SW-SL-AN-03
soil metagenome
96 pooled culturable isolates from Spring Wheat grown in Sandy loam from Angus
ENA first public
2025-09-11
INSDC center name
Scotland's Rural College - Aberdeen Campus
INSDC status
public
Submitter Id
ms00711
adapters
Forward overhang: 5' TCGTCGGCAGCGTCAGATGTGTATAAGAGACAG; Reverse overhang: 5' GTCTCGTGGGCTCGGAGATGTGTATAAGAGACAG
broad-scale environmental context
environmental system determined by an organism
chimera check software
N/A
climate environment
controlled glasshouse
collection date
2021-09-06
environmental medium
rhizosphere environment
experimental factor
Spring Wheat
geographic location (country and/or sea)
United Kingdom
geographic location (latitude)
56.4879120
geographic location (longitude)
-3.1373110
host age
3
host common name
Spring Wheat
host life stage
flowering
host subspecific genetic lineage
Mulika
host taxid
4565
local environmental context
plant-associated environment
multiplex identifiers
N/A
negative control type
plant-associated environment
nucleic acid amplification
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 extraction
Boil (15 min.) and freeze cells in Tris 40mM, EDTA 0.4 mM, 0.4% Triton-X
pcr conditions
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 primers
Forward: 5' GTGCCAGCMGCCGCGGTAA; Reverse: 5' CCGTCAATTCCTTTGAGTTT
plant body site
root
plant product
N/A
positive control type
rhizosphere environment
project name
UK Crop Microbiome Cryobank
reference for biomaterial
Rothamsted Research Station
relevant electronic resources
agmicrobiomebase.org
sample name
ms00711
sample volume or weight for DNA extraction
0.5
scientific_name
soil metagenome
sequence quality check
software
sequencing method
NovaSeq
target gene
16S