plastisphere metagenome
PHB incubation - pelagic habitat - 2.5 months
broad-scale environmental context
Mediterranean Sea Biome [ENVO:01000047]
sequence quality check
software
collection date
2014-10-07
target gene
16S/18S SSU rRNA
geographic location (longitude)
10.1078
silicate (mg/L)
<2
ammonium (mg/L)
<0.04
dissolved organic carbon (mg/L)
2.7
total nitrogen (mg/L)
<0.25
particulate organic carbon (mg/L)
not collected
nitrate (mg/L)
0.04
total phosphorus (mg/L)
<0.01
pH
8.2
targeted amplicon size
400bp, 600bp
temperature
21
nucleic acid extraction
Powersoil DNA Isolation kit
organic carbon (mg/L)
not collected
nitrite (mg/L)
<0.02
phaeopigments (µg/L)
<1
experimental factor
Field incubation, Time series
polymer disintegration (%)
0
geographic location (country and/or sea)
Mediterranean Sea
salinity
38
organism
plastisphere metagenome
chlorophyll (µg/L)
<1
environmental medium
Sea Water [ENVO:00002149]|Plastisphere [ENVO:06105106]
geographic location (latitude)
42.5779
scientific_name
plastisphere metagenome
geographic location (region and locality)
Tyrrhenian Sea: Italy, Island of Pianosa, National Park Tuscan Archipelago
phosphate (mg/L)
<0.01
total depth of water column
40
pcr primers
FWD (515F-Y): GTGYCAGCMGCCGCGGTAA; REV (926R): CCGYCAATTYMTTTRAGTTT
pcr conditions
Initial denaturation: 98degC_30s; 30 cycles of denaturation: 98degC_10s, annealing: 50degC_15s, elongation: 72degC_30s; final elongation: 72degC_5min
local environmental context
Coastal zone [ENVO:00000486]
depth
20
project name
Open-Bio bioplastics
sequencing method
Illumina MiSeq
dissolved oxygen (mg/L)
7.14
multiplex identifiers
FWD (Golay11): TATGGTACCCAG; REV (BC6): GTTAGGGAGCGA
total inorganic nitrogen (mg/L)
not collected