SAMN45129423
External Id
U.S. Food and Drug Administration
INSDC center name
2024-12-02T00:00:00Z
INSDC first public
2024-12-05T12:03:25.767Z
INSDC last update
SRS23449378
INSDC secondary accession
live
INSDC status
MIGS/MIMS/MIMARKS.food-farm_env
NCBI submission model
MIMS.me
NCBI submission model
MIMS.me.food-farm_env.6.0
NCBI submission package
SRS23449378
SRA accession
farm [ENVO_00000078]
adjacent_environment
none
biotic_regm
none
chem_administration
2021-02-02
collection_date
sterile scoop
collection_method
surface
depth
Metagenome from enriched agricultural soil taken 1 day prior to amendment with untreated dairy manure. Sample replicate C.
description
FDA BAM Chapter 4A|https://www.fda.gov/food/laboratory-methods-food/bam-chapter-4a-diarrheagenic-escherichia-coli
enrichment_protocol
anthropogenic terrestrial biome [ENVO_01000219]
env_broad_scale
farm [ENVO_00000078]
env_local_scale
agricultural soil [ENVO_00002259]
env_medium
animal manure [AGRO_00000079]
fertilizer_admin
2021-02-02
fertilizer_date
not applicable
food_product_type
USA:Ohio
geo_loc_name
81%
humidity
not applicable
ifsac_category
manure amended agricultural soil
isolation_source
40.7589 N 81.9535 W
lat_lon
soil metagenome
http://purl.obolibrary.org/obo/NCBITaxon_410658
organism
7.3
ph
1:1 in H20 McLean, E.O. 1982. Soil pH and lime requirement. p. 199-223. In A.L. Page et al. (ed.) Methods of soil analysis, part 2. Agronomy Monogr. 9, 2nd ed. ASA and SSSA, Madison, WI.
ph_meth
research
purpose_of_sampling
from the crop-growing fields
rel_location
US FDA
repository
sterile scoop
samp_collect_device
natural environment specimen [GENEPIO_0001250]
samp_mat_type
soil sample was a composite of 5 subsamples taken from the field
samp_pooling
2L
samp_size
natural environment specimen [GENEPIO_0001250]
samp_source_mat_cat
24-48 hours before enrichment
samp_store_dur
4 degrees during transport; -20 until processing
samp_store_temp
50g used for enrichment; 2ml enrichment used for DNA extraction
samp_vol_we_dna_ext
winter
season
78.09%
season_humidity
0.12cm
season_precpt
-0.50C
season_temp
7.3
soil_ph
0.4C
soil_temp
silt loam
soil_texture_class
Hydrometer Method. ASTM D422, 2476
soil_texture_meth
2021-02-02
timepoint
E-B14c
title
water extractable organic carbon Nelson, D.W., and L.E. Sommers. 1996. Total carbon, organic carbon and organic matter. P. 961-1010. In J.M. Bartels et al. (ed.) Methods of soil analysis: Part 3 Chemical methods. (3rd ed.) ASA and SSSA Book Series 5, Madison, WI.
tot_org_c_meth
.2215
tot_org_carb
282.5 degrees
wind_direction
4 kmph
wind_speed