Pseudocitrobacter faecalis (DSM 27454, CCM 8478, LMG 27750)

Name: Pseudocitrobacter faecalis (DSM 27454, CCM 8478, LMG 27750)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24000

Type strain

Strain Designation C138

Culture col. no. DSM 27454 CCM 8478 LMG 27750 C138 CIP 110623

NCBI tax ID(s) 1398493

Special Collections DSMZ CIP

History <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; 138A <- S.A. Abbassi, Armed Forces Institute of Pathology, Pakistan CIP <- 2013, P. Kämpfer, Justus-Liebig Univ., Giessen, Germany: strain C138

Links

Pseudocitrobacter faecalis C138 is a Gram-negative, motile, rod-shaped bacterium that was isolated from stool from a hospitalized patient.

Gram-negative motile rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 412769

LMG 27750,CIP 110623

@ref 20215

Last LPSN update 2026-02-09 11:23:51

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Enterobacteriaceae

Genus Pseudocitrobacter

Species Pseudocitrobacter faecalis

Full scientific name Pseudocitrobacter faecalis Kämpfer et al. 2014

Synonyms (1)

Pseudocitrobacter anthropi

BacDive ID	Other strains from **Pseudocitrobacter faecalis** (1)	Type strain
23999	P. faecalis 25 CIT, DSM 27453, CCM 8479, LMG 27751, CIP ... (type strain)

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125438	negative		99.5
125439	negative		96.6
116413	negative	rod-shaped

Multimedia

@ref:	21332
multimedia content:	DSM_27454.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_27454.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
21332	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
21332	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
116413	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
21332	positive	growth	30
21332	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	90.2

Spore formation

@ref	Spore formation	Confidence
125439		94.6

Compound production

21332

CompoundNDM-1 carbapenemase

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68368	27613 ChEBI	amygdalin	+	fermentation	from API 20E
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
68368	17634 ChEBI	D-glucose	+	fermentation	from API 20E
68368	16899 ChEBI	D-mannitol	+	fermentation	from API 20E
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68368	30849 ChEBI	L-arabinose	+	fermentation	from API 20E
68368	62345 ChEBI	L-rhamnose	+	fermentation	from API 20E
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68368	28053 ChEBI	melibiose	-	fermentation	from API 20E
68368	17268 ChEBI	myo-inositol	-	fermentation	from API 20E
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
68368	30911 ChEBI	sorbitol	-	fermentation	from API 20E
68368	17992 ChEBI	sucrose	-	fermentation	from API 20E
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	-		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68368	beta-galactosidase	+	3.2.1.23	from API 20E
68368	cytochrome oxidase	-	1.9.3.1	from API 20E
68368	gelatinase	-		from API 20E
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	-	3.5.1.5	from API 20E

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
21332	+	-	-	-	+	-	-	-	-	-	-	+	+	-	-	+	-	-	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Patient	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
21332	stool from a hospitalized patient	Rawalpindi, Combined Military Hospital	Pakistan	PAK	Asia
116413	Human	Rawalpindi, Pakistan	Pakistan	PAK	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
116413	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1465305v1 assembly for Pseudocitrobacter faecalis CCM 8478	scaffold	GCA_014653055	1398493.8	8063484910	1398493	70.35

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21332	Pseudocitrobacter anthropi strain C138 16S ribosomal RNA gene, partial sequence	KF057944	1419		1398496
124043	Pseudocitrobacter faecalis strain CCM 8478 16S ribosomal RNA gene, partial sequence.	MT760208	1358		1398493

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudocitrobacter faecalis CCM 8478
NCBI: GCA_014653055

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.60	no
125439	motility	BacteriaNetⓘ	yes	75.50	no
125439	gram_stain	BacteriaNetⓘ	negative	96.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	90.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudocitrobacter faecalis CCM 8478
NCBI: GCA_014653055.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.50	no
125438	anaerobic	anaerobicⓘ	no	95.55	no
125438	aerobic	aerobicⓘ	no	60.44	no
125438	spore-forming	spore-formingⓘ	no	89.56	no
125438	thermophilic	thermophileⓘ	no	99.00	yes
125438	flagellated	motile2+ⓘ	yes	73.63	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudocitrobacter gen. nov., a novel genus of the Enterobacteriaceae with two new species Pseudocitrobacter faecalis sp. nov., and Pseudocitrobacter anthropi sp. nov, isolated from fecal samples from hospitalized patients in Pakistan.	Kampfer P, Glaeser SP, Raza MW, Abbasi SA, Perry JD	Syst Appl Microbiol	10.1016/j.syapm.2013.08.003	2013

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 )
#21332	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27454
#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) .
#68368	Automatically annotated from API 20E .
#116413	Collection of Institut Pasteur ; Curators of the CIP; CIP 110623
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Pseudocitrobacter faecalis (DSM 27454, CCM 8478, LMG 27750)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014653055

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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