unspecified sequencing; qiime_experiment_2382:1263431:84
Samples of roots, leaves, soil and rhizosphere from several vineyards in CA
This analysis was done as in Caporaso et al 2011 Genome research. The PCR primers (F515/R806) were developed against the V4 region of the 16S rRNA (both bacteria and archaea), which we determined would yield optimal community clustering with reads of this length using a procedure similar to that of ref. 15. [For reference, this primer pair amplifies the region 533_786 in the Escherichia coli strain 83972 sequence (greengenes accession no. prokMSA_id:470367).] The reverse PCR primer is barcoded with a 12-base error-correcting Golay code to facilitate multiplexing of up to ?1,500 samples per lane, and both PCR primers contain sequencer adapter regions.
CCME-COLORADO
qiime_experiment_2382:1263431:84
Colorado Center for Microbial Ecology, University of Colorado at Boulder
qiime_experiment_2382:1263431:84
experiment_title
Gilbert_Merlot_Microbiome
target_subfragment
V4
sample_center
CCME
sequencing_meth
sequencing by synthesis
run_date
4/23/13
experiment_center
CCME
pcr_primers
FWD:GTGCCAGCMGCCGCGGTAA; REV:GGACTACHVGGGTWTCTAAT
run_center
CCME
num_sequences
100750
platform
Illumina
library_construction_protocol
This analysis was done as in Caporaso et al 2011 Genome research. The PCR primers (F515/R806) were developed against the V4 region of the 16S rRNA (both bacteria and archaea), which we determined would yield optimal community clustering with reads of this length using a procedure similar to that of ref. 15. [For reference, this primer pair amplifies the region 533_786 in the Escherichia coli strain 83972 sequence (greengenes accession no. prokMSA_id:470367).] The reverse PCR primer is barcoded with a 12-base error-correcting Golay code to facilitate multiplexing of up to ?1,500 samples per lane, and both PCR primers contain sequencer adapter regions.
experiment_design_description
Samples of roots, leaves, soil and rhizosphere from several vineyards in CA
row_number
84
target_gene
16S rRNA
study_center
CCME