soil metagenome
Amplicon library from podzol soil, mineral elluvial soil layer (E), site 13-IF. The ITS2 region of the rRNA gene was amplified using primers gITS7 forward and modified ITS4m reverse, using three different annealing temperatures in parallel and pooling the results, and sequenced on a PGM IonTorrent machine.
ENA-FIRST-PUBLIC
2020-10-01T04:08:10Z
ENA-LAST-UPDATE
2020-06-04T09:37:44Z
External Id
SAMEA6873095
INSDC center name
UPPSALA UNIVERISTY
INSDC first public
2020-10-01T04:08:10Z
INSDC last update
2020-06-04T09:37:44Z
INSDC status
public
Submitter Id
jadraas13_E
amount or size of sample collected
0,015
collected by
Hector Urbina
collection date
2013-10-15
composite design/sieving (if any)
Five soil cores were collected in each plot, podsoil layers were visually separated, and each layer was pooled for the plot.
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_1min; annealing=50degC_0.75min; elongation:72degC_0.83min; final elongation:72degC_3min; total cycles:23-27 AND initial denaturation:95degC_10min; denaturation:95degC_1min; annealing=54degC_0.75min; elongation:72degC_0.83min; final elongation:72degC_3min; total cycles:23-27 AND initial denaturation:95degC_10min; denaturation:95degC_1min; annealing=58deg_C_0.75min; elongation:72degC_0.83min; final elongation:72degC_3min; total cycles:23-27
pcr primers
FWD:GTGARTCATCGARTCTTTG REV:TCCTC[C/G][G/C]CTTATTGATATGC
project name
Environmental amplicons of soil fungal across soil horizons
sample material processing
soil was kept on ice, then frozen when back to lab
sample name
jadraas13_E
sample weight for DNA extraction
0,5
scientific_name
soil metagenome
sequencing method
IonTorrent
soil environmental package
soil
storage conditions (fresh/frozen/other)
frozen
target gene
rRNA
target subfragment
ITS2