2025-06-01
ENA first public
ERC000011
ENA-CHECKLIST
UBT
INSDC center name
public
INSDC status
ERS23861303
SRA accession
421_2022
Submitter Id
temperate biome [ENVO_01001831]
broad.scale.environmental.context
2022-08-09
collection_date
16S rRNA V4 reads from Zea mays L. rhizoplane and root endosphere taken from an agricultural field near Ruhstorf, Germany. This sample was taken at the grain filling plant developmental stage and subjected to natural precipitation reduced by 60%. Zea mays variety: Gelber Badischer Landmais
description
367.82 m
elevation
root [PO_0009005]
environmental.medium
sewage sludge (dry), 15000 kg/ha + ALZON (SKW Stickstoffwerke Piesteritz GmbH, Lutherstadt Wittenberg, Germany), 80 kg/ha
fertilizer.regimen
Germany
geographic location (country and/or sea)
48,38254697
geographic.location..latitude.
13,26329956
geographic.location..longitude.
Bavaria, Lower Bavaria, Pocking
geographic.location..region.and.locality.
Laudis Aspekt Pack (Bayer CropScience Deutschland GmbH, Monheim, Germany)
herbicide.regimen
110 d
host.age
maize
host.common.name
grain filling
host.life.stage
381124
host.taxid
maize field [ENVO_01000348]
local.environmental.context
Extraction with water instead of sample. Treated like the other samples in the subsequent steps.
negative.control.type
root metagenome
organism
initial denaturation:98degC_120s; denaturation:98degC_10s; annealing:55degC_30s; extension:72degC_30s; final extension:72degC_120s
pcr.conditions
515f: 5'-GTGYCAGCMGCCGCGGTAA-3', 806RB: 5'-GGACTACNVGGGTWTCTAAT-3'
pcr.primers
PO_0009005
plant.body.site
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.
positive.control.type
Rhizo4Bio: RhizoTraits
project.name
natural precipitation reduced by 60%
rainfall.regimen
-80 degC
sample.storage.temperature
root metagenome
scientific_name
none
sequence.quality.check
Illumina iSeq 100
sequencing.method
variety:Gelber Badischer Landmais
subspecific.genetic.lineage
16S rRNA
target.gene
V4
target.subfragment
prokaryotic microbiome of Zea mays L. rhizoplane and root-endosphere
title