title: Microarray (phylochip) analysis of freshwater pathogens at several sites along the Northern German coast transecting both estuarine and freshwaters.
abstract: Monitoring the quality of drinking water is an important issue for public health. Two of the main objectives of the European Project μAQUA were (i) the development of specific probes to detect and quantify pathogens in drinking water and (ii) the design of standardized sampling programs of water from different sources in Europe in order to obtain sufficient material for downstream analysis. Our phylochip contains barcodes that specifically identify freshwater pathogens for enabling the detection of organisms that can be risks for human health. Monitoring for organisms with molecular tools is rapid, more accurate and more reliable than traditional methods. Rapid detection means that mitigation strategies come into play faster with less harm to the community and to humans. Samples were collected from several waters in France, Germany, Ireland, Italy and Turkey over 2 years. We present microarray results for the presence of freshwater pathogens from brackish and freshwater sites in Northern Germany, and cyanobacterial cell numbers inferred from these sites. In a companion study from the same samples, cyanobacterial toxins were analyzed using two methods and those sites with highest toxin values also had highest cell numbers as inferred from this microarray study.
authors.affiliation: Sorbonne Universités, UPMC University Paris 06, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, (LBBM), Observatoire Océanologique, F-66650, Banyuls/Mer, France.
authors.forename: Julia
authors.initials: J
authors.lastname: Baudart
authors.affiliation: Microbia Environnement, Avenue de Fontaule, 66550, Banyuls sur Mer, France.
authors.forename: Delphine
authors.initials: D
authors.lastname: Guillebault
authors.affiliation: MariLim Aquatic Research, GmbH Heinrich-Wöhlk-Str.14, 24232, Kiel, Germany.
authors.forename: Erik
authors.initials: E
authors.lastname: Mielke
authors.affiliation: MariLim Aquatic Research, GmbH Heinrich-Wöhlk-Str.14, 24232, Kiel, Germany.
authors.forename: Thomas
authors.initials: T
authors.lastname: Meyer
authors.affiliation: Scienion AG, Volmerstr. 7b, 12489, Berlin, Germany.
authors.forename: Neeraj
authors.initials: N
authors.lastname: Tandon
authors.affiliation: Scienion AG, Volmerstr. 7b, 12489, Berlin, Germany.
authors.forename: Sabine
authors.initials: S
authors.lastname: Fischer
authors.affiliation: Scienion AG, Volmerstr. 7b, 12489, Berlin, Germany.
authors.forename: Wilfried
authors.initials: W
authors.lastname: Weigel
authors.affiliation: Marine Biological Association of the UK, The Citadel, Plymouth, PL1 2PB, UK. lkm@mba.ac.uk.
authors.forename: Linda K
authors.initials: LK
authors.lastname: Medlin
mesh_terms: D001427:Bacterial Toxins / Q000032:analysis* / Q000235:genetics; D000458:Cyanobacteria / Q000145:classification / Q000235:genetics / Q000302:isolation & purification*; D005618:Fresh Water / Q000382:microbiology*; D005858:Germany; D006801:Humans; D046228:Microarray Analysis / Q000379:methods*; D012623:Seawater / Q000382:microbiology*
chemical_list: D001427:Bacterial Toxins
keywords: Cyanobacteria; Freshwater pathogens; Microarray; Molecular barcodes; Phylochips