2025-09-11
ENA first public
ERC000020
ENA-CHECKLIST
Scotland's Rural College - Aberdeen Campus
INSDC center name
public
INSDC status
ERS26117090
SRA accession
ms00815
Submitter Id
Forward overhang: 5' TCGTCGGCAGCGTCAGATGTGTATAAGAGACAG; Reverse overhang: 5' GTCTCGTGGGCTCGGAGATGTGTATAAGAGACAG
adapters
environmental system determined by an organism
broad-scale environmental context
N/A
chimera check software
controlled glasshouse
climate environment
2021-09-06
collection date
96 pooled culturable isolates from Bulk Soil grown in Silt Clay Loam from Shropshire
description
rhizosphere environment
environmental medium
Bulk Soil
experimental factor
United Kingdom
geographic location (country and/or sea)
52.4936865
DD
geographic location (latitude)
-2.4788747
DD
geographic location (longitude)
3
months
host age
Bulk Soil
host common name
flowering
host life stage
plant-associated environment
local environmental context
N/A
multiplex identifiers
plant-associated environment
negative control type
https://www.novogene.com/eu-en/resources/blog/a-beginners-guide-to-16s-18s-its-amplicon-metagenomic-sequencing/?_gl=1*zg303z*_up*MQ..*_gs*MQ..&gclid=CjwKCAjw24vBBhABEiwANFG7y_L5jjZFt1XnOwrf0qRG07FrSPv8bvD-aqDeyMYkG-ytGAiddyaqpBoCgrEQAvD_BwE&gbraid=0AAAAApRAw_nj7fjNvzzuoPTcLafmAJU-A
nucleic acid amplification
Boil (15 min.) and freeze cells in Tris 40mM, EDTA 0.4 mM, 0.4% Triton-X
nucleic acid extraction
soil metagenome
organism
95 C for 3 minutes; 25 cycles of 95 C for 30 seconds, 55 C for 30 seconds, 72 C for 30 seconds; 72 C for 5 minutes; Hold at 4 C
pcr conditions
Forward: 5' GTGCCAGCMGCCGCGGTAA; Reverse: 5' CCGTCAATTCCTTTGAGTTT
pcr primers
root
plant body site
N/A
plant product
rhizosphere environment
positive control type
UK Crop Microbiome Cryobank
project name
Rothamsted Research Station
reference for biomaterial
agmicrobiomebase.org
relevant electronic resources
0.5
g
sample volume or weight for DNA extraction
soil metagenome
scientific_name
software
sequence quality check
NovaSeq
sequencing method
16S
target gene
CO-SC-SH-03
title