Details zur Publikation

Referenztyp Buchkapitel
DOI / URL Link
Titel (primär) Identification of microorganisms in hydrocarbon-contaminated aquifer samples by fluorescence in situ hybridization (CARD-FISH)
Titel (sekundär) Hydrocarbon and lipid microbiology protocols. Ultrastructure and imaging
Autor Schattenhofer, M.; Hubalek, V.; Wendeberg, A.;
Herausgeber McGenity, T.J.; Timmis, K.N.; Nogales, B.;
Journal / Serie Springer Protocols Handbooks
Erscheinungsjahr 2016
Department UMB;
Sprache englisch;
POF III (gesamt) T41;
Keywords Aquifer; CARD-FISH; Cell quantification; Hydrocarbon contamination; Microbial community
UFZ Querschnittsthemen RU3;
Abstract

High loads of petroleum hydrocarbons in contaminated soils and sediments make these ecosystems difficult to study with molecular techniques. Among these sites, aquifers – environments with low turnover rates and, hence, slow-growing microbial communities–pose a great challenge for microbial ecologists.

Fluorescence produced by petroleum hydrocarbons coating sediment particles can be so strong that microscopic techniques are made impossible. Low microbial cell numbers pose further limitations for molecular analyses such as fluorescence in situ hybridization (FISH).

Here, we present a protocol for the separation of microbial cells from sediment samples of highly petroleum-contaminated aquifers. By excluding the strongly autofluorescing sediment particles, by concentrating microbial cells on membrane filters, and by using signal amplification in combination with FISH (CARD-FISH), we were able to quantify various microbial populations in this intriguing ecosystem.

ID 18197
dauerhafte UFZ-Verlinkung https://www.ufz.de/index.php?en=20939&ufzPublicationIdentifier=18197
Schattenhofer, M., Hubalek, V., Wendeberg, A. (2016):
Identification of microorganisms in hydrocarbon-contaminated aquifer samples by fluorescence in situ hybridization (CARD-FISH)
In: McGenity, T.J., Timmis, K.N., Nogales, B. (eds.)
Hydrocarbon and lipid microbiology protocols. Ultrastructure and imaging
Springer Protocols Handbooks
Springer, Berlin, Heidelberg, p. 103 - 113