blank control
blank sample
Blank control extracted with water instead of sample. Treated like the other samples in the subsequent steps.
positive.control.type
Bacterial mock community of the following taxa: Bacillus subtilis (NCBI:txid1423), Chryseobacterium luteum, Clostridium roseum (NCBI:txid421531), Enterobacter mori (NCBI:txid539813), Franconibacter helveticus (NCBI:txid357240), Glycomyces tenuis (NCBI:txid58116), Pseudomonas fluorescens (NCBI:txid294), Pseudomonas putida (NCBI:txid303), Rhizobium endophyticum (NCBI:txid578290), Streptomyces acidiscabies (NCBI:txid42234), Variovorax guangxiensis (NCBI:txid1775474). Amplicons were generated individually for each taxon with the same conditions as for the other samples and pooled in equimolar manner after amplification.
collection date
missing: control sample
geographic.location..latitude.
missing: control sample
geographic.location..region.and.locality.
missing: control sample
plant.body.site
missing: control sample
host.common.name
missing: control sample
host.taxid
missing: control sample
project.name
Rhizo4Bio: RhizoTraits
pcr.conditions
initial denaturation:98degC_120s; denaturation:98degC_10s; annealing:55degC_30s; extension:72degC_30s; final extension:72degC_120s
pcr.primers
515f: 5'-GTGYCAGCMGCCGCGGTAA-3', 806RB: 5'-GGACTACNVGGGTWTCTAAT-3'
target.subfragment
V4
subspecific.genetic.lineage
missing: control sample
target.gene
16S rRNA
rainfall.regimen
missing: control sample
geographic location (country and/or sea)
missing: control sample
sequencing.method
Illumina iSeq 100
elevation
missing: control sample
organism
blank sample
scientific_name
blank sample
environmental.medium
missing: control sample
sample.storage.temperature
missing: control sample
geographic.location..longitude.
missing: control sample
broad.scale.environmental.context
missing: control sample
fertilizer.regimen
missing: control sample
host.life.stage
missing: control sample
local.environmental.context
missing: control sample
negative.control.type
Extraction with water instead of sample and PCR blank control.
herbicide.regimen
missing: control sample
host.age
missing: control sample
sequence.quality.check
none