prokaryotic microbiome of Zea mays L. rhizoplane and root-endosphere
root metagenome
ENA first public
2025-06-01
INSDC center name
UBT
INSDC status
public
Submitter Id
322_2022
broad.scale.environmental.context
temperate biome [ENVO_01001831]
collection_date
2022-08-12
elevation
368.35 m
environmental.medium
root [PO_0009005]
fertilizer.regimen
sewage sludge (dry), 15000 kg/ha + ALZON (SKW Stickstoffwerke Piesteritz GmbH, Lutherstadt Wittenberg, Germany), 80 kg/ha
geographic location (country and/or sea)
Germany
geographic.location..latitude.
48,38241227
geographic.location..longitude.
13,26360292
geographic.location..region.and.locality.
Bavaria, Lower Bavaria, Pocking
herbicide.regimen
Laudis Aspekt Pack (Bayer CropScience Deutschland GmbH, Monheim, Germany)
host.age
113 d
host.common.name
maize
host.life.stage
grain filling
host.taxid
381124
local.environmental.context
maize field [ENVO_01000348]
negative.control.type
Extraction with water instead of sample. Treated like the other samples in the subsequent steps.
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'
plant.body.site
PO_0009005
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.
project.name
Rhizo4Bio: RhizoTraits
rainfall.regimen
natural precipitation
sample name
322_2022
sample.storage.temperature
-80 degC
scientific_name
root metagenome
sequence.quality.check
none
sequencing.method
Illumina iSeq 100
subspecific.genetic.lineage
variety:Alpenfex
target.gene
16S rRNA
target.subfragment
V4