High throughput in situ metagenomic measurement of bacterial replication at ultra-low sequencing coverage.
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ABSTRACT:
SUBMITTER: Emiola A
PROVIDER: S-EPMC6251912 | biostudies-literature | 2018 Nov
REPOSITORIES: biostudies-literature
Publications
High throughput in situ metagenomic measurement of bacterial replication at ultra-low sequencing coverage.
Nature communications 20181123 1
We developed Growth Rate InDex (GRiD) for estimating in situ growth rates of ultra-low coverage (>0.2×) and de novo-assembled metagenomes. Applying GRiD to human and environmental metagenomic datasets to demonstrate its versatility, we uncovered new associations with previously uncharacterized bacteria whose growth rates were associated with several disease characteristics or environmental interactions. In addition, with GRiD-MG (metagenomic), a high-throughput implementation of GRiD, we estimat ...[more]
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