Sampling events related to the project: Metagenomic analysis of antibiotic resistance microbial communities living in contaminated river water
Citation
Husserl J (2021). Sampling events related to the project: Metagenomic analysis of antibiotic resistance microbial communities living in contaminated river water. Universidad de los Andes. Sampling event dataset https://doi.org/10.15472/v9jgaf accessed via GBIF.org on 2022-05-22.Description
This dataset have information about the three sampling events associated with the project "Metagenomic analysis of antibiotic resistance microbial communities living in contaminated river water". Three sets of water samples were collected from Bogotá River, below Puente de Guadua (4°43’39.5N, 74°07’34.4’’W) in Bogotá, Colombia during the month of August, 2014. Water samples were centrifuged to obtain approximately 250 mg pellet. During the last day of sampling, enough pellet mass was obtained to conduct three separate DNA extractions (approximately 750 mg). Initial attempts were made to obtain biomass by filtration following typical river water protocols. However, the suspended solid concentration in the water samples form the Bogotá River was too high and filtration was unsuccessful. Therefore, centrifugation was used to obtain biomass. DNA was extracted from pellets using different methods and all the samples were combined to produce 250 μL (with a concentration of 86.9 ng/µL) and stored at -20°C until sent for sequencing. DNA was sequenced using the Illumina HiSeq2500 platform (Illumina, San Diego, CA) with a 2×100 PE configuration at Genewiz, NJ. Currently this event dataset does not have associeted occurrences, but in the future it will be enriched with the information of the microbial communities found through DNA sequencing process, including the DNA sequence details.Sampling Description
Study Extent
Three sets of water samples were collected from Bogotá River, below Puente de Guadua (4°43’39.5N, 74°07’34.4’’W) in Bogotá, Colombia during three days of october, 2014.Sampling
Three sets of water samples were collected from Bogotá River during the month of Ocotober, 2014. Samples were collected in sterile bottles at a depth of 30 cm and stored in ice until processed in the laboratory on the same day they were collected.Method steps
- Samples were collected in sterile 1 L polypropylene bottles at a depth of 30 cm and stored in ice until processed in the laboratory on the same day they were collected. Water samples were centrifuged at 2890 RPM (1360 G) for 15 minutes in 15 mL-Falcon Centrifuge Tubes. Enough water was centrifuged each time to obtain approximately 250 mg pellet. During the last day of sampling, enough pellet mass was obtained to conduct three separate DNA extractions (approximately 750 mg).
Taxonomic Coverages
Geographic Coverages
The sampling process was done in the Cota, Cundinamarca.
Bibliographic Citations
Contacts
Johana Husserloriginator
position: Assistant Professor
Universidad de los Andes
Carrera Primera #18 A-12
Bogotá, D.C.
111711
Bogotá, D.C
CO
Telephone: +5713394949
email: jhusserl@uniandes.edu.co
userId: http://scholar.google.com/citations?user=_HitOO8AAAAJ&hl
Johana Husserl
metadata author
position: Assistant Professor
Universidad de los Andes
Carrera Primera #18 A-12
Bogotá, D.C.
111711
Bogotá, D.C
CO
Telephone: +5713394949
email: jhusserl@uniandes.edu.co
userId: http://scholar.google.com/citations?user=_HitOO8AAAAJ&hl
Johana Husserl
administrative point of contact
position: Assistant Professor
Universidad de los Andes
Carrera Primera #18 A-12
Bogotá, D.C.
111711
Bogotá, D.C
CO
Telephone: +5713394949
email: jhusserl@uniandes.edu.co
userId: http://scholar.google.com/citations?user=_HitOO8AAAAJ&hl