblage distribution patterns from central pyritic zones to peripheral base-metal zones to understand paragenetic sequences and hydrothermal fluid evoluti...

mineralogical1 papergeological mapping tools
analytical

I3SPattern+ (Amphibia)

Quantitative analysis of biofluorescent patterns using mark-recapture identification software to generate similarity scores between individuals by comparing key pattern points.

pattern recognition1 paperI3SPattern+ software
analytical

ICP-AES elemental analysis

Acid digestion of plant and soil samples followed by Inductively Coupled Plasma-Atomic Emission Spectrometry to quantify metal concentrations in tissues. Standard laboratory protocol for elemental ana...

chemical analysis1 papernitrile gloves, plastic vials...
sampling

ICP-MS trace element analysis

Regular collection and analysis of stream water samples for dissolved rhenium concentrations using weekly manual sampling or automated systems with ICP-MS analysis.

hydrogeochemical monitoring1 paper1L bottles, gauging station...
computational

ITS phylogenetic reconstruction (Orobanchaceae)

Standard molecular phylogenetic approach using ITS sequences to reconstruct evolutionary relationships and calculate phylogenetic distances between plant species. Includes sequence alignment, tree inf...

phylogenetics1 paperR software, msa package...
analytical

IUCN Red List Area of Occupancy calculation

Calculation of species area of occupancy (AOO) using filtered GBIF occurrence records and standardized grid-based methods following IUCN guidelines for conservation assessment.

biogeographic analysis1 paperR software, red package...
analytical

IUCN Red List assessment (Apidae)

Analysis of conservation status patterns across bumble bee species categorized by tongue length using IUCN Red List assessments to test whether long-tongued species are more vulnerable.

conservation assessment1 paper
analytical

ImageJ fluorescence brightness quantification (Amphibia)

Digital image processing workflow using ImageJ to convert fluorescence images to grayscale, define anatomical regions of interest, and quantify maximum brightness values for statistical analysis.

image analysis1 paperImageJ software