seawater metagenome
investigation_type
metagenome
project_name
Crocker Reef Water Metagenomes
collection_date
2015-01-30
env_package
mims extension
env_biome
ocean
env_feature
approximately 20 cm above benthic substrate in seagrass bed
env_material
water
geo_loc_name
USA: Florida Keys, Crocker Reef
lat_lon
24.91082 N 80.52775 W
depth
4.3 m
samp_collect_device
Peristaltic pump
samp_mat_process
Water was pumped through a mesh prescreen, a 0.45 um prefilter and a 0.22 um Sterivex filter. Two replicates of approximately 5 L each were sampled. The Sterivex filters were then frozen in liquid nitrogen until the ship returned to shore, where the filters were transferred to freezer at -80 degrees Celsius until DNA extraction in July and August 2015.
samp_vol_we_dna_ext
10.0 L
samp_store_temp
-80 degrees Celsius
nucl_acid_ext
Manufacturer's protocol for MO BIO PowerWater Sterivex DNA Isolation Kit; modified protocol to eliminate Steps 8 and 9 (heating and cooling steps). Extracted DNA from replicate filters was pooled in order to obtain one extraction for each sample.
lib_const_meth
TruSeq Nano DNA Library Prep Kit
seq_meth
Illumina MiSeq v3 chemistry generating paired-end 300-bp reads
BioSampleModel
MIMS.me
BioSampleModel
MIGS/MIMS/MIMARKS.water