This view has 204 main fields arranged in 9 sections (which themselves may contain subsections - only exception is the section references). Please see the table below for more details.

The result contains only fields with valid content. If a data field within BacDive is not filled with content this field is omitted in the response. This behavior resembles the setup of the BacDive's strain detail view in the portal. Thus the retrieved result may contain less fields than specified in the table of all data fields that are reachable by the web service.

The sections are shown always, even when empty. When a subsection is empty, it is also ommited. Most of the subsections (with some exceptions, for example the subsection strains) may contain one or more entries. Beyond the main fields, every entry in the subsections has a field ID_reference holding the ID of the reference. If the reference is text mined the subsection will contain a field text_mined with the value true (if the field text_mined has the value false, then it is ommited).

All references in the result are summed up in the section references.

Legend for the table
subsection
field

The table has three columns:

The subsections have no verbose names and no description. They are prefixed with the string 'subsection: '.

Section ID Section name Description
subsection: strains
domain Domain Domain name (taxonomic rank)
phylum Phylum Phylum name (taxonomic rank)
class Class Class name (taxonomic rank).
ordo Order name of order. taxonomic rank.
family Family Family name (taxonomic rank)
genus Genus Genus name (taxonomic rank)
species Species Species name, which includes genus, species and subspecies epithet (taxonomic rank)
species_epithet Species epithet Second part of species name
subspecies_epithet Subspecies epithet Third part of species name, where applicable
full_scientific_name Full Scientific Name Species name, author(s) and year of the valid publication of the species name.
designation Strain Designation Name of the strain as given in publications or public databases
variant Variant variations of a strain, e.g. serotype, biovar or isotype
is_type_strain Type strain Is this strain a type strain.
subsection: strains_synonyms_PNU
pnu_synonym Synonym species name / synonym name from PNU
subsection: strains_tax_PNU
species_epithet Species epithet (PNU) Second part of species name
subspecies_epithet Subspecies epithet Third part of species name, where applicable
is_type_strain Type strain Is this strain a type strain.
domain_lpsn_url domain_lpsn_url The URL is a direct link to the corresponding LPSN page
phylum_lpsn_url phylum_lpsn_url The URL is a direct link to the corresponding LPSN page
class_lpsn_url class_lpsn_url The URL is a direct link to the corresponding LPSN page
ordo_lpsn_url ordo_lpsn_url The URL is a direct link to the corresponding LPSN page
family_lpsn_url family_lpsn_url The URL is a direct link to the corresponding LPSN page
genus_lpsn_url genus_lpsn_url The URL is a direct link to the corresponding LPSN page
species_lpsn_url species_lpsn_url The URL is a direct link to the corresponding LPSN page
domain Domain Domain name (taxonomic rank) according Prokaryotic Nomenclature Up-to-date
phylum Phylum Phylum name (taxonomic rank) according Prokaryotic Nomenclature
class Class Class name (taxonomic rank) according Prokaryotic Nomenclature .
ordo Order name of order. taxonomic rank according Prokaryotic Nomenclature Up-to-date.
family Family Family name (taxonomic rank) according Prokaryotic Nomenclature Up-to-date
genus Genus Genus name (taxonomic rank)
species Species Species name, which includes genus, species and subspecies epithet (taxonomic rank) according Prokaryotic Nomenclature Up-to-date
full_scientific_name Full Scientific Name (PNU) Species name, author(s) and year of the valid publication of the species name.
Section ID Section name Description
subsection: cell_morphology
cell_len_unit Cell length unit Unit of length of the cell.
cell_width_unit Cell width unit Unit of width of the cell
gram_stain Gram stain Gram staining
cell_len Cell length Length of the cell.
cell_width Cell width Width of the cell
cell_shape Cell shape Description of the cell shape.
motility Motility ability of motility
flagellum_arrangement Flagellum arrangement The description of flagellum/flagella the bacterium is equipped with, in case of motility via flagellum/flagella.
subsection: colony_morphology
colony_len_unit Colony length unit Unit of given length of the colony on distinct medium and temperature after a certain time of cultivation.
hemolysis_type Type of hemolysis alpha-, beta or gamma-hemolysis
hemolysis_ability Hemolysis ability positive (+) or negative (-)
colony_len Colony size Length of the colony on distinct medium and temperature after a certain time of cultivation.
colony_color Colony color Color of the colony on distinct medium and temperature after a certain time of cultivation.
colony_shape Colony shape Shape of the colony on distinct medium and temperature after a certain time of cultivation(form, elevation, margins, surface).
incubation_period Incubation period Incubation period in context with the description of colony morphology
medium_name Cultivation medium used Name of a medium for cultivation.
medium_composition Cultivation medium composition Composition of a medium for cultivation.
subsection: multicellular_morphology
multicell_size_unit Multicellular complex size unit Unit of given multicellular complex that is formed.
ability Multicellular complex forming ability Ability of forming multicellular complexes (aggregations).
multicell_name Multicellular complex name Names the kind of multicellular complex that is formed.
multicell_color Multicellular complex color Names the color of multicellular complex that is formed.
medium_name Medium Name (multicellularity) Name of the cultivation medium used for observing (potential) ability of multicellular complex formation.
multicell_size Multicellular complex size Average size of multicellular complex that is formed.
description Multicellular complex further description Detailed description of the multicellular complex that is formed.
subsection: pigmentation
pigment_production Pigment production Presence of pigmentation
pigment_color Pigmentation color Color of pigmentation.
pigment_name Pigment name Name of the pigment.
Section ID Section name Description
subsection: culture_medium
medium_name Culture medium Name of the culture medium
medium_growth Culture medium growth if 1 growth, 0 no growth
media_link Culture medium link link to medium recipe
medium_composition Culture medium composition Components of the culture medium and recipe
subsection: culture_pH
ability Testresult positive/negative test result
test_type Kind of pH e.g. maximum, optimum or growth in general
pH pH tested pH values
subsection: culture_temp
ability Testresult positive/negative test result
test_type Kind of temperature e.g. maximum, optimum or growth in general
temp Temperature temperature [°C]
temperature_range Temperature range psychrophilic (<25°C), mesophilic (25-39°C), thermophilic (40-79°C), hyperthermophilic (>80°C)
Section ID Section name Description
subsection: compound_production
compound_name Name of produced compound Name of produced compound (e.g. name of a secondary metabolite).
excreted Is excreted product Yes if produced compound is excreted.
subsection: ed_pathways
pathway Pathway EnzymeDetector pathway name e.g. Glycolysis
coverage Enzyme coverage EnzymeDetector coverage of this pathway in percent
subsection: enzymes
enzyme Enzyme enzyme e.g. catalase, urease, alkaline phosphatase
activity Enzyme activity Tested activity
ec_number EC number Corresponding EC number
subsection: FA_profile
FA_name Fatty acid e.g. C12:0
FA_percent Percentage percentage
FA_STDV SD standard deviation if available
FA_ECL ECL Estimated chain length if available
subsection: halophily
halophily Halophily / tolerance level Tolerance level towards salinity (usually tested for NaCl).
salt Salt Kind of salt related to halophily information usually NaCl.
ability Testresult Ability of salt tolerance.
test_type Tested relation Kind of relation for a tested salt concentration
salt_concentration Salt conc. Tested salt concentration (usually in %)
salt_concentration_unit salt concentration unit e.g. %(w/v), %
subsection: met_antibiogram
manual_annotation Manually annotated Is set true if manual annotation/curation has been conducted for a reference
Medium_antibiogram Medium Medium used for cultivation
Inc_temp_antibiogram Incubation temperature [°C] Incubation temperature in °C
Inc_time_antibiogram Incubation time [d] Incubation time in days
Inc_ox_antibiogram Oxygen condition e.g. aerobic, anaerobic
P_antibiogram Penicillin G 6 µg (disc)
OX_antibiogram Oxacillin 5 µg (disc)
AMP_antibiogram Ampicillin 10 µg (disc)
TIC_antibiogram Ticarcillin 75 µg (disc)
MEZ_antibiogram Mezlocillin 30 µg (disc)
KF_antibiogram Cefalotin 30 µg (disc)
KZ_antibiogram Cefazolin 30 µg (disc)
CTX_antibiogram Cefotaxime 30 µg (disc)
ATM_antibiogram Aztreonam 30 µg (disc)
IPM_antibiogram Imipenem 10 µg (disc)
TE_antibiogram Tetracycline 30 µg (disc)
C_antibiogram Chloramphenicol 30 µg (disc)
CN_antibiogram Gentamycin 10 µg (disc)
AK_antibiogram Amikacin 30 µg (disc)
VA_antibiogram Vancomycin 30 µg (disc)
E_antibiogram Erythromycin 15 µg (disc)
MY_antibiogram Lincomycin 15 µg (disc)
OFX_antibiogram Ofloxacin 5 µg (disc)
NOR_antibiogram Norfloxacin 10 µg (disc)
CT_antibiogram Colistin 10 µg (disc)
PIP_antibiogram Pipemidic acid 20 µg (disc)
F_antibiogram Nitrofurantoin 100 µg (disc)
B_antibiogram Bacitracin 10 Unit
PB_antibiogram Polymyxin B 300 Unit
K_antibiogram Kanamycin 30 µg (disc)
N_antibiogram Neomycin 30 µg (disc)
DO_antibiogram Doxycycline 30 µg (disc)
CRO_antibiogram Ceftriaxone 30 µg (disc)
DA_antibiogram Clindamycin 10 µg (disc)
FOS_antibiogram Fosfomycin 50 µg (disc)
MXF_antibiogram Moxifloxacin 5 µg (disc)
LZD_antibiogram Linezolid 10 µg (disc)
NS_antibiogram Nystatin 100 Unit
QD_antibiogram Quinupristin/Dalfopristin 15 µg (disc)
TEC_antibiogram Teicoplanin 30 µg (disc)
TZP_antibiogram Piperacillin/Tazobactam 30/10 µg (disc)
subsection: met_antibiotica
chebi_ID Chebi ID Identifier for Chebi
MET_group_ID Group ID of combined antibiotics Group of combined antibiotics
metabolite_antib Metabolite e.g. a substrate, an electron acceptor, a degraded metabolite
is_antibiotic Antibiotic function Yes if metabolite has an antibiotic function
ab_sensitive Antibiotic sensitivity General relation of an organism to an antibiotic substance
ab_sensitivity_conc Concentration Concentration in g/L
ab_sensitivity_unit concentration unit e.g. g/L, mM
ab_intermediate Antibiotic intermediate General relation of an organism to an antibiotic substance
ab_intermediate_conc Concentration Concentration in g/L
ab_intermediate_unit concentration unit e.g. g/L, mM
ab_resistant Antibiotic resistance General relation of an organism to an antibiotic substance
ab_resistance_conc Concentration Concentration in g/L
ab_resistance_unit concentration unit e.g. g/L, mM
subsection: met_production
chebi_ID Chebi ID Identifier for Chebi
metabolite_prod Metabolite e.g. a substrate, an electron acceptor, a degraded metabolite
production Production Yes if it is a metabolite production
excreted Excretion Yes if it is a metabolite excretion
subsection: met_test
chebi_ID Chebi ID Identifier for Chebi
metabolite_test Metabolite e.g. a substrate, an electron acceptor, a degraded metabolite
voges_proskauer Voges-Proskauer-test Test for acetoin production
methyl_red Methylred-test Test for mixed acid fermentation on glucose
indole_test Indole test Test for ability to convert tryptophan into indole
citrate_test Citrate test Test for the ability of using citrate as sole carbon source.
subsection: met_util
chebi_ID Chebi ID Identifier for Chebi
metabolite_util Metabolite e.g. a substrate, an electron acceptor, a degraded metabolite
ability Utilization activity Ability of metabolite utilization.
test_type Kind of utilization tested Type of applied utilization test.
subsection: murein
murein_short_index Murein short key To save space, a special system has been developed to characterize the different murein types. This key enables the user to link the abbreviations to the system proposed for the characterization and representation of peptidoglycan types proposed by Schleifer and Kandler 1972. An extension by an apostrophe e.g. A3 alpha' denotes that the L-Ala residue found normally in position 1 of the peptide subunit is replaced by Gly.
murein_types Murein types Characterization of the different murein types.
subsection: nutrition_type
nutrition_type Nutrition type eg. autotroph, heterotroph, phototrop, ...
subsection: observation
attribute Observation Known attribute or ability of the strain e.g. cellulose decompositon, yeast lysis
subsection: oxygen_tolerance
oxygen_tol Oxygen tolerance information depends on applied culture medium
subsection: spore_formation
description Spore description Further description.
type Type of spore Type of spore
ability Ability of spore formation Ability of spore formation.
subsection: tolerance
concentration_unit Tolerated substance unit Unit of tolerated compound/substance.
compound_name Name of tolerated compound Name of tolerated substances.
level_percent Tolerance percentage Tolerance level in percent towards substances.
concentration Tolerated concentration Tolerated substance - concentration tolerated.
Section ID Section name Description
subsection: origin
sample_type Sample type/isolated from property of the sample the bacterium was isolated from.
Host_Species Host species The host species where a strain was isolated from
sample_date Sampling date The time of sampling.
geo_loc_name Geographic location (country and/or sea, region) The geographical origin of the sample as defined by the country or sea name followed by specific region name.
country Country country name: sample material/strain origin
iso_3 Country ISO 3 Code country name: sample material/strain origin
continent Continent continent name: sample material/strain origin
latitude Geographic location (latitude) The geographical origin of the sample as defined by latitude.
longitude Geographic location (longitude) The geographical origin of the sample as defined by longitude.
enrichment_cult_name Enrichment culture If derived/isolated from an enrichment culture medium is specified here.
enrichment_cult_composition Enrichment culture composition If derived/isolated from an enrichment culture medium is specified here.
enrichment_cult_duration Enrichment culture duration If derived/isolated from an enrichment culture duration is specified here.
enrichment_cult_temp Enrichment culture temperature If derived/isolated from an enrichment culture medium temperature is specified here.
isolation_date Isolation date See Bacterial and Fungal MINE: isolationDate is the last subfield
procedure_origin Isolation/enrichment procedure Further describtion on enrichment or isolation precedure
Section ID Section name Description
subsection: risk_assessment
pathogenicity_human Pathogenicity (human) Ability of causing pathological conditions within the referring organism
pathogenicity_animal Pathogenicity (animal) Ability of causing pathological conditions within the referring organism
pathogenicity_plant Pathogenicity (plant) Ability of causing pathological conditions within the referring organism
biosafety_level Biosafety level Biosafety level defined for the strain
biosafety_level_comment Biosafety level comment Year/country/location when/where this biosafety level was defined
Section ID Section name Description
subsection: GC_content
GC_content GC-content Guanine-Cytosine content in mol %
GC_method GC-content method Method of guanine-cytosine content determination (e.g. high pressure liquid chromatography (HPLC),thermal denaturation, midpoint method (Tm),fluorimetric,Thermal denaturation, fluorometry,Buoyant density centrifugation (BD),capillary zone electrophoresis (CZE),real time PCR (RTD-PCR),sequence analysis,genome sequence analysis,paper chromatography)
subsection: sequence_16S
sequence_name Sequence accession description Given title of this accession number in the INSDC sequence database.
sequence_acc Seq. accession number Known accession numbers of sequence databases can be entered.
sequence_length Sequence length Length of the sequence
link_db Sequence database Name of the databse.
tax_id Associated NCBI tax ID NCBI tax ID Associated which is associated to the refering INSDC accession number.
subsection: sequence_genomes
sequence_name Sequence accession description Given title of this accession number in the corresponding database.
sequence_acc Seq. accession number Known accession numbers of sequence database.
assembly_lvl Assembly level Assembly level
source_db Sequence database Name of the databse.
tax_id Associated NCBI tax ID NCBI tax ID Associated which is associated to the refering INSDC accession number.
Section ID Section name Description
subsection: straininfo_link
straininfo_strainnumber Associated Passport(s) in StrainInfo Strain passport(s) associated to the strain at StrainInfo.net and its number(s) given by a public culture collection or bioresource center, where applicable more than one per strain
URL Associated Passport(s) in StrainInfo Strain passport(s) associated to the strain at StrainInfo.net and its number(s) given by a public culture collection or bioresource center, where applicable more than one per strain
subsection: strains
strain_number Culture collection no. Accession number, i.e. the unique number given by a public culture collection or bioresource center to the strain, where applicable more than one per strain (e.g. DSM 2324, ATCC 6438, NCIB 2224)
Section ID Section name Description
subsection: references
ID_references Reference ID ID of the reference
reference Reference The complete reference