RT Journal Article
SR Electronic
T1 Addition of insoluble fiber to isolation media allows for increased metabolite diversity of lab-cultivable microbes derived from zebrafish gut samples
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 854109
DO 10.1101/854109
A1 Alanna R. Condren
A1 Maria S Costa
A1 Natalia Rivera Sanchez
A1 Sindhu Konkapaka
A1 Kristin L Gallik
A1 Ankur Saxena
A1 Brian T Murphy
A1 Laura M Sanchez
YR 2019
UL http://biorxiv.org/content/early/2019/11/25/854109.abstract
AB There is a gap in measured microbial diversity when comparing genomic sequencing techniques versus cultivation from environmental samples in a laboratory setting. Standardized methods in artificial environments may not recapitulate the environmental conditions that native microbes require for optimal growth. For example, the intestinal tract houses microbes at various pH values as well as minimal oxygen and light environments. These microbes are also exposed to an atypical source of carbon: dietary fiber compacted in fecal matter. To investigate how the addition of insoluble fiber to isolation media could affect the cultivation of microbes from zebrafish intestines, an isolate library was built and analyzed using the bioinformatics pipeline IDBac. The addition of fiber led to an increase in bacterial growth and encouraged the growth of species from several phyla. Furthermore, fiber addition altered the metabolism of the cultivated gut-derived microbes and induced the production of unique metabolites that were not produced when microbes were otherwise grown on standard isolation media. Addition of this inexpensive carbon source to media supported the cultivation of a diverse community whose specialized metabolite production may more closely replicate their metabolite production in vivo.