Data from: Opening the door to the past: accessing phylogenetic, pathogen, and population data from museum curated bees

Tens of thousands of insects are deposited in collections every year as a
result of survey-based studies that aim to investigate ecological
questions. DNA-based techniques can expand the utility of these
collections to explore their demographic and evolutionary history,
temporal changes in their abundance, and pathogen dynamics. Using museum
collections of the non-model bee species Eucera (Peponapis) pruinosa Say
1837 (Hymenoptera: Apidae: Eucerini), we developed a standard
minimally-destructive and budget-friendly protocol to extract DNA and
amplify common gene-fragments for barcoding, phylogenetic analysis, and
pathogens. We also generated genome-wide single nucleotide polymorphism
(SNP) data from DNA sequencing (ddRADseq) libraries for population
structure analyses. We systematically studied the effect of specimen age
(≤10 years ago) and tissue type (whole bees vs. abdomen) on DNA quality,
single gene-fragment amplification, and SNP calling. We found that all
analyses were achievable with both tissue types, yet with variable levels
of efficiency because of general DNA degradation. Specifically, we found
that not all samples yielded satisfactory results for molecular studies;
however, we did not find a systematic effect of specimen age on DNA
quality which is encouraging for future studies involving historical
specimens. We report the first evidence for the presence of the
microsporidian pathogen Nosema spp. in squash bees, opening a window for
the study of historical changes in disease pressure in this important
agricultural pollinator. Our protocols can be used as a template for the
design of future experiments that extract multiple pieces of information
using DNA-based methods from insect museum stored specimens.