Pseudocitrobacter faecalis (DSM 27453, CCM 8479, LMG 27751)

Name: Pseudocitrobacter faecalis (DSM 27453, CCM 8479, LMG 27751)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23999

Type strain

Strain Designation 25 CIT

Culture col. no. DSM 27453 CCM 8479 LMG 27751 25 CIT CIP 110624

NCBI tax ID(s) 1398493

Special Collections DSMZ CIP

History DSMZ <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; 25 CIT<- S.A. Abbassi, Armed Forces Institute of Pathology, Pakistan CIP <- 2013, P. Kämpfer, J. Liebig Univ., Giessen, Germany: strain 25 CIT

Links

Pseudocitrobacter faecalis 25 CIT is a Gram-negative, motile, rod-shaped bacterium that has multiple antibiotic resistances and was isolated from stool from a hospitalized patient.

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

Name and taxonomic classification

SI-ID 413365

LMG 27751,CIP 110624

@ref 20215

Last LPSN update 2026-05-29 08:30:32

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
24000	P. faecalis C138, DSM 27454, CCM 8478, LMG 27750, CIP ...

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
125438	negative			99.5
119218	negative	rod-shaped

Multimedia

@ref:	21331
multimedia content:	DSM_27453.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_27453.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
21331	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
21331	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
119218	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
21331	positive	growth	28

Physiology and metabolism

Antibiotic susceptibility testing

	Test 1	Test 2	Test 3
@ref	21331	21331	21331
Medium	Mueller-Hinton Agar	Mueller-Hinton Agar	Mueller-Hinton Agar
Manual annotation	1	1	1
	Inhibition zone diameter in mm	Inhibition zone diameter in mm	Inhibition zone diameter in mm
Amikacin 30µg (disc)	22	20	20
Ampicillin 10µg (disc)	0	0	0
Aztreonam 30µg (disc)	10	10	10
Bacitracin 10Unit	0	0	0
Cefalotin 30µg (disc)	0	0	0
Cefazolin 30µg (disc)	0	0	0
Cefotaxime 30µg (disc)	0	0	0
Ceftriaxone 30µg (disc)	0	0	0
Chloramphenicol 30µg (disc)	0	0	0
Clindamycin 10µg (disc)	0	0	0
Colistin 10µg (disc)	16	14	14
Doxycycline 30µg (disc)	10	10	10
Erythromycin 15µg (disc)	10	10	10
Fosfomycin 50µg (disc)	6	8	8
Gentamicin 10µg (disc)	20-22	22	22
Imipenem 10µg (disc)	20-22	20	20
Kanamycin 30µg (disc)	14	16	16
Lincomycin 15µg (disc)	0	0	0
Linezolid 10µg (disc)	0	0	0
Mezlocillin 30µg (disc)	0	0	0
Moxifloxacin 5µg (disc)	16-18	16	16
Neomycin 30µg (disc)	18-20	18	18
Nitrofurantoin 100µg (disc)	20	18	18
Norfloxacin 10µg (disc)	14	14	14
Nystatin 100Unit	0	0	0
Ofloxacin 5µg (disc)	16-18	18	18
Oxacillin 5µg (disc)	0	0	0
Penicillin G 6µg (disc)	0	0	0
Pipemidic acid 20µg (disc)	18-20	18	18
Piperacillin/Tazobactam 40µg (disc)	6	6	6
Polymyxin B 300Unit	16	16	16
Quinupristin/Dalfopristin 15µg (disc)	0	0	0
Teicoplanin 30µg (disc)	0	0	0
Tetracycline 30µg (disc)	0	0	0
Ticarcillin 75µg (disc)	0	0	0
Vancomycin 30µg (disc)	0	0	0

Spore formation

@ref	Spore formation	Confidence
125439		95.071

Compound production

@ref	Compound
21331	NDM-1 carbapenemase
21331	CTX-M15 beta lactamase

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

Antibiotic resistance

@ref	ChEBI	Metabolite	Resistance conc.
21331	28971	Ampicillin	10 µg (disc)	from Antibiotic test
21331	28669	Bacitracin	10 Unit	from Antibiotic test
21331	124991	Cefalotin	30 µg (disc)	from Antibiotic test
21331	474053	Cefazolin	30 µg (disc)	from Antibiotic test
21331	204928	Cefotaxime	30 µg (disc)	from Antibiotic test
21331	29007	Ceftriaxone	30 µg (disc)	from Antibiotic test
21331	17698	Chloramphenicol	30 µg (disc)	from Antibiotic test
21331	3745	Clindamycin	10 µg (disc)	from Antibiotic test
21331	6472	Lincomycin	15 µg (disc)	from Antibiotic test
21331	63607	Linezolid	10 µg (disc)	from Antibiotic test
21331	6919	Mezlocillin	30 µg (disc)	from Antibiotic test
21331	7660	Nystatin	100 Unit	from Antibiotic test
21331	7809	Oxacillin	5 µg (disc)	from Antibiotic test
21331	18208	Penicillin G	6 µg (disc)	from Antibiotic test
21331		Quinupristin/Dalfopristin	15 µg (disc)	from Antibiotic test
21331	29687	Teicoplanin	30 µg (disc)	from Antibiotic test
21331	27902	Tetracycline	30 µg (disc)	from Antibiotic test
21331	9587	Ticarcillin	75 µg (disc)	from Antibiotic test
21331	28001	Vancomycin	30 µg (disc)	from Antibiotic test

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
21331	+	-	-	-	+	-	-	-	-	-	-	+	+	-	-	+	-	-	+	+	-	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	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
21331	stool from a hospitalized patient	Homo sapiens	Rawalpindi, Military Hospital	Pakistan	PAK	Asia	33.6167	73.0667 33.6167/73.0667
119218	Human	Homo sapiens	Rawalpindi, Pakistan	Pakistan	PAK	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
119218	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	ASM331533v1 assembly for Pseudocitrobacter faecalis DSM 27453	scaffold	GCA_003315335	1398493.6	2770939623	1398493	69.14
124043	ASM4264664v1 assembly for Pseudocitrobacter faecalis CCM 8479	contig	GCA_042646645			1398493	24.78
124043	ASM4268180v1 assembly for Pseudocitrobacter faecalis CCM 8479	contig	GCA_042681805			1398493	15.74

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21331	Pseudocitrobacter faecalis strain 25 CIT 16S ribosomal RNA gene, partial sequence	KF057941	1459		1398493
124043	Pseudocitrobacter faecalis strain CCM 8479 16S ribosomal RNA gene, partial sequence.	MT760209	1365		1398493

GC content

@ref	GC-content (mol%)	Method
21331	54.2	fluorimetric

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM331533v1 assembly for Pseudocitrobacter faecalis DSM 27453
BV-BRC: 1398493.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	negative	80.05	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	88.64	no
125439	motility	BacteriaNetⓘ	yes	66.96	no
125439	spore_formation	BacteriaNetⓘ	no	95.07	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudocitrobacter faecalis DSM 27453
NCBI: GCA_003315335.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.50	no
125438	anaerobic	anaerobicⓘ	no	94.24	no
125438	aerobic	aerobicⓘ	no	60.59	no
125438	spore-forming	spore-formingⓘ	no	88.06	no
125438	thermophilic	thermophileⓘ	no	98.00	no
125438	flagellated	motile2+ⓘ	yes	73.01	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Molecular validation of clinical Pantoea isolates identified by MALDI-TOF.	Soutar CD, Stavrinides J.	PLoS One	10.1371/journal.pone.0224731	2019
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
Phylogeny	Pseudocitrobacter corydidari sp. nov., isolated from the Asian emerald cockroach Corydidarum magnifica.	Guzman J, Poehlein A, Glaeser SP, Schwengers O, Blom J, Hollensteiner J, Kampfer P, Vilcinskas A	Int J Syst Evol Microbiol	10.1099/ijsem.0.005497	2022

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 )
#21331	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27453
#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 .
#119218	Collection of Institut Pasteur ; Curators of the CIP; CIP 110624
#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 )

Content

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Pseudocitrobacter faecalis (DSM 27453, CCM 8479, LMG 27751)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Antibiotic susceptibility testing

Spore formation

Compound production

Metabolite utilization

Antibiotic resistance

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_003315335

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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