Details zur Publikation |
| Kategorie | Textpublikation |
| Referenztyp | Zeitschriften |
| DOI | 10.1016/j.isci.2024.111249 |
Lizenz  |
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| Titel (primär) | Revealing taxonomy, activity, and substrate assimilation in mixed bacterial communities by GroEL-proteotyping-based stable isotope probing |
| Autor | Klaes, S.
; Madan, S.; Deobald, D.
; Cooper, M.; Adrian, L.
|
| Quelle | iScience |
| Erscheinungsjahr | 2024 |
| Department | MEB |
| Band/Volume | 27 |
| Heft | 12 |
| Seite von | art. 111249 |
| Sprache | englisch |
| Topic | T7 Bioeconomy |
| Abstract | Protein-based stable isotope probing (protein-SIP) can link microbial taxa to substrate assimilation. Traditionally, protein-SIP requires a sample-specific metagenome-derived database for samples with unknown composition. Here, we describe GroEL-prototyping-based stable isotope probing (GroEL-SIP), that uses GroEL as a taxonomic marker protein to identify bacterial taxa (GroEL-proteotyping) coupled to SIP directly linking identified taxa to substrate consumption. GroEL-SIP’s main advantages are that i) it can be performed with a sample-independent database and ii) sample complexity can be reduced by enriching GroEL proteins, increasing sensitivity and reducing instrument time. We applied GroEL-SIP to pure cultures, synthetic bicultures, and a human gut model using 2H-, 18O-, and 13C-labeled substrates. While 2H and 18O allowed assessing general activity, 13C enabled differentiation of substrate source and utilized metabolic pathways. GroEL-SIP offers fast and straightforward protein-SIP analyses of highly abundant families in mixed bacterial communities, but further work is needed to improve sensitivity, resolution, and database coverage. |
| Klaes, S., Madan, S., Deobald, D., Cooper, M., Adrian, L. (2024): Revealing taxonomy, activity, and substrate assimilation in mixed bacterial communities by GroEL-proteotyping-based stable isotope probing iScience 27 (12), art. 111249 10.1016/j.isci.2024.111249 |
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