Environmental samples

Studies:

Habitats

lake

 1333

river

 1266

land

 680

aquifer

 679

soil

 592

leaf

 511

sewage

 498

room

 364

pond

 275

table

 226

field

 183

park

 181

sea

 136

glacier

 112

desert

 111

aerosol

 106

plain

 75

shale

 69

city

 48

marsh

 44

ocean

 42

mine

 41

bay

 36

coast

 31

pit

 24

rock

 23

air

 17

well

 17

beach

 16

fen

 12

seep

 12

ridge

 10

farm

 6

sand

 6

bark

 5

cave

 4

alas

 3

mud

 1

location

100%
Singapore: Nanyang Technology University campus (exact_location)
 783
Canada (exact_location)
 728
China (exact_location)
 636
Singapore (country)
 616
other values
24236

resolution of location info

100%
exact_location
22054
country
 1615
region
 1587
site
 894
other values
 849

collection date

99%
216–2012
 4836
2013–2014
 4505
2015–2016
 6379
2017
 3377
2018–2023
 6874
spans several years
 931

source material

100%
soil [ENVO:00001998]
 6556
sediment [ENVO:00002007]
 2710
fresh water [ENVO:00002011]
 2437
waste water [ENVO:00002001]
 1487
other values
13809

source material environment

100%
lake [ENVO:00000020]
 1333
river [ENVO:00000022]
 1266
forest soil [ENVO:00002261]
 1162
agricultural field [ENVO:00000114]
 1006
other values
22232

artificial or special treatment

 17%
sorted cells
 3151
cultivation
 1344
mesocosm
 132
paleosample
 8
spike-in
 2

elevation (meters)

 30%
116
 787
1553
 443
294.0
 387
0
 351
other values
 6306

depth (meters)

 46%
0
 2391
0-0.2
 1028
0.0
 777
1
 617
other values
 7614

pH

 16%
1.50-5.55
 900
5.56-7.07
 826
7.08-7.48
 948
7.48-8.15
 895
8.15-10.80
 890

mean annual precipitation (mm)

 7%
341-2193
 658
395-2486
 180
516
 180
523
 78
other values
 1001

mean annual temperature (°C)

 7%
-0.88-19.63
 658
-2.7-27.9
 180
9.8
 180
1.2
 78
other values
 1008

temperature (°C)

 12%
-17.0-11.5
 694
11.6-19.2
 704
19.3-28.0
 698
28.0-42.0
 697
43.0-86.6
 701

lower size cutoff (collection filter pore size, µm)

 8%
0.22
 1251
0.2
 375
0.45
 216
0
 193
other values
 144

upper size cutoff (pre-filter pore size, µm)

 8%
Infinity
 1168
20
 186
5
 178
10
 100
other values
 648

DESCRIPTION

 0%
Initial microbiome in soil 6w after crude oil addition
 5
Crude oil Cultivated bacteria in soil 6 w after crude oil addition
 5
Bacteria cultured on regular media in soil 6w after crude oil addition
 5
Initial soil microbiome
 3

DOL_range

 0%
13 to 20
 3
21 to 28
 3
5 to 12
 3
5 to 21
 3
other values
 12

Field_nominal_C

 0%
5
 8
25
 8
20
 8
10
 8

acetate_uM

 0%
34.90
 1
3.95
 1
20.54
 1
19.50
 1
1.80
 1

added_matter

 0%
liquid dairy manure spiked with antibiotics (56 Mg/ha wet weight), manual rainfall (7.0 cm/h)
 33
pesticides (600 g/ha of composite pesticide mainly containing imidacloprid, clothianidin and thiamethoxam)
 12
predatory mites (900,000 Stratiolaelaps scimitus/ha)
 12
unammended
 9
other values
 104

ammonium_mg_l

 0%
0.01
 5
0.04
 3
0.09
 3
0.12
 3
other values
 12

ammonium_uM

 0%
62
 3
0.6748295
 2
0.268083
 1
0.3050599
 1
other values
 40

breed or strain

 0%
Pinot Meunier
 14
Flame
 7
Agave salmiana Otto ex Salm subsp. crassispina
 4
Crimson
 3
other values
 4

butyrate_uM

 0%
0
 2
0.43
 1
0.17
 1
0.12
 1

calcium_mg_l

 0%
47.9
 2
19.3
 1
19.4
 1
24.2
 1
other values
 13

carbon_dioxide_uM

 0%
113.6702608
 2
139.1584005
 2
194.4967442
 2
214.0262472
 2
other values
 140

chloride_mg_l

 0%
2.4
 2
10.3
 1
10.5
 1
10.8
 1
other values
 13

climatic_zone

 0%
future
 90
ambient
 90

dissolved_organic_carbon_uM

 0%
99
 3
78.58
 3
182.67
 3
137.5
 3
113.08
 3

dissolved_oxygen_uM

 0%
123.16
 3
138.44
 3
138.75
 3
147.81
 3
other values
 12

enriched_soil

 0%
TRUE
 24
FALSE
 3

ferric_iron_uM

 0%
0
 55
0.9
 5
0.2
 2
0.7
 2
other values
 94

ferrous_iron_uM

 0%
0
 31
1.6
 6
6.4
 3
0.7
 2
other values
 119

ferrous_uM

 0%
13.1 +- 2.86
 3
9.49 +- 2.33
 2
11.5 +- 4.12
 2
6.62 +- 2.69
 1
5.55 +- 1.59
 1

filtration_lower_threshold

 0%
0.22
 34

filtration_lower_threshold_kDa

 0%
3
 26
10
 22

food_name

 0%
Garlic, Ginger, Onion, Green onion, Leaf, Sugar, Glucose, Monosodium, Sodium saccharin, Acesulfame potassium, Aspartame, Shrimp, Anchovy, Xanthan gum
 6
Garlic, Ginger, Green onion, Leaf, Sugar, Extract, Unclear seasoning, Shrimp, Anchovy
 3
Garlic, Ginger, Onion, Green onion, Leaf, Sugar, Extract of decomposing wheat, Anchovy, Yellow corvina and cutlassfish
 3
Garlic, Ginger, Onion, Green onion, Leaf, Sugar, Extract, Shiitake mushrooms, Shrimp, Anchovy
 3
other values
 102

formate_uM

 0%
2.92
 1
2.55
 1
2.32
 1
10.38
 1
1.61
 1

full_description

 0%
soil with large amounts of vegetation, high amounts of suspected carpenter ants
 5
soil with large amounts of vegetation and leaf litter, shaded wet soil, at water level
 5
soil from sawgrass-dominated area, high amounts of suspected carpenter ants
 4
very wet soil, submerged by water, large amounts of overlying vegetation and plant roots
 3

host species

 4%
3702
 265
38727
 181
62336
 106
2706
 55
other values
 484

host_common_name

 2%
switchgrass
 181
silvergrass
 106
limber pine
 49
water fern
 42
other values
 226

host_scientific_name

 4%
Arabidopsis thaliana
 265
Panicum virgatum
 181
Miscanthus sp
 106
Citrus sp.
 55
other values
 469

host_tax_scientific_name

 0%
Setaria italica
 54

hydrosulfide_uM

 0%
1.93 +- 2.36
 3
0.51 +- 0.42
 2
0.13 +- 0.04
 2
0.11 +- 0.09
 1
0.08 +- 0.05
 1

infant_ID

 0%
Sloan2_5
 9
Sloan2_12
 3
Sloan2_18
 3
Sloan2_3
 3
other values
 6

iron_uM

 0%
0
 22
2.5
 4
14.3
 2
20.8
 2
other values
 138

isolation source

 11%
aquifer
 625
hot spring sediment
 444
saline lake water
 407
Hot spring microbial mat
 187
other values
 1549

land_use_category

 2%
arable
 102
forest
 95
fen
 52
pasture
 49
other values
 328

land_use_full

 2%
conventional farming
 60
intensive grassland
 60
organic farming
 60
no-till corn field
 46
other values
 371

location_name

 0%
Pine Lake
 4
Green Lake
 3
Heart Lake
 2
Lac Pelletier
 2
other values
 245

magnesium_mg_l

 0%
3.1
 2
8
 2
8.3
 2
10
 1
other values
 11

manganese_uM

 0%
286
 3

methane_uM

 0%
175
 3
0.07
 2
0.48640903
 2
0.824510505
 2
other values
 218

nitrate concentration (µM)

 3%
0.32
 439
0
 158
0.48
 104
5.97
 94
other values
 207

nitrate_mg_l

 0%
0.115
 5
0
 3
0.68
 3
1.29
 3
other values
 62

nitrate_nitrite_uM

 0%
36.006
 2
0.28
 1
0.304
 1
0.508
 1
other values
 30

nitrite_mg_l

 0%
0.003
 7
0.39
 2
0.006
 1
0.008
 1
other values
 12

nitrite_uM

 0%
<2.17
 9
0.43
 3

nitrogen_dioxide_uM

 0%
9.5
 3
23.49
 3
19.09
 3
11.7
 3
1.628
 3

nitrogen_percent

 0%
0.13
 21
0.09
 20
0.10
 19
0.14
 19
other values
 165

note

 4%
land_use information was not specified for the samples
 658
Some physico-chemical measurements used different methods, so method names were included in the column names; some units were inferred from the methods.
 136
concentrations of pharmaceuticals and personal care products are found in the supplementary table
 59
The stated sample location differs between the paper and the uploaded metadata. Coordinates follow the paper.
 46
other values
 277

original_sample_name

 11%
Anoxic lake water microbial communities from Lake Kivu, Rwanda - MDM2.Kivu325.minimeta.G3
 1
Anoxic lake water microbial communities from Lake Kivu, Rwanda - MDM2.Kivu325.minimeta.H3
 1
Anoxic lake water microbial communities from Lake Kivu, Rwanda - MDM2.Kivu325.minimeta.J3
 1
Anoxic lake water microbial communities from Lake Kivu, Rwanda - MDM2.Kivu325.minimeta.L3
 1
other values
 2973

oxygen_uM

 3%
196.56
 187
107.194
 92
0.463
 82
0-4
 56
other values
 507

pH_range

 0%
5.31 to 5.49
 20
5.34 to 5.44
 20
7.49 to 7.60
 17
circumneutral
 9
other values
 20

ph_range

 0%
approx. 7
 24

phosphate_uM

 0%
0.65
 3
0.023
 2
0.036
 2
0.005
 1
other values
 30

phosphorus_uM

 0%
74.3 +- 45.2
 3
64.6 +- 38.8
 2
45.2 +- 10.3
 2
42.0 +- 5.49
 1
32.3 +- 4.84
 1

plant

 0%
Buffalo
 8
Carex appressa
 8
Leptospermum continentale
 8
control soil
 8
other values
 17

potassium_mg_l

 0%
1.3
 3
1.7
 3
1.2
 2
1.4
 2
other values
 8

propionate_uM

 0%
4
 1
3.88
 1
2.01
 1
1.05
 1
0.96
 1

protocol label

 0%
external_PowerMax soil DNA isolation kit
 37

salinity (PSU)

 0%
0.1
 16
0
 7
34.56
 7
0.2
 4
other values
 39

salinity_ppm

 0%
0.035
 2
0.0325
 2

salinity_ppt

 0%
0.7
 5
0.01
 3
0.08
 3
0.22
 3
other values
 76

sample_description

 27%
Keywords: GSC:MIxS;MIMS:5.0
 1508
Vaccuum dust from bedding and floor adjacent to bed
 879
soil metagenome
 287
Metagenomic leaf sample of NCLB infected maize
 256
other values
 4458

sample_title

87%
Metagenome or environmental sample from dust metagenome
 995
MIMS Environmental/Metagenome sample from air metagenome
 783
Sample for the Ancient arctic plant and animal eDNA shotgun sequencing dataset
 524
Metagenome or environmental sample from soil metagenome
 514
other values
20912

sampling campaign

 0%
TS14
 127
Tansuo03 cruise
 23
Tansuo01 cruise
 8
Dayang 37-II cruise
 6

sampling platform

 0%
R/V Tan Suo Yi Hao
 127

sampling_site

 0%
greenhouse
 25
Tasiilaq
 22
Kangerlussuaq
 6
Qassimiut
 2
other values
 4

site_description

 0%
Braddock Loam soil (Clayey, parasesquic, mesic Typic Hapludults; 46% sand, 44% silt, and 10% clay) with an average slope of 9-11%
 46
silt loam
 10
Sandy
 10

sodium_mg_l

 0%
2.7
 2
7.9
 2
2.2
 1
2.4
 1
other values
 12

specific_material

 0%
effluent of wastewater
 3
hospital wastewater
 3
influent of wastewater
 3
river sediment
 3
other values
 6

study_accession

 33%
PRJEB24121
 290
PRJEB24450, PRJEB31530
 194
PRJEB19856, PRJEB19855, PRJEB18701
 149
PRJNA563508
 44
other values
 8241

sulfate_mg_l

 1%
0
 10
115
 5
133.5
 5
155.3
 5
other values
 278

sulfate_uM

 0%
<1.04
 9
32
 3

sulfide_uM

 0%
363
 3
15.2
 1
25.4
 1
287.2
 1
other values
 6

temperature_range

 0%
35 to 40
 59
14 to 18
 9
20.5 to 21.4
 3

time_period

 0%
35000 BP
 1
>28 BP
 1
>36 BP
 1
>40 BP
 1
other values
 5

total_dissolved_nitrogen_uM

 0%
87.64
 3
39.79
 3
361.29
 3
197.36
 3
165.71
 3

total_iron_uM

 0%
21.5 +- 17.9
 3
12.4 +- 4.48
 2
11.6 +- 6.62
 2
8.95 +- 0.98
 1
5.37 +- 1.97
 1

total_manganese_uM

 0%
2.00 +- 1.46
 3
0.36 +- 0.00
 3
0.38 +- 0.24
 2
0.35 +- 0.07
 1

total_nitrate

 0%
0.59-0.67
 20
0.61-0.67
 20
1.021
 1
1.054
 1
other values
 2

total_organic_carbon

 0%
1.89-2.05
 20
1.93-2.01
 20
0.4840
 2
1.721
 2
other values
 14

vegetation

 0%
sedges
 82
Sphagnum
 38
grasses
 30
bare_soil
 24
other values
 58

vegetation_full

 0%
sedges
 68
Sphagnum_spp.
 33
grasses
 30
bare_soil
 13
other values
 51

water_depth_meters

 0%
unknown
 107
12.1
 2
15.5
 2
26.7
 2
other values
 48