Name: Leptotrichia shahii LB 37
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17866

Type strain:

Species: Leptotrichia shahii

Strain Designation: LB 37

Culture col. no.: DSM 19757, CCUG 47503, CIP 107916, JCM 16776, VPI N06A-34

Strain history: CIP <- 2003, CCUG <- I. Olsen, Oslo, Norway: strain LB 37 <- W.E.C. Moore, VPI, Blacksburg, USA

NCBI tax ID(s): 1122172 (strain), 157691 (species)

SI-ID 131423

CCUG 47503, CIP 107916, DSM 19757, JCM 16776

Section

Leptotrichia shahii LB 37 is an anaerobe, mesophilic, Gram-negative human pathogen that was isolated from human gingivitis.

Gram-negative
rod-shaped
anaerobe
human pathogen
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	*Fusobacteriota*
	Class	*Fusobacteriia*
	Order	*Fusobacteriales*
	Family	*Leptotrichiaceae*
	Genus	*Leptotrichia*
	Species	**Leptotrichia shahii**
	Full Scientific Name (LPSN)	Leptotrichia shahii Eribe et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #30006]	Gram stain	negative
[Ref.: #122578]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.836

[Ref.: #30006]	Cell length	12.5 µm

[Ref.: #30006]	Cell width	0.7 µm

[Ref.: #30006]	Cell shape	rod-shaped
[Ref.: #122578]	Cell shape	rod-shaped

[Ref.: #30006]	Motility	no
[Ref.: #122578]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8297]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #8297]

Culture medium growth

[Ref.: #8297]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8297]

Culture medium composition

expand / minimize

[Ref.: #8297]

Culture medium

COLUMBIA BLOOD AGAR (DSMZ Medium 429)

[Ref.: #8297]

Culture medium growth

[Ref.: #8297]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8297]

Culture medium composition

expand / minimize

[Ref.: #33180]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #33180]

Culture medium growth

[Ref.: #33180]

Culture medium composition

expand / minimize

[Ref.: #122578]

Culture medium

CIP Medium 6

[Ref.: #122578]

Culture medium growth

[Ref.: #122578]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8297]	growth	37 °C
[Ref.: #30006]	growth	25-37 °C
[Ref.: #30006]	optimum	37 °C
[Ref.: #33180]	growth	37 °C
[Ref.: #57723]	growth	37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #8297]	Temperature range	mesophilic
[Ref.: #30006]	Temperature range	mesophilic
[Ref.: #33180]	Temperature range	mesophilic
[Ref.: #57723]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8297]	Oxygen tolerance	anaerobe
[Ref.: #30006]	Oxygen tolerance	anaerobe
[Ref.: #57723]	Oxygen tolerance	anaerobe
[Ref.: #122578]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.649

[Ref.: #30006]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %96
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.931

[Ref.: #30006]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30006]	arabinose ChEBI	+	carbon source
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #122578]	cellobiose ChEBI	-	degradation
[Ref.: #122578]	D-arabinose ChEBI	+	degradation
[Ref.: #122578]	D-fructose ChEBI	-	degradation
[Ref.: #122578]	D-glucose ChEBI	-	degradation
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #122578]	D-xylose ChEBI	+	degradation
[Ref.: #30006]	esculin ChEBI	+	hydrolysis
[Ref.: #122578]	esculin ChEBI	-	hydrolysis
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #122578]	lactose ChEBI	-	degradation
[Ref.: #122578]	maltose ChEBI	+	degradation
[Ref.: #122578]	nitrate ChEBI	-	reduction
[Ref.: #122578]	nitrate ChEBI	+	respiration
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #122578]	nitrite ChEBI	-	reduction
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #122578]	salicin ChEBI	+	degradation
[Ref.: #122578]	sucrose ChEBI	-	degradation
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #122578]		indole ChEBI	no
[Ref.: #68380]		indole ChEBI	no	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A, API zym
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A, API zym
[Ref.: #68380]	alpha-glucosidase	-	3.2.1.20	* from API rID32A, API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #122578]	amylase	+
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #122578]	beta-galactosidase	-	3.2.1.23
[Ref.: #68380]	beta-galactosidase	-	3.2.1.23	* from API rID32A, API zym
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A, API zym
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A, API zym
[Ref.: #122578]	caseinase	+	3.4.21.50
[Ref.: #30006]	catalase	+	1.11.1.6
[Ref.: #122578]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #122578]	gelatinase	-
[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]	L-arginine arylamidase	-		* from API rID32A
[Ref.: #122578]	lecithinase	-
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A, API zym
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #122578]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A, API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #122578]	oxidase	-
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #122578]	protease	-
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #122578]	tween esterase	+
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #122578]	urease	-	3.5.1.5
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #8297]	12300	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #122578]	10744	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-

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

[Ref.: #8297]	Sample type/isolated from	human gingivitis
[Ref.: #8297]	Country	USA
[Ref.: #8297]	Country ISO 3 Code	USA
[Ref.: #8297]	Continent	North America

[Ref.: #57723]	Sample type/isolated from	Human gingivitis

[Ref.: #67770]	Sample type/isolated from	Patient with gingivitis

[Ref.: #122578]	Sample type/isolated from	Human, Gingivitis
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Gingiva

What are isolation sources categories?

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

[Ref.: #8297]	Pathogenicity (human)	yes, in single cases
[Ref.: #8297]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122578]	Biosafety level	1	Risk group (French classification)

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.: #67770]	Leptotrichia shahii gene for 16S ribosomal RNA, partial sequence, strain: JCM 16776	AB558171	1473	ENA	157691 tax ID
[Ref.: #8297]	Leptotrichia shahii strain LB37 16S ribosomal RNA gene, partial sequence	AY029806	1485	ENA	157691 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Leptotrichia shahii DSM 19757	GCA_000373045	scaffold	GenBank	1122172 tax ID
[Ref.: #66792]	Leptotrichia shahii JCM16776	GCA_008327825	complete	GenBank	157691 tax ID	*
[Ref.: #66792]	Leptotrichia shahii DSM 19757	1122172.3	wgs	PATRIC	1122172 tax ID	*
[Ref.: #66792]	Leptotrichia shahii strain JCM16776	157691.3	wgs	PATRIC	157691 tax ID	*
[Ref.: #66792]	Leptotrichia shahii DSM 19757	2515154071	draft	JGI IMG/M	1122172 tax ID	*

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: Leptotrichia shahii JCM16776 NCBI: GCA_008327825.1
[Ref.: #69481]	spore-forming	no	96	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Leptotrichia shahii JCM16776 NCBI: GCA_008327825.1
[Ref.: #69480]	motile	no	94.056	yes
[Ref.: #69480]	flagellated	no	96.559	yes
[Ref.: #69480]	gram-positive	no	94.023	no
[Ref.: #69480]	anaerobic	yes	96.743	yes
[Ref.: #69480]	aerobic	no	98.979	yes
[Ref.: #69480]	halophile	no	74.345	no
[Ref.: #69480]	spore-forming	no	94.703	yes
[Ref.: #69480]	glucose-util	yes	72.948	no
[Ref.: #69480]	thermophile	no	97.232	no
[Ref.: #69480]	glucose-ferment	yes	62.412	no

Availability in culture collections External links

[Ref.: #8297]

Culture collection no.

DSM 19757, CCUG 47503, CIP 107916, JCM 16776, VPI N06A-34

[Ref.: #86856]

SI-ID 131423

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genetic diversity of Leptotrichia and description of Leptotrichia goodfellowii sp. nov., Leptotrichia hofstadii sp. nov., Leptotrichia shahii sp. nov. and Leptotrichia wadei sp. nov.	Eribe ERK, Paster BJ, Caugant DA, Dewhirst FE, Stromberg VK, Lacy GH, Olsen I	Int J Syst Evol Microbiol	10.1099/ijs.0.02819-0	2004	*

References

#8297

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19757

#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 )

#30006

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 #26370 (see below)

#33180 ; Curators of the CIP;
#57723 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 47503

#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;

#68380

Automatically annotated from API rID32A .

#68382

Automatically annotated from API zym .

#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 )

#86856

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-ID131423.1 )

#122578 Collection of Institut Pasteur ; Curators of the CIP; CIP 107916

#26370

IJSEM 583 2004 ( DOI 10.1099/ijs.0.02819-0 , PubMed 15023979 )

* These data were automatically processed and therefore are not curated

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Leptotrichia shahii JCM16776

Leptotrichia shahii JCM16776

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