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JoVE Journal Genetics
Exploring the Root Microbiome
 

Exploring the Root Microbiome: Extracting Bacterial Community Data from the Soil, Rhizosphere, and Root Endosphere

Article DOI: 10.3791/57561-v • 09:55 min • May 2nd, 2018
May 2nd, 2018 •
1, 1, 1, 1,2
1Department of Plant and Microbial Biology, University of California, Berkeley, 2Plant Gene Expression Center, USDA ARS

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Here, we describe a protocol to obtain amplicon sequence data of soil, rhizosphere, and root endosphere microbiomes. This information can be used to investigate the composition and diversity of plant-associated microbial communities, and is suitable for the use with a wide range of plant species.

Tags

Root Microbiome Bacterial Community Data Soil Rhizosphere Root Endosphere 16S Ribosomal RNA Gene Microbial Ecology Biotic Factors Abiotic Factors Microbiome Structure Technique Standardization DNA Extraction Sequencing Library Preparation Tuesday Simmons Coleman-Derr Laboratory Bulk Soil Samples Ethanol-sterilized Soil Core Collector Plastic Bag Soil Homogenization Two-milliliter Tube Dry Ice Root And Rhizosphere Collection Ethanol-sterilized Shovel
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