prokaryotic microbiome in the proximal rhizosphere of Zea mays L.
soil metagenome
16S rRNA V4 reads from the proximal rhizosphere of Zea mays L. grown at an agricultural field in Bayreuth, Germany. This sample was taken at the grain filling plant developmental stage and subjected to natural precipitation reduced by 60%. Maize variety: Braunes Schindelmeiser.
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
2021-08-25
geographic.location..latitude.
49.931907
geographic.location..region.and.locality.
Bavaria, Upper Franconia, Bayreuth
plant.body.site
not applicable
host.common.name
maize
host.taxid
381124
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
variety:Braunes Schindelmeiser
target.gene
16S rRNA
rainfall.regimen
natural precipitation reduced by 60%
geographic location (country and/or sea)
Germany
sequencing.method
Illumina iSeq 100
elevation
354 m
organism
soil metagenome
scientific_name
soil metagenome
environmental.medium
rhizosphere environment [ENVO_01000999]
sample.storage.temperature
-80 degC
geographic.location..longitude.
11.551221
broad.scale.environmental.context
temperate biome [ENVO_01001831]
fertilizer.regimen
ALZON (SKW Stickstoffwerke Piesteritz GmbH, Lutherstadt Wittenberg, Germany)
host.life.stage
grain filling
local.environmental.context
maize field [ENVO_01000348]
negative.control.type
Extraction with water instead of sample and PCR blank control.
herbicide.regimen
Laudis Aspekt Pack (Bayer CropScience Deutschland GmbH, Monheim, Germany)
host.age
96 d
sequence.quality.check
none