Viability, culturability and DNA loss rate obtained for collected bacteria after filter and impingement-based sampling

DOI

Viability, culturability and DNA loss rate were obtained for collected bacteria after filter and impingement-based sampling. The sample extracts were spread on TSA plates. The inoculated TSA plates were incubated at 37℃ for 1 day, and colony forming units (CFUs) were counted for culturable fungi. Dual-fluorescence method for accurate viability analysis of test samples was performed. With an appropriate mixture of AO/PI, total cells were stained with AO whereas damaged cells were stained with PI. An epifluorescence microscope was used to count the test sample's bacterial cells on the filter at a magnification of 400x. The culturability is determined by percentage of CCFU in CAO while percentage of (CAO-CPI) in CAO is for viability. The qPCR was performed on LightCycler 480 for DNA quantification with universal primers of DG74 (5'-AGGAGGTGATCCAACCGCA-3') and RW01 (5'-AACTGGAGGAAGGTGGGGAT-3') targeting on a conserved 370-bp region of 16S rRNA gene. The DNA loss rate was determined by the ratio of DNA concentrations in the supernatant sample to total DNA concentrations in the entire sample (supernatant sample + pellet sample).

Microscopic method: (1) Bacterial cells in the samples were counted using a hemocytometer and light microscope. (2) AO/PI-stained cells were counted using an epifluorescence microscope.Cultivation method: Culturable bacterial cells were cultivated on TSA agar using the standard spread plate technique. Sampling method: The Button Sampler and BioSampler were employed as filter-based and liquid-impingement-based samplers, respectively.DNA extraction: DNA in bacterial cells was extracted using QIAmp DNA Mini Kit.DNA analysis: DNA analysis was performed using qPCR with the LightCycler 480.

Identifier
DOI https://doi.pangaea.de/10.1594/PANGAEA.974989
Metadata Access https://ws.pangaea.de/oai/provider?verb=GetRecord&metadataPrefix=datacite4&identifier=oai:pangaea.de:doi:10.1594/PANGAEA.974989
Provenance
Creator Lee, Shu-An; Low, Yee-Lynn; Adhikari, Atin; Wang, Wei-Kuang; Liang, Chih-Ming; Chang, Li-Te; Tsai, Chuen-Jinn
Publisher PANGAEA
Publication Year 2025
Funding Reference National Science and Technology Council, Taiwan https://doi.org/10.13039/501100004663 Crossref Funder ID MOST108-2221-E-035-055 Effect of Meteorological and Environmental Factors on DNA Contents and Diversity of Airborne Fungi Collected by Sampler
Rights Creative Commons Attribution 4.0 International; Data access is restricted (moratorium, sensitive data, license constraints); https://creativecommons.org/licenses/by/4.0/
OpenAccess false
Representation
Resource Type Dataset
Format text/tab-separated-values
Size 413 data points
Discipline Earth System Research
Spatial Coverage (120.647 LON, 24.179 LAT)
Temporal Coverage Begin 2021-02-01T08:00:00Z
Temporal Coverage End 2021-08-31T17:00:00Z