prokaryotic microbiome in roots of Zea mays L.
root metagenome
16S rRNA V4 reads from roots (rhizoplane and endosphere) of Zea mays L. grown at an agricultural field in Ruhstorf, Germany. This sample was taken at the grain filling plant developmental stage and subjected to natural precipitation. Maize variety: Gelber Badischer Landmais.
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
2021-08-31
geographic.location..latitude.
48.382261
geographic.location..region.and.locality.
Bavaria, Lower Bavaria, Pocking
plant.body.site
PO_0009005
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:Gelber Badischer Landmais
target.gene
16S rRNA
rainfall.regimen
natural precipitation
geographic location (country and/or sea)
Germany
sequencing.method
Illumina iSeq 100
elevation
367 m
organism
root metagenome
scientific_name
root metagenome
environmental.medium
root [PO_0009005]
sample.storage.temperature
-80 degC
geographic.location..longitude.
13.263678
broad.scale.environmental.context
temperate biome [ENVO_01001831]
fertilizer.regimen
YaraBela SULFAN (YARA GmbH & Co. KG, Dï¿½lmen, 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
Bromotril 225EC (ADAMA Agricultural Solutions, Ashdod, Israel), MaisTer power (Bayer CropScience Deutschland GmbH, Monheim, Germany)
host.age
92 d
sequence.quality.check
none