Name: Longicatena caecimuris PG-426-CC-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 131525

Type strain:

Species: Longicatena caecimuris

Strain Designation: PG-426-CC-2

Culture col. no.: DSM 29481, KCTC 15535, JCM 32781

Strain history: <- Barbel Fosel, DSM

NCBI tax ID(s): 1796635 (species)

SI-ID 396751

DSM 29481

Special Collections

Other strains from Longicatena caecimuris

Section

When using BacDive for research please cite our paper

Longicatena caecimuris PG-426-CC-2 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from caecal content; TNF^deltaARE/+ C57BL/6 mouse.

rod-shaped
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Erysipelotrichia*
	Order	*Erysipelotrichales*
	Family	*Erysipelotrichaceae*
	Genus	*Longicatena*
	Species	**Longicatena caecimuris**
	Full Scientific Name (LPSN)	Longicatena caecimuris Lagkouvardos et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	filament-shaped

[Ref.: #22752]

Incubation period

2-3 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22752]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #22752]

Culture medium growth

[Ref.: #22752]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22752]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #22752]	growth	37 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #67771]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #22752]	Oxygen tolerance	anaerobe
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #125439]	Oxygen tolerance	anaerobe Confidence in %97.2

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A

	Metabolite production	Metabolite	Production
[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.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[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-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[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.: #68380]	leucine arylamidase	-	3.4.11.1	* 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
	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.: #22752]	14443	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #22752]	14442	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #22752]	14205	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #22752]	Sample type/isolated from	caecal content; TNF^deltaARE/+ C57BL/6 mouse
[Ref.: #22752]	Geographic location (country and/or sea, region)	Freising
[Ref.: #22752]	Country	Germany
[Ref.: #22752]	Country ISO 3 Code	DEU
[Ref.: #22752]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Cecum of a mouse
[Ref.: #67770]	Geographic location (country and/or sea, region)	Freising
[Ref.: #67770]	Country	Germany
[Ref.: #67770]	Country ISO 3 Code	DEU
[Ref.: #67770]	Continent	Europe

[Ref.: #67771]	Sample type/isolated from	From mouse instine, caecal content; TNFdeltaARE/+ C57BL/6 mouse
[Ref.: #67771]	Geographic location (country and/or sea, region)	Freising
[Ref.: #67771]	Country	Germany
[Ref.: #67771]	Country ISO 3 Code	DEU
[Ref.: #67771]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body-Site	#Gastrointestinal tract	#Large intestine
#Host Body Product	#Gastrointestinal tract	#Caecal content

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KR364771 (>99% sequence identity) for Longicatena caecimuris subclade from Microbeatlas

Aquatic Samples	168
Soil Samples	30
Animal Samples	16023
Plant Samples	29
Total Samples	16250

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

[Ref.: #22752]

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.: #22752]	Longicatena caecimuris strain PG-426-CC-2 16S ribosomal RNA gene, partial sequence	KR364771	1433	GenBank ENA	1796635 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67771]	Longicatena caecimuris DSM 29481	GCA_004341945	contig	GenBank ENA	1796635 tax ID
[Ref.: #66792]	Longicatena caecimuris strain DSM 29481	1796635.10	wgs	PATRIC	1796635 tax ID	*
[Ref.: #66792]	Longicatena caecimuris DSM 29481	2791354872	draft	JGI IMG/M	1796635 tax ID	*
[Ref.: #66792]	Longicatena caecimuris DSM 29481	GCA_024622185	contig	GenBank ENA	1796635 tax ID	*

[Ref.: #67770]

GC-content

37.8 mol%

genome sequence analysis

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Longicatena caecimuris strain DSM 29481 PATRIC: 1796635.10
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	77.403	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	81.542	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	60.861	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	96.286	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	90.6	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	66.528	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Longicatena caecimuris DSM 29481 NCBI: GCA_004341945
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	65
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	60.9
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	71.5
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	97.2

Availability in culture collections External links

[Ref.: #22752]

Culture collection no.

DSM 29481, KCTC 15535, JCM 32781

[Ref.: #89939]

SI-ID 396751

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of a new member of the family Erysipelotrichaceae: Dakotella fusiforme gen. nov., sp. nov., isolated from healthy human feces.	Ghimire S, Wongkuna S, Scaria J	PeerJ	10.7717/peerj.10071	2020	*

References

#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 )

#22752

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29481

#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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 .

#89939

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-ID396751.1 )

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Longicatena caecimuris strain DSM 29481

Longicatena caecimuris DSM 29481

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