Highly multiplexed spatial mapping of microbial communities.

ABSTRACT: Mapping the complex biogeography of microbial communities in situ with high taxonomic and spatial resolution poses a major challenge because of the high density¹ and rich diversity² of species in environmental microbiomes and the limitations of optical imaging technology^3-6. Here we introduce high-phylogenetic-resolution microbiome mapping by fluorescence in situ hybridization (HiPR-FISH), a versatile technology that uses binary encoding, spectral imaging and decoding based on machine learning to create micrometre-scale maps of the locations and identities of hundreds of microbial species in complex communities. We show that 10-bit HiPR-FISH can distinguish between 1,023 isolates of Escherichia coli, each fluorescently labelled with a unique binary barcode.

SUBMITTER: Shi H 

PROVIDER: S-EPMC8050837 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature