prokaryotic microbiome in soil from a maize field
soil metagenome
ENA first public
2025-06-01
INSDC center name
UBT
INSDC status
public
Submitter Id
220_2022
broad.scale.environmental.context
temperate biome [ENVO_01001831]
collection_date
2022-08-08
elevation
368.62 m
environmental.medium
silty loam [ENVO_06105275]
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.
48,38228499
geographic.location..longitude.
13,26376830
geographic.location..region.and.locality.
Bavaria, Lower Bavaria, Pocking
herbicide.regimen
Laudis Aspekt Pack (Bayer CropScience Deutschland GmbH, Monheim, Germany)
host.age
not applicable
host.common.name
not applicable
host.life.stage
not applicable
host.taxid
not applicable
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
not applicable
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 reduced by 60%
sample name
220_2022
sample.storage.temperature
-80 degC
scientific_name
soil metagenome
sequence.quality.check
none
sequencing.method
Illumina iSeq 100
subspecific.genetic.lineage
not applicable
target.gene
16S rRNA
target.subfragment
V4