PBDB Data Service 1.2 v2 > General documentation > Ecological and taphonomic vocabulary

DESCRIPTION

This page describes the vocabulary and interface relating to ecological and taphonomic information in this database.

PARAMETERS

The ecology and taphonomy information for a given taxon or occurrence is returned in the following output blocks, which you can select using the common parameter show. These are available when returning both occurrence records and taxa records.

ecospace

Returns a set of fields describing the ecospace occupied by the organism.

ttaph

Returns a set of fields describing the taphonomy of the organism.

etbasis

Returns a set of fields describing the base taxon for which the ecospace and taphonomy information for this organism was specified. This information is automatically propagated down the taxonomic tree, so that subtaxa inherit information from their parents.

VOCABULARY

This section includes a list of fields and the vocabulary used by each one. In there are multiple values, they will be separated by commas.

Ecospace

Field nameBlockDescription
pbdbcom
taxon_environment jev ecospace

The general environment or environments in which this life form is found. Values include:

lagoonal
coastal
inner shelf
outer shelf
oceanic
oligotrophic
mesotrophic
eutrophic
hypersaline
marine
brackish
freshwater
terrestrial
motility jmo ecospace

Whether the organism is motile, attached and/or epibiont, and its mode of locomotion if any. This field combines the values from the database columns locomotion, attached, epibiont. Values include:

stationary
facultatively mobile
passively mobile
actively mobile
fast-moving
slow-moving
attached
epibiont
life_habit jlh ecospace

The general life mode and locality of this organism. This field combines the values from the database columns life_habit, grouping, clonal, polymorph, depth_habitat. Values include:

boring
infaunal
shallow infaunal
deep infaunal
semi-infaunal
epifaunal
low-level epifaunal
intermediate-level epifaunal
upper-level epifaunal
nektobenthic
nektonic
planktonic
fossorial
semifossorial
ground dwelling
cursorial
saltatorial
scansorial
arboreal
gliding
volant
amphibious
herbaceous
arborescent
aquatic
colonial
gregarious
solitary
clonal
polymorph
depth=surface
depth=thermocline
depth=subthermocline
depth=deep
vision jvs ecospace

The degree of vision possessed by this organism. Values include:

blind
limited
well-developed
diet jdt ecospace

The general diet or feeding mode of this organism. This field combines the values of the database columns diet1 and diet2. Values include:

chemoautotroph
"photoautotroph"
C3 autotroph
C4 autotroph
CAM autotroph
chemosymbiotic
photosymbiotic
herbivore
frugivore
folivore
browser
grazer
granivore
omnivore
insectivore
carnivore
microcarnivore
piscivore
durophage
parasite
suspension feeder
osmotroph
deposit feeder
detritivore
saprophage
coprophage
reproduction jre ecospace

The mode of reproduction of this organism. This field combines the values of the database columns reproduction, asexual, brooding, dispersal1, dispersal2. Values include:

oviparous
ovoviviparous
viviparous
alternating
homosporous
heterosporous
seeds
fruits
asexual
brooding
direct/internal
water
wind
animal
ontogeny jon ecospace

Briefly describes the ontogeny of this organism. Values include:

accretion
molting
addition of parts
modification of parts
replacement of parts

Taphonomy

Field nameBlockDescription
pbdbcom
composition jco ttaph

The composition of the skeletal parts of this organism. This field combines the values of the database columns composition1, composition2. Values include:

aragonite
"calcite"
high Mg calcite
intermediate Mg calcite
low Mg calcite
hydroxyapatite
phosphatic
calcified cartilage
silica
agglutinated
chitin
lignin
"sclero-protein"
cutan/cutin
other
no hard parts
architecture jsa ttaph

An indication of the internal skeletal architecture. Values include:

porous
compact or dense
thickness jth ttaph

An indication of the relative thickness of the skeleton. Values include:

thin
intermediate
thick
reinforcement jsr ttaph

An indication of the skeletal reinforcement, if any. This field combines the values of the database fields folds, ribbing, spines, internal_reinforcement. Values include:

none
minor folds
major folds
minor ribbing
major ribbing
minor spines
major spines
minor internal reinforcement
major internal reinforcement

Basis

The fields listed in this section document which taxon each part of the ecospace and taphanomic information is associated with. It may be either the taxon that was directly queried, or it may be one of its supertaxa. In general, this information is carried down the taxonomic hierarchy unless overridden for specific subtaxa.

Field nameBlockDescription
pbdbcom
environment_basis jec ecospace

This field reports the basis taxon for taxon_environment.

motility_basis jmc etbasis

This field reports the basis taxon for motility.

life_habit_basis jhc etbasis

This field reports the basis taxon for life_habit.

vision_basis jvc etbasis

This field reports the basis taxon for vision_basis.

diet_basis jdc etbasis

This field reports the basis taxon for diet.

reproduction_basis jrc etbasis

This field reports the basis taxon for reproduction.

ontogeny_basis joc etbasis

This field reports the basis taxon for ontogeny.

taphonomy_basis jtc etbasis

This field reports the basis taxon for the fields composition, architecture, thickness, reinforcement. If these come from different basis taxa, the one that is lowest (closest to the taxon being queried) is reported.

 

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