.png){kind=icon}
Return
Spatial profiling of microbial communities by sequential FISH with error-robust encoding
.png){kind=icon}
OA
AI
DOI：10.1038/s41467-023-37188-3.png)
.png){kind=icon}
.png){kind=icon}
Share.png){kind=icon}
Save
Abstract
En 中文
Spatial analysis of microbiomes at single cell resolution with high multiplexity and accuracy has remained challenging. Here we present spatial profiling of a microbiome using sequential error-robust fluorescence in situ hybridization (SEER-FISH), a highly multiplexed and accurate imaging method that allows mapping of microbial communities at micron-scale. We show that multiplexity of RNA profiling in microbiomes can be increased significantly by sequential rounds of probe hybridization and dissociation. Combined with error-correction strategies, we demonstrate that SEER-FISH enables accurate taxonomic identification in complex microbial communities. Using microbial communities composed of diverse bacterial taxa isolated from plant rhizospheres, we apply SEER-FISH to quantify the abundance of each taxon and map microbial biogeography on roots. At micron-scale, we identify clustering of microbial cells from multiple species on the rhizoplane. Under treatment of plant metabolites, we find spatial re-organization of microbial colonization along the root and alterations in spatial association among microbial taxa. Taken together, SEER-FISH provides a useful method for profiling the spatial ecology of complex microbial communities in situ.
Keywords:
IN-SITU HYBRIDIZATION
RIBOSOMAL-RNA
GUT
ORGANIZATION
REVEALS
ROOTS
BACTERIA
COLONIZATION
BIOGEOGRAPHY
PROMOTES
AI Summary
Key information extracted from the uploaded paper, including a brief overview, abstract, background, key highlights, visual analysis, and future outlook.
Journal
IF:
15.7
Papers:
9.4W
Citations:
91.2W
Organization
Cited Papers
ShareSaveUnearthing the genomes of plant-beneficial Pseudomonas model strains WCS358, WCS374 and WCS417.png)
BMC GENOMICSOAAI
BMC GENOMICSIF3.7
OAAIShareSaveShareSaveExecutioner Caspase-3 and 7 Deficiency Reduces Myocyte Number in the Developing Mouse HeartPLOS ONE
OAAI
PLOS ONEIF0
OAAIShareSavePinpointing secondary metabolites that shape the composition and function of the plant microbiomeOAAI
OAAIShareSaveShareSave
View more