soil metagenome
Amplicon library from podzol soil, mineral elluvial soil layer (E). Approximately 1500bp of the rRNA was amplified using primers ITS1F and LR5, and sequenced on a PacBio RS II system.
ENA-FIRST-PUBLIC
2020-10-01T08:10:22Z
ENA-LAST-UPDATE
2020-01-31T08:34:13Z
External Id
SAMEA5704827
INSDC center name
UPPSALA UNIVERISTY
INSDC first public
2020-10-01T08:10:22Z
INSDC last update
2020-01-31T08:34:13Z
INSDC status
public
Submitter Id
Jaedraas-E
amount or size of sample collected
0.015
collection date
2013-10
composite design/sieving (if any)
Several samples were collected for DNA extraction and amplification of approximately 1500 bp of the rRNA gene. A total of 8 samples successfully amplified and the PCR products of these were pooled to generate the amplicon library for sequencing.
environment (biome)
temperate evergreen needleleaf forest (ENVO_01000383)
environment (feature)
soil
environment (material)
podzol (ENVO_00002257)
geographic location (country and/or sea)
Sweden
geographic location (depth)
0.05-0.08
geographic location (elevation)
185
geographic location (latitude)
60.82
geographic location (longitude)
16.5
geographic location (region and locality)
Gastrikland:Jadraas
horizon
E horizon
horizon method
manual inspection
investigation type
mimarks-survey
pcr conditions
initial denaturation:95degC_10min; denaturation:95degC_0.75min; annealing=58degC_0.75min; elongation:72degC_1.5min; final elongation:72degC_10min; total cycles:30
pcr primers
FWD:CTTGGTCATTTAGAGGAAGTAA REV:TCCTGAGGGAAACTTCG
project name
Environmental long read amplicons of soil fungal across soil horizons
sample material processing
soil was kept on ice then frozen when back to lab
sample name
Jaedraas-E
sample weight for DNA extraction
0.5
scientific_name
soil metagenome
sequencing method
PacBio
soil environmental package
soil
storage conditions (fresh/frozen/other)
frozen
target gene
rRNA
target subfragment
ITS and LSU