MEO: Metagenome/Microbes Environmental Ontology
type: Ontology
description: An ontology for describing organismal habitats (especially focused on microbes)
version info: Version 0.3
creator: Hiroshi Mori

underground water
type: Class
subclass of: water

water
type: Class
subclass of: hydrosphere
definition: The liquid form of dihydrogen monoxide.

wood
type: Class
subclass of: organic material

organic material
type: Class
subclass of: organism association
definition: Environmental material characteristic of, pertaining to, or derived from living organisms.

saliva
type: Class
subclass of: bodily fluid
definition: Saliva is a slightly alkaline secretion of water, mucin, protein, salts, and often a starch-splitting enzyme (as ptyalin) that is secreted into the mouth by salivary glands, lubricates ingested food, and often begins the breakdown of starches.

bodily fluid
type: Class
subclass of: organic material
definition: A natural bodily fluid or secretion such as blood, semen, saliva, blood plasma, intracellular and interstitial fluids.

limestone
type: Class
subclass of: rock
definition: A sedimentary rock composed largely of the mineral calcite.

rock
type: Class
subclass of: geosphere
definition: A mass of the mineral material of the crust of the Earth.

saline water habitat
type: Class
subclass of: aquatic habitat
definition: A habitat that is in or on a body of water containing medium to high concentrations of dissolved salts and other total dissolved solids (>=0.5 grams dissolved salts per litre).

aquatic habitat
type: Class
subclass of: hydrosphere
definition: A habitat that is in or on water.

saline water
type: Class
subclass of: water

sea
type: Class
subclass of: hydrosphere
definition: A large expanse of saline water usually connected with an ocean.

hydrosphere
type: Class
subclass of: Thing
definition: water associated environment

hydrothermal fluid
type: Class
subclass of: leachate
definition: High temperature water ejected from hydrothermal vents and laden with dissolved metals and minerals as a result of percolation through crustal rocks.

leachate
type: Class
subclass of: water
definition: The liquid produced when water percolates through any permeable material. It can contain either dissolved or suspended material, or usually both.

milk
type: Class
subclass of: dairy product
definition: An opague white dairy product produced by the mammary glands of female mammals.

dairy product
type: Class
subclass of: food product
definition: Food made from milk.

ridge
type: Class
subclass of: geosphere
definition: A long and narrow upland with steep sides.

geosphere
type: Class
subclass of: Thing
definition: terrestrial related environment

plant-associated habitat
type: Class
subclass of: organism-associated habitat
definition: A habitat that is in or on a living plant. Here plant denotes an individual of a species that is a sub-taxon of NCBITaxon:33090 (viridiplantae).

organism-associated habitat
type: Class
subclass of: organism association
definition: A habitat that is in or on a living thing.

mine drainage
type: Class
subclass of: water course
definition: The outflow of water from a mine.

water course
type: Class
subclass of: hydrosphere

red wine
type: Class
subclass of: wine

wine
type: Class
subclass of: fermented food product

sphagnum bog
type: Class
subclass of: wetland
definition: A peatland dominated by species of the Bryophyte Sphagnum.

wetland
type: Class
definition: An area that is inundated or saturated by surface or ground water at a frequency and duration sufficient to support, and that under normal circumstances do support, a prevalence of vegetation typically adapted for life in saturated soil conditions.
subclass of: geosphere

marine reef
type: Class
subclass of: marine benthic feature

marine benthic feature
type: Class
subclass of: marine feature
definition: A prominent or distinctive aspect, quality, or characteristic of environments occurring on or along marine benthic environments.

anthrosol
type: Class
subclass of: soil
definition: Anthrosols comprise soils that have been modified profoundly through human activities, such as addition of organic materials or household wastes, irrigation and cultivation.

soil
type: Class
subclass of: geosphere
definition: Any material within 2 m from the Earth's surface that is in contact with the atmosphere, with the exclusion of living organisms, areas with continuous ice not covered by other material, and water bodies deeper than 2 m.

arboreal habitat
type: Class
subclass of: organism association
definition: A habitat in or on trees.

organism association
type: Class
definition: related to organism (e.g., symbiosis, parasitism)
subclass of: Thing

ice mass
type: Class
subclass of: glacial feature
definition: Fields of ice, formed in regions of perennial frost.

glacial feature
type: Class
subclass of: hydrosphere
definition: A hydrographic feature characterized by the dominance of snow or ice.

aquatic biome
type: Class
subclass of: hydrosphere

organ
type: Class
subclass of: organic feature
definition: A collection of tissues joined in structural unit to serve a common function.

organic feature
type: Class
subclass of: organism association
definition: A prominent or distinctive aspect, quality, or characteristic pertaining to or derived from living organisms.

terrestrial habitat
type: Class
subclass of: geosphere
definition: A habitat that is on or at the boundary of the surface of the Earth.

coastal inlet
type: Class
subclass of: inlet
definition: An opening of the sea into the land.

inlet
type: Class
subclass of: hydrosphere
definition: An opening of the sea into the land, or of a lake into its shore.

greenhouse soil
type: Class
subclass of: soil

intertidal sediment
type: Class
subclass of: sediment

sediment
type: Class
subclass of: geosphere
definition: Sediment is an environmental substance comprised of any particulate matter that can be transported by fluid flow and which eventually is deposited as a layer of solid particles on the bedor bottom of a body of water or other liquid.

marine feature
type: Class
subclass of: hydrosphere
definition: A prominent or distinctive aspect, quality, or characteristic of a marine biome.

thermophilic sediment
type: Class
subclass of: sediment
definition: Sediment characterised by a temperature of 45-75 degrees Celsius and low to no oxygen content. Often impacted by hydrothermal fluid flows.

animal-associated habitat
type: Class
subclass of: organism-associated habitat
definition: A habitat that is in or on a living animal. Here animal denotes an individual of a species that is a sub-taxon of NCBITaxon:33208.

ocean
type: Class
subclass of: hydrosphere
definition: Continuous saline-water bodies that surround the continents and fill the Earth's great depressions.

coral reef
type: Class
subclass of: marine reef
definition: Aragonite structures produced by living organisms, found in shallow, marine waters with little nutrients in the water.

food product
type: Class
subclass of: human activity association
definition: A substance, usually composed primarily of carbohydrates, fats, water and/or proteins, that can be eaten or drunk by an animal or human being for nutrition or pleasure.

human activity association
type: Class
subclass of: Thing
definition: human activity related environment

oil field
type: Class
subclass of: geosphere

white wine
type: Class
subclass of: wine

sea ice
type: Class
subclass of: ice mass

atmosphere
type: Class
subclass of: Thing
definition: air related environment

terrace
type: Class
subclass of: geosphere
definition: A step-like feature between higher and lower ground: a relatively flat or gently inclined shelf of earth, backed and fronted by steep slopes or manmade detaining walls.

Mycorrhiza
type: Class
subclass of: organism association

excreta
type: Class
subclass of: bodily fluid
definition: Excreta are bodily fluids consisting of waste matter, such as sweat or feces, discharged from the body.

urine
type: Class
subclass of: excreta
definition: Urine is a liquid excreta containing water and waste products made by the kidneys, stored in the bladder, and leaves the body through the urethra.

bioreactor
type: Class
subclass of: human activity association

waste water
type: Class
subclass of: water
definition: Water that has been adversely affected in quality by anthropogenic influence.

anaerobic digester sludge
type: Class
subclass of: sludge

sludge
type: Class
subclass of: human activity association
definition: The residual semi-solid material left from domestic or industrial processes, or wastewater treatment processes.

marine mud
type: Class
subclass of: mud

mud
type: Class
comment: Tempolal position
definition: A liquid or semi-liquid mixture of water and some combination of soil, silt, and clay.
subclass of: geosphere

microbial mat material
type: Class
subclass of: organic material
definition: Material derived from a microbial mat, a multi-layered sheet of micro-organisms, mainly bacteria and archaea. Microbial mats create a wide range of internal chemical environments.

rhizosphere
type: Class
subclass of: organism association
definition: The narrow region of soil that is directly influenced by root secretions and associated soil microorganisms.

freshwater lake
type: Class
subclass of: lake
definition: A lake of whose water contains low concentrations of salts.

lake
type: Class
subclass of: hydrosphere
definition: A body of water or other liquid of considerable size contained on a body of land.

city
type: Class
subclass of: populated place
definition: Incorporated populated place.

populated place
type: Class
subclass of: human activity association
definition: Place or area with clustered or scattered buildings and a permanent human population.

sewage
type: Class
subclass of: waste water
definition: Wastewater that is contaminated with feces or urine.

national park
type: Class
subclass of: park
definition: A reserve of land, usually, but not always declared and owned by a national government, protected from most human development and pollution. National parks are a protected area of IUCN category II.

park
type: Class
subclass of: human activity association
definition: A bounded area of land, or water, usually in its natural or semi-natural (landscaped) state and set aside for some purpose, usually to do with recreation or conservation.

aquaculture
type: Class
subclass of: hydrosphere
definition: The cultivation of aquatic produce such as aquatic plants, fish and other aquatic animals.

bovine milk
type: Class
subclass of: milk

marine reef biome
type: Class
subclass of: marine benthic biome
definition: A biome expressed by strips or ridges of rocks, sand, or coral that rises to or near the surface of a body of marine water.

marine benthic biome
type: Class
subclass of: marine biome
definition: A prominent or distinctive aspect, quality, or characteristic of environments occurring on or along marine benthic environments.

forest soil
type: Class
subclass of: soil

fermented food product
type: Class
subclass of: food product

saline lake
type: Class
subclass of: lake
definition: A lake whose water contains a considerable concentration of dissolved salts.

food processing factory
type: Class
subclass of: human activity association

acid mine drainage
type: Class
subclass of: mine drainage
definition: A mine drainage with an acidic pH.

pond water
type: Class
subclass of: fresh water

fresh water
type: Class
subclass of: water

air
type: Class
subclass of: atmosphere
definition: The mixture of gases (roughly (by molar content/volume: 78% nitrogen, 20.95% oxygen, 0.93% argon, 0.038% carbon dioxide, trace amounts of other gases, and a variable amount (average around 1%) of water vapor) that surrounds the planet Earth.

biofilm material
type: Class
subclass of: organic material
definition: Material derived from a biofilm, an aggregate of microorganisms in which cells adhere to each other and/or to a surface. These adherent cells are frequently embedded within a self-produced matrix of extracellular polymeric substance (EPS). Biofilm EPS, which is also referred to as slime, is a polymeric conglomeration generally composed of extracellular DNA, proteins, and polysaccharides in various configurations.

feces
type: Class
subclass of: bodily fluid
definition: Feces is an excreta consisting of waste products expelled from an animal's digestive tract through the anus (or cloaca) during defecation.

subterrestrial habitat
type: Class
subclass of: geosphere
definition: A habitat that is below the surface of the earth.

agricultural soil
type: Class
subclass of: soil

watershed
type: Class
subclass of: hydrosphere
definition: The separation between neighbouring drainage basins (catchments). In hilly country, the divide lies along topographical peaks and ridges, but in flat country or on a high plateau (especially where the ground is marshy) the divide may be invisible - just a more or less notional line on the ground on either side of which falling raindrops will start a journey to different rivers, and even to different sides of a country or continent.

continental divide
type: Class
subclass of: watershed
definition: A watershed such that water falling on one side of the line eventually travels to one ocean or body of water, and water on the other side travels to another, generally on the opposite side of the continent.

plaque
type: Class
subclass of: organism association

marine biome
type: Class
subclass of: aquatic biome
definition: An aquatic biome that comprises systems of open-ocean and unprotected coastal habitats, characterized by exposure to wave action, tidal fluctuation, and ocean currents as well as systems that largely resemble these. Water in the marine biome is generally within the salinity range of seawater: 30 to 38 ppt.

estuarine biome
type: Class
subclass of: hydrosphere
definition: Expressions of the estuarine biome occur at wide lower courses of a rivers where they flows into a sea. Estuaries experience tidal flows and their water is a changing mixture of fresh and salt.

plain
type: Class
subclass of: geosphere
definition: A region of general uniform slope, comparatively level, and of considerable extent.

Small lake biome
type: Class
subclass of: freshwater biome

freshwater biome
type: Class
subclass of: aquatic biome
definition: A biome that applies to the freshwater realm.

volcanic feature
type: Class
subclass of: hydrosphere
definition: A feature associated with a volcano, an opening, or rupture, in the Earth's surface or crust, which allows hot, molten rock, ash and gases to escape from deep below the surface.

wound
type: Class
subclass of: organism association

forest
type: Class
subclass of: geosphere
definition: An area with a high density of trees. A small forest may be called a wood.

clay soil
type: Class
subclass of: soil

biotic mesoscopic physical object
type: Class
subclass of: mesoscopic physical object

mesoscopic physical object
type: Class
subclass of: organism association
definition: An environmental feature that is, or can be, contained and is predominantly composed of one or a few types of stuff.

mucus
type: Class
subclass of: organism association
definition: Mucus is a bodily fluid consisting of a slippery secretion of the lining of the mucous membranes in the body. It is a viscous colloid containing antiseptic enzymes (such as lysozyme) and immunoglobulins. Mucus is produced by goblet cells in the mucous membranes that cover the surfaces of the membranes. It is made up of mucins and inorganic salts suspended in water.

surface water
type: Class
subclass of: water

pond
type: Class
subclass of: lake
definition: A body of water, usually of smaller size than a lake.

fjord
type: Class
subclass of: coastal inlet
definition: A long and narrow sea inlet with high steeply sloped walled sides. A fjord is a landform created during a period of glaciation.

lagoon
type: Class
subclass of: coastal wetland
definition: A sheet of saline water separated from the open sea by sand or shingle banks. The sheet of water between an offshore reef, especially of coral and mainland. The sheet of water within a ring or horseshoe shaped atoll.

coastal wetland
type: Class
subclass of: wetland
definition: A wetland associated with the part of the land adjoining or near a sea or ocean.

ocean biome
type: Class
subclass of: marine biome
definition: The ocean biome comprises major bodies of saline water, principal components of the hydrosphere. Approximately 71% of the Earth's surface is covered by ocean, a continuous body of water that is customarily divided into several principal oceans and smaller seas. More than half of this area is over 3,000 metres (9,800 ft) deep. Average oceanic salinity is around 35 parts per thousand (ppt) (3.5%), and nearly all seawater has a salinity in the range of 30 to 38 ppt.

ocean water
type: Class
subclass of: saline water

Small river biome
type: Class
subclass of: freshwater biome

marine habitat
type: Class
subclass of: saline water habitat
definition: A habitat that is in or on a sea or ocean containing high concentrations of dissolved salts and other total dissolved solids (typically >35 grams dissolved salts per litre).

anaerobic bioreactor
type: Class
subclass of: bioreactor

vaginal lubrication
type: Class
subclass of: organism association

Tundra biome
type: Class
subclass of: geosphere

anaerobic
type: Class
subclass of: atmosphere
definition: A quality inhering in a bearer by virtue of the bearer's independence on oxygen.

Rainforest Division (420)
type: Class
subclass of: forest

activated sludge
type: Class
subclass of: sludge

grassland
type: Class
subclass of: geosphere
definition: An area in which grasses (Graminae) are a significant component of the vegetation.

ectomycorrhiza
type: Class
subclass of: organism association

stream
type: Class
subclass of: water course
definition: Linear body of water flowing on the Earth's surface.

oil contaminated soil
type: Class
subclass of: soil

root nodule
type: Class
subclass of: organ
definition: Root nodules occur on the roots of plants that associate with symbiotic nitrogen-fixing bacteria.

marine channel
type: Class
subclass of: channel

channel
type: Class
subclass of: water course
definition: The physical confine of a river, slough or ocean strait consisting of a bed and banks.

microbial mat
type: Class
subclass of: microbial feature
definition: A multi-layered sheet of micro-organisms, mainly bacteria and archaea. Microbial mats grow at interfaces between different types of material, mostly on submerged or moist surfaces but a few survive in deserts.

microbial feature
type: Class
subclass of: organic feature

wastewater treatment plant
type: Class
subclass of: waste treatment plant

waste treatment plant
type: Class
subclass of: human activity association

estuary
type: Class
subclass of: coastal wetland
definition: A semi-enclosed coastal body of water with one or more rivers or streams flowing into it, and with a free connection to the open sea.

bay
type: Class
subclass of: coastal inlet
definition: An area of water bordered by land on three sides.

architectual structure
type: Class
subclass of: human activity association

rumen
type: Class
subclass of: organism association

mouth
type: Class
subclass of: water course
definition: The exit or point of discharge of a stream into another stream, lake or sea.

brewery
type: Class
subclass of: architectual structure

aerobic
type: Class
subclass of: atmosphere
definition: A quality inhering in a bearer by virtue of the bearer's dependence on oxygen.

permafrost
type: Class
subclass of: soil
definition: Soil at or below the freezing point of water (0C or 32F) for two or more years. Ice is not always present, as may be in the case of nonporous bedrock, but it frequently occurs and it may be in amounts exceeding the potential hydraulic saturation of the ground material.

terrestrial biome
type: Class
subclass of: geosphere
definition: A biome that applies to the terrestrial realm.

clay
type: Class
subclass of: geosphere
definition: A group of hydrous aluminium phyllosilicate (phyllosilicates being a subgroup of silicate minerals) minerals (see clay minerals), that are typically less than 2micrometres in diameter. Clay consists of a variety of phyllosilicate minerals rich in silicon and aluminium oxides and hydroxides which include variable amounts of structural water.

freshwater habitat
type: Class
subclass of: hydrosphere
definition: A habitat that is in or on a body of water containing low concentrations of dissolved salts and other total dissolved solids (<0.5 grams dissolved salts per litre).

strait
type: Class
subclass of: channel
definition: A narrow channel of water that connects two larger bodies of water, and thus lies between two land masses.

hot spring
type: Class
subclass of: hydrothermal vent
definition: A spring that is produced by the emergence of geothermally-heated groundwater from the Earth's crust.

hydrothermal vent
type: Class
subclass of: volcanic feature
definition: A fissure in the Earths's surface from which geothermally heated water issues.

sea water
type: Class
subclass of: saline water

farm
type: Class
subclass of: human activity association
definition: A tract of crop or grazing land, as well as the group of buildings with and often surrounding a farmhouse, including barns, sheds, and other outbuildings, used for agricultural production.

anthropogenic habitat
type: Class
subclass of: human activity association
definition: A habitat that is in or on an environmental feature or material derived from human activity.

supragingival plaque
type: Class
subclass of: plaque

blood
type: Class
subclass of: bodily fluid
definition: Blood is a bodily fluid composed of blood plasma and blood cells suspended within the plasma that circulates around the organism's body. Blood performs may important functions including the supplying of oxygen and nutrients, removal of waste, circulation of white blood cells, detection of antibodes, coagulation, transportation of antibodies and the regulation of pH and body temperature.

oxic
type: Class
subclass of: atmosphere
definition: An environment that contains oxygen.

marine hydrothermal vent chimney
type: Class
subclass of: hydrosphere

vinegar
type: Class
subclass of: fermented food product
definition: A liquid produced from the fermentation of ethanol in a process that yields its key ingredient, acetic acid.

spring
type: Class
subclass of: hydrosphere
definition: A point where groundwater or steam flows out of the ground, and is thus where the aquifer surface meets the ground surface or where there is a fissure.

coastal water
type: Class
subclass of: ocean water

endomycorrhiza
type: Class
subclass of: organism association

natto
type: Class
subclass of: fermented food product

frost flowers
type: Class
subclass of: hydrosphere
definition: Ice crystals commonly found growing on young sea ice and thin lake ice in cold, calm conditions.

reef
type: Class
subclass of: hydrosphere
definition: A ridge of rocks, lying near the surface of the sea, which may be visible at low tide, but is usually covered by water.

marsh
type: Class
subclass of: wetland
definition: A wetland, featuring grasses, rushes, reeds, typhas, sedges, and other herbaceous plants (possibly with low-growing woody plants) in a context of shallow water.

lake bottom mud
type: Class
subclass of: mud

coastal plain
type: Class
subclass of: plain
definition: An area of flat, low-lying land adjacent to a seacoast and separated from the interior by other features.

biofilm
type: Class
subclass of: microbial feature
definition: A complex aggregation of microorganisms marked by the excretion of a protective and adhesive matrix; usually adhering to a substratum.

coastal water body
type: Class
subclass of: coastal water
definition: Coastal water is a marine water body bordering a coast.

insecta-associated habitat
type: Class
subclass of: animal-associated habitat
definition: A habitat that is in or on a living insect. Here insect denotes an individual of a species that is a sub-taxon of NCBITaxon:50557.

marine coral reef biome
type: Class
subclass of: marine reef biome
definition: The marine coral reef biome comprises constructional wave-resistant entities which are primarily built by corals and are often cemented together. The growth of these structures is aided by zooxanthellae, algae that are symbiotic with the reef-building corals.

anoxic
type: Class
subclass of: atmosphere
definition: Suffering from a reduced supply of oxygen.

kimchi
type: Class
subclass of: fermented food product
definition: A Korean dish made of vegetables, such as cabbage or radishes, that are salted, seasoned, and stored in sealed containers to undergo lactic acid fermentation.

marine sediment
type: Class
subclass of: sediment
definition: Marine sediment is a sediment that accumulates in the flat or very gently sloping areas of the deep ocean basin floor. The three main types of marine sediment, also known as pelagic sediment, are siliceous oozes, calcareous oozes, and red clays.

river
type: Class
subclass of: stream
definition: Natural freshwater surface streams of considerable volume and a permanent or seasonal flow, moving in a definite channel toward a sea, lake, or another river; any large streams, or ones larger than brooks or creeks, such as the trunk stream and larger branches of a drainage system.

biochar
type: Class
subclass of: geosphere
definition: Charcoal that is used to nutritionally supplement soil.

subgingival plaque
type: Class
subclass of: plaque

Urogenital tract
type: Class
subclass of: organism association

Temperate grasslands, savannas, and shrubland biome
type: Class
subclass of: grassland

dental plaque
type: Class
subclass of: plaque

calcite hot spring
type: Class
subclass of: hot spring

definition
type: AnnotationProperty
range: string