Microorganism: Culture and single cell analysis

The main purpose of the Z2-project is the development of a platform that allows the isolation and identification of microorganisms associated with animal and plant metaorganisms that will be studied within the CRC 1182 using standardized tools throughout all subprojects. Established methods and media for microbial cultivation as well as cutting edge tools for separating and analyzing single cells will be employed towards this goal. Overall we aim to achieve a high standardization of:

(i) isolation and identification of host-associated microorganisms, which are difficult to enrich and to grow in pure cultures, including development of new tools, and

(ii) of hosts’ microbial community structure analysis by 16S rRNA sequencing approaches by coordinated protocols for DNA extraction, in order to guarantee comparable data sets of host associated consortia throughout all CRC 1182 projects.

(iii) Furthermore, fluorescence activated cell sorting (FACS) will be employed as a tool to singularize individual microbial or eukaryotic cells from complex consortia and allow single cell analysis (e.g. single cell genomics) as well as cultivation of slow growing bacteria.


Julia-Vanessa Böge

Kiel University Institute for General Microbiology GEOMAR - Helmholtz Centre for Ocean Research Kiel



CRC1182 PublicationShedding light on cell compartmentation in the candidate phylum Poribacteria by high resolution visualisation and transcriptional profiling.

Jahn M T, Markert S M, Ryu T, Ravasi T, Stigloher C, U Hentschel, Moitinho-Silva L (2016); Scientific Reports, 6:35860. doi: 10.1038/srep35860