Mammal Collection (Pathogen Extracts [Ear Tissue]) (NEON-MAMC-PEEA)

Bionomia dataset badge

This collection contains genetic extracts from ear punch (tissue) samples that were collected from select small mammals during small mammal sampling and sent for testing for tick-borne pathogens (NEON sample class: rpt2_pathogentesting_in.earExtract). Small mammal sampling is based on the lunar calendar, with timing of sampling constrained to occur within 10 days before or after the new moon. Typically, core sites are sampled 6 times per year, and relocatable sites 4 times per year. Small mammals are sampled using box traps (models LFA, XLK, H.B. Sherman Traps, Inc., Tallahassee, FL, USA). Box traps are arrayed in three to eight (depending on the size of the site) 10 x 10 grids with 10m spacing between traps at all sites. Small mammal trapping bouts are comprised of one or three nights of trapping, depending on whether a grid is designated for pathogen sample collection (3 nights) or not (1 night). A subset of captured small mammals have tissues sampled (ear punch) for archive, DNA analysis or pathogen testing. Ear punches are collected once per life of an individual. Ear samples are placed on dry ice in the field and stored at -80 degrees Celsius. Ear tissue samples are tested via PCR individually for a variety of tick-borne pathogens. Pathogen extracts from the University of Massachusetts Laboratory of Medical Zoology typically contain total nucleic acid concentrations of 0.5-8 ng/ul and are archived at the NEON Biorepository in 2 mL cryovials and stored at -80 degrees Celsius. See related links below for protocols and NEON related data products.

"Pathogen

Contacts: NEON Biorepository, biorepo@asu.edu
Collection Manager: Azhar Husain, azhar.husain@asu.edu
Small mammal box trapping data product: https://data.neonscience.org/data-products/DP1.10072.001
Small mammal sequences DNA barcode data product: https://data.neonscience.org/data-products/DP1.10076.001
Rodent pathogen status, hantavirus data product: https://data.neonscience.org/data-products/DP1.10064.001
Rodent pathogen status, tick-borne data product: https://data.neonscience.org/data-products/DP1.10064.002
Collection Type: Preserved Specimens
Management: Live Data managed directly within data portal
Global Unique Identifier: 690ebfa3-7e01-4550-816e-50821388df40
Digital Metadata: EML File
GBIF Dataset page: http://www.gbif.org/dataset/aac148ed-b2ab-4bec-8a1b-920f393ab865
Cite this collection:
NEON Biorepository Data Portal (2024). NEON Biorepository Mammal Collection (Pathogen Extracts [Ear Tissue]). Occurrence dataset https://doi.org/10.15468/p2ft3q accessed via the NEON Biorepository Data Portal, https://biorepo.neonscience.org/ on 2024-05-30.
Collection Statistics
  • 1,336 specimen records
  • 1,336 (100%) georeferenced
  • 1,336 (100%) identified to species
  • 4 families
  • 15 genera
  • 25 species
  • 25 total taxa (including subsp. and var.)
Extra Statistics
Show Geographic Distribution
Show Family Distribution