Name: Odoribacter laneus DSM 22474
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12521

Type strain:

Species: Odoribacter laneus

Culture col. no.: DSM 22474, JCM 16069, YIT 12061, KCTC 15133

Strain history: Y. Watanabe B164 (=YIT 12061).

NCBI tax ID(s): 742817 (strain), 626933 (species)

SI-ID 397108

DSM 22474

Section

Odoribacter laneus DSM 22474 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human faeces of healthy Japanese adult.

Gram-negative
rod-shaped
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Odoribacteraceae*
	Genus	*Odoribacter*
	Species	**Odoribacter laneus**
	Full Scientific Name (LPSN)	Odoribacter laneus Nagai et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29508]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #29508]	Cell length	9.2 µm

[Ref.: #29508]	Cell width	1.15 µm

[Ref.: #29508]	Cell shape	rod-shaped

[Ref.: #29508]	Motility	no

[Ref.: #29508]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16357]

Culture medium

FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)

[Ref.: #16357]

Culture medium growth

[Ref.: #16357]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16357]

Culture medium composition

expand / minimize

[Ref.: #16357]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #16357]

Culture medium growth

[Ref.: #16357]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16357]

Culture medium composition

expand / minimize

[Ref.: #16357]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #16357]

Culture medium growth

[Ref.: #16357]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16357]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #16357]			growth	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #16357]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #16357]	Oxygen tolerance	anaerobe
[Ref.: #29508]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.598

[Ref.: #69481]	Ability of spore formation	no Confidence in %93
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.989

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68367]	cellobiose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-glucose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-mannitol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-mannose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68367]	D-xylose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	esculin ChEBI	-	hydrolysis	* from API 20A
[Ref.: #68367]	gelatin ChEBI	+	hydrolysis	* from API 20A
[Ref.: #68367]	glycerol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	L-arabinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #68367]	L-rhamnose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	lactose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	maltose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	melezitose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68367]	raffinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68367]	salicin ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	sorbitol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	sucrose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	trehalose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	tryptophan ChEBI	+	energy source	* from API 20A, API rID32A
[Ref.: #68367]	urea ChEBI	-	hydrolysis	* from API 20A, API rID32A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #29508]		indole ChEBI	yes
[Ref.: #68367]		indole ChEBI	yes	* from API 20A, API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #29508]		indole ChEBI	+
[Ref.: #68380]		indole ChEBI	+	* from API rID32A, API 20A

	Enzyme	Enzyme activity	EC number
[Ref.: #29508]	acid phosphatase	+	3.1.3.2
[Ref.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #29508]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68380]	alkaline phosphatase	+	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #29508]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68380]	alpha-galactosidase	+	3.2.1.22	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	+	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68380]	beta-galactosidase	+	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A, API 20A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #29508]	gelatinase	+
[Ref.: #68367]	gelatinase	+		* from API 20A
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	+	3.4.11.1	* from API rID32A
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	+	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A, API 20A
	Only first 10 entries are displayed. Click here to see all.

API® 20A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Indole productionIND	Urease/urea hydrolysisURE	Acid from D-glucoseGLU	Acid from D-mannitolMAN	Acid from lactoseLAC	Acid from sucroseSAC	Acid from maltoseMAL	Acid from salicinSAL	Acid from D-xyloseXYL	Acid from L-arabinoseARA	Gelatinase/gelatin hydrolysisGEL	Esculin hydrolysis/beta-glucosidaseESC	Acid from glycerolGLY	Acid from cellobioseCEL	Acid from D-mannoseMNE	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from sorbitolSOR	Acid from L-rhamnoseRHA	Acid from trehaloseTRE	CatalaseCAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
[Ref.: #16357]	2060	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® rID32A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #16357]	12400	-	-	+	+	+/-	+	-	-	-	+	-	-	-	+/-	-	+	+	+/-	-	+	-	+/-	-	-	+	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #16357]	Sample type/isolated from	human faeces of healthy Japanese adult
[Ref.: #16357]	Geographic location (country and/or sea, region)	Tokyo
[Ref.: #16357]	Country	Japan
[Ref.: #16357]	Country ISO 3 Code	JPN
[Ref.: #16357]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Human feces
* marker position based on {}

Isolation sources categories

#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB547648 (>99% sequence identity) for Odoribacter laneus subclade from Microbeatlas

Aquatic Samples	1394
Soil Samples	190
Animal Samples	21002
Plant Samples	34
Total Samples	22620

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #16357]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #16357]	Odoribacter laneus YIT 12061 gene for 16S rRNA, partial sequence	AB490805	1478	ENA	742817 tax ID
[Ref.: #20218]	Odoribacter laneus gene for 16S ribosomal RNA, partial sequence, strain: JCM 16069	AB547648	1487	ENA	742817 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Odoribacter laneus YIT 12061	GCA_000243215	scaffold	GenBank	742817 tax ID	*
[Ref.: #66792]	Odoribacter laneus YIT 12061	742817.3	wgs	PATRIC	742817 tax ID	*
[Ref.: #66792]	Odoribacter laneus YIT 12061	2513237280	draft	JGI IMG/M	742817 tax ID	*

[Ref.: #16357]	GC-content	42.4 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29508]	GC-content	42.4 mol%
[Ref.: #16357]	GC-content	40.5 mol%	sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Odoribacter laneus YIT 12061 YIT 12061 NCBI: GCA_000243215.1
[Ref.: #69481]	spore-forming	no	93	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Odoribacter laneus YIT 12061 YIT 12061 NCBI: GCA_000243215.1
[Ref.: #69480]	motile	no	92.336	no
[Ref.: #69480]	flagellated	no	97.276	yes
[Ref.: #69480]	gram-positive	no	96.147	yes
[Ref.: #69480]	anaerobic	yes	96.201	yes
[Ref.: #69480]	aerobic	no	93.811	yes
[Ref.: #69480]	halophile	no	78.756	no
[Ref.: #69480]	spore-forming	no	95.015	no
[Ref.: #69480]	thermophile	no	96.385	no
[Ref.: #69480]	glucose-util	yes	91.72	no
[Ref.: #69480]	glucose-ferment	yes	58.008	no

Availability in culture collections External links

[Ref.: #16357]

Culture collection no.

DSM 22474, JCM 16069, YIT 12061, KCTC 15133

[Ref.: #81740]

SI-ID 397108

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Alistipes indistinctus sp. nov. and Odoribacter laneus sp. nov., common members of the human intestinal microbiota isolated from faeces.	Nagai F, Morotomi M, Watanabe Y, Sakon H, Tanaka R	Int J Syst Evol Microbiol	10.1099/ijs.0.014571-0	2009	*

References

#16357

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22474

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#29508

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25907 (see below)

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68367

Automatically annotated from API 20A .

#68380

Automatically annotated from API rID32A .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#81740

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID397108.1 )

#25907

IJSEM 1296 2010 ( DOI 10.1099/ijs.0.014571-0 , PubMed 19667375 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Odoribacter laneus in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Odoribacter laneus YIT 12061 YIT 12061

Odoribacter laneus YIT 12061 YIT 12061

Change proposal

Change proposal