Providencia rettgeri (DSM 1131, NCTC 7481, KB 772)

Name: Providencia rettgeri (DSM 1131, NCTC 7481, KB 772)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5077

Type strain

Strain Designation KB 772

Culture col. no. DSM 1131 NCTC 7481 KB 772

NCBI tax ID(s) 521000 587

Special Collections DSMZ

History DSMZ <- NCTC <- G.T. Cook, KB 772

Links

Providencia rettgeri KB 772 is a bacterium that was isolated from faeces.

genome sequence Bacteria

Name and taxonomic classification

SI-ID 47334

DSM 1131,NCTC 7481

@ref 20215

Last LPSN update 2026-05-29 08:26:05

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Morganellaceae

Genus Providencia

Species Providencia rettgeri

Full scientific name Providencia rettgeri (Hadley et al. 1918) Brenner et al. 1978 (Approved Lists 1980)

Synonyms (3)

Proteus rettgeri
"Rettgerella rettgeri"
"Bacterium rettgeri"

BacDive ID	Other strains from **Providencia rettgeri** (21)	Type strain
5078	P. rettgeri 1163, DSM 4542, ATCC 29944, CCUG 14804, CECT ... (type strain)
5079	P. rettgeri R6, DSM 46264, CNCTC Prr 15/61, IMET 10833
5080	P. rettgeri DSM 46592, IMET 10189
134606	P. rettgeri B-0043, CIP 107053
135105	P. rettgeri 4.68, CIP 69.25
135232	P. rettgeri 30829/50, CIP 53.182
135405	P. rettgeri 1.69, CIP 69.24
135659	P. rettgeri 1.65, CIP 69.26
135905	P. rettgeri CIP 53.180
137278	P. rettgeri 1202/48, CIP 53.181
141200	P. rettgeri CCUG 166
141219	P. rettgeri CCUG 237 A
141417	P. rettgeri CCUG 1649, CCM 5618
144181	P. rettgeri CCUG 23362
152477	P. rettgeri CCUG 46898
153677	P. rettgeri CCUG 50627
154121	P. rettgeri CCUG 52439
155340	P. rettgeri CCUG 57382
173529	P. rettgeri CIMB 04-4495, CRBIP17.136
179080	P. rettgeri IMET 10191, STI10191
179081	P. rettgeri IMET 10209, STI10209

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.985

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
573	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
573	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
573	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	94.585

Spore formation

@ref	Spore formation	Confidence
125439		94.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
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	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
573	-	-	-	-	+	-	+	+	-	+	+	+	+	+	-	+/-	-	-	+/-	-	-	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
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

573

Sample typefaeces

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
573	2	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM1904788v1 assembly for Providencia rettgeri FDAARGOS 1449	complete	GCA_019047885	587.335		587	96.67
66792	ASM15805v1 assembly for Providencia rettgeri DSM 1131	scaffold	GCA_000158055	521000.6	2562617097	521000	42.07

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1904788v1 assembly for Providencia rettgeri FDAARGOS 1449
NCBI: GCA_019047885

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.59	no
125439	gram_stain	BacteriaNetⓘ	negative	72.22	no
125439	motility	BacteriaNetⓘ	no	60.72	no
125439	spore_formation	BacteriaNetⓘ	no	94.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Providencia rettgeri strain FDAARGOS 1449 strain Not applicable
PATRIC: 587.335

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.99	no
125438	anaerobic	anaerobicⓘ	no	94.37	no
125438	spore-forming	spore-formingⓘ	no	88.92	no
125438	aerobic	aerobicⓘ	no	62.31	no
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	yes	71.06	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Emergence and Evolution of Unique Plasmids Harboring bla_IMP-70 and bla_CTX-M-253 in Multidrug-Resistant Providencia rettgeri.	Watanabe M, Nakano R, Tanouchi A, Nakano A, Suzuki Y, Saito K, Sakata R, Ogawa M, Yano H.	Microbiol Spectr	10.1128/spectrum.01204-22	2022
	Genomic Plasticity of Multidrug-Resistant NDM-1 Positive Clinical Isolate of Providencia rettgeri.	Olaitan AO, Diene SM, Assous MV, Rolain JM.	Genome Biol Evol	10.1093/gbe/evv195	2016
	Exploring Trimethylaminuria: Genetics and Molecular Mechanisms, Epidemiology, and Emerging Therapeutic Strategies.	Sidoti A, D'Angelo R, Castagnetti A, Viciani E, Scimone C, Alibrandi S, Giannini G.	Biology (Basel)	10.3390/biology13120961	2024
Metabolism	Methodological considerations for the identification of choline and carnitine-degrading bacteria in the gut.	Jameson E, Quareshy M, Chen Y.	Methods	10.1016/j.ymeth.2018.03.012	2018
	Draft Genome Sequence of the Opportunistic Human Pathogen Morganella morganii SC01.	Khatri I, Dureja C, Raychaudhuri S, Subramanian S.	Genome Announc	10.1128/genomea.00051-12	2013
	Complete genome dynamics of a dominant-lineage strain of Xanthomonas oryzae pv. oryzae harbouring a novel plasmid encoding a type IV secretion system.	Kaur A, Bansal K, Kumar S, Sonti RV, Patil PB.	Access Microbiol	10.1099/acmi.0.000063	2019
Metabolism	Functional identification of Proteus mirabilis eptC gene encoding a core lipopolysaccharide phosphoethanolamine transferase.	Aquilini E, Merino S, Knirel YA, Regue M, Tomas JM.	Int J Mol Sci	10.3390/ijms15046689	2014
Metabolism	Intestinal microbiota composition modulates choline bioavailability from diet and accumulation of the proatherogenic metabolite trimethylamine-N-oxide.	Romano KA, Vivas EI, Amador-Noguez D, Rey FE.	mBio	10.1128/mbio.02481-14	2015
	Comparative genomics of bacteria in the genus Providencia isolated from wild Drosophila melanogaster.	Galac MR, Lazzaro BP.	BMC Genomics	10.1186/1471-2164-13-612	2012
Genetics	Unravelling the antibiotic and heavy metal resistome of a chronically polluted soil.	Salam LB.	3 Biotech	10.1007/s13205-020-02219-z	2020
Pathogenicity	Synergy and remarkable specificity of antimicrobial peptides in vivo using a systematic knockout approach.	Hanson MA, Dostalova A, Ceroni C, Poidevin M, Kondo S, Lemaitre B.	Elife	10.7554/elife.44341	2019
	In silico identification of bacteriocin gene clusters in the gastrointestinal tract, based on the Human Microbiome Project's reference genome database.	Walsh CJ, Guinane CM, Hill C, Ross RP, O'Toole PW, Cotter PD.	BMC Microbiol	10.1186/s12866-015-0515-4	2015
	The tip of the tail needle affects the rate of DNA delivery by bacteriophage P22.	Leavitt JC, Gogokhia L, Gilcrease EB, Bhardwaj A, Cingolani G, Casjens SR.	PLoS One	10.1371/journal.pone.0070936	2013
	The O28 Antigen Gene Clusters of Salmonella enterica subsp. enterica Serovar Dakar and Serovar Pomona Are Different.	Clark CG, Grant CC, Trout-Yakel KM, Tabor H, Ng LK, Rahn K, Franklin K, Kropinski AM.	Int J Microbiol	10.1155/2010/209291	2010
	Proteus mirabilis interkingdom swarming signals attract blow flies.	Ma Q, Fonseca A, Liu W, Fields AT, Pimsler ML, Spindola AF, Tarone AM, Crippen TL, Tomberlin JK, Wood TK.	ISME J	10.1038/ismej.2011.210	2012
Pathogenicity	Deep Sequencing of RNA from Blood and Oral Swab Samples Reveals the Presence of Nucleic Acid from a Number of Pathogens in Patients with Acute Ebola Virus Disease and Is Consistent with Bacterial Translocation across the Gut.	Carroll MW, Haldenby S, Rickett NY, Palyi B, Garcia-Dorival I, Liu X, Barker G, Bore JA, Koundouno FR, Williamson ED, Laws TR, Kerber R, Sissoko D, Magyar N, Di Caro A, Biava M, Fletcher TE, Sprecher A, Ng LFP, Renia L, Magassouba N, Gunther S, Wolfel R, Stoecker K, Matthews DA, Hiscox JA.	mSphere	10.1128/mspheredirect.00325-17	2017
Phylogeny	A freshwater cyanophage whose genome indicates close relationships to photosynthetic marine cyanomyophages.	Dreher TW, Brown N, Bozarth CS, Schwartz AD, Riscoe E, Thrash C, Bennett SE, Tzeng SC, Maier CS.	Environ Microbiol	10.1111/j.1462-2920.2011.02502.x	2011
Phylogeny	Bioinformatic characterization of the 4-Toluene Sulfonate Uptake Permease (TSUP) family of transmembrane proteins.	Shlykov MA, Zheng WH, Chen JS, Saier MH.	Biochim Biophys Acta	10.1016/j.bbamem.2011.12.005	2012

References

#573	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1131
#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 )
#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 .
#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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Providencia rettgeri (DSM 1131, NCTC 7481, KB 772)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

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_019047885

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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