Physicochemical and bacteriological characteristics of water - Arcier watershed - 2020-2022 (2023)

[1] : Laboratoire Chrono-environnement (UMR 6249) (Université de Franche-Comté)
Description :
Physical characteristics, major ions, minor ions, trace elements measured from May 2020 to February 2022 in five sites of the Arcier karst watershed (Doubs, France), as well as at the Arcier spring.
These measurements were complemented by the acquisition of extended spectrum beta-lactamase (ESBL)-producing Escherichia coli concentrations. These bacterial strains are resistant to 3rd generation cephalosporins, an antibiotic widely used in human medicine.
Antibiotic resistance is a major public health problem and its environmental dispersion must be characterized.

The sequences of the 129 ESBL-producing Escherichia coli isolates are available on NCBI: BioProject 890617.
Disciplines :
microbiology (fundamental biology), physics, atomic, molecular & chemical (physics), environmental sciences (sciences of the universe), marine & freshwater biology (sciences of the universe), water resources (sciences of the universe)
Access details :
To access the data, please contact the scientific data manager.

General metadata

Data acquisition date : from 25 May 2020 to 21 Feb 2022
Data acquisition methods :
  • Experimental data :
    Water samples were collected every two weeks, in sterile bottles, stored at 4°C, and analysed for bacterial concentrations and physicochemical characteristics within 8 h and 24 h of collection, respectively.
    The water temperature, pH, electrical conductivity, redox potential, and concentration of oxygen were measured in situ at 10 cm water depth using a multiparameter Odeon probe (Ponsel Mesure, France). HCO3- concentrations have been determined within 6 h of water sampling by equilibration with H2SO4 acid. To determine the concentrations of total and dissolved organic carbon (TOC and DOC), total nitrogen, dissolved nitrogen, major ions, and traces, 500 ml of water were collected and filtered through 0.2 mm polycarbonate filters and analysed within 48 h of collection. The samples were kept at 4°C throughout the process. TOC, DOC, total nitrogen, and dissolved nitrogen concentrations were measured using a TOC analyser (Vario TOC Cube, Elementar, Germany). The NO3-, NO2-, SO42-, F-, and Cl- concentrations were measured using an ion chromatograph (ICS-1000, Dionex, USA). The N-NH4+ concentrations were measured using the indophenol blue method (Berthelot's reaction, Merck Spectroquant, Germany). The PO43- concentrations were measured using the molybdenum blue coloration method. The As3+, Ca2+, Cd2+, Co2+, Cr3+, Cu2+, Fe2+, K+, Mg2+, Mn2+, Mo2+, Na+, Ni2+, Pb2+, Sb3+, Se2-, Si2+, Sr2+, Ti2+, Tl+, and Zn2+ concentrations were measured using an inductively coupled plasma mass spectrometer (iCAP RQ ICP-MS, Thermo Fisher Scientific, USA).
    To measure the ESBL E. coli concentrations, aliquots of water (100 ml) were filtered through 0.45-µm membranes, which were then placed onto a chromID ESBL agar plate (bioMérieux, Marcy l’Etoile, France). When we suspected high bacterial concentrations, we only plated 50 ml of water on the selective media. The plates were incubated for 24 h at 37°C. Colonies were counted and classified according to their phenotype. After careful purification steps, each type of colony was identified using a MALDI-TOF MS spectrometer (Microflex 100 LT, Bruker Daltonics GmbH, Bremen, Germany) according to the manufacturer’s recommendations. For each morphotype of E. coli growing on chromID ESBL, the production of ESBL was detected using a synergy test following the recommendations of the Antibiogram Committee of the French Society for Microbiology. We stored the ESBL E. coli isolates in brain heart infusion broth supplemented with 30% glycerol at -80°C until further analysis.
Update periodicity : not planned
Language : English (eng)
Formats : application/vnd.openxmlformats-officedocument.spreadsheetml.sheet, text/csv
Audience : Community College, University: licence, University: master, Research


Spatial coverage :

  • bassin versant d'Arcier: latitude between 47° 17' 19" N and 47° 10' 11" N, longitude between 6° 2' 28" E and 6° 18' 17" E

Taxonomic coverage :

  • Concentrations d'Escherichia coli producteur de BLSE. Les séquences des isolats séquencés sont disponibles sur NCBI : BioProject 890617.
    Escherichia coli TAXREF (Escherichia coli)
Publications :
Projects and funders :
    • Projet structurant d'envergure (Region Bourgogne Franche-Comté)
    • Transkarst (Water agency)
    • ISITE-BFC (French National Agency for Research)
Record created 18 Jan 2023 by Charles Henriot.
Local identifier: FR-13002091000019-2023-01-18.


dat@Chrono is a sub-portal of dat@UBFC, a metadata catalogue for research data produced at UBFC.

Terms of use
Université de Bourgogne, Université de Franche-Comté, UTBM, AgroSup Dijon, ENSMM, BSB, Arts des Metiers