Yersinia rohdei (DSM 18270, ATCC 43380, CCUG 38833)

Name: Yersinia rohdei (DSM 18270, ATCC 43380, CCUG 38833)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5220

Type strain

Strain Designation H 271-36/78, H271-36/78, 3022-85

Culture col. no. DSM 18270 ATCC 43380 CCUG 38833 CDC 3022-85 CIP 103163 6 more

NCBI tax ID(s) 527004 29485

Special Collections DSMZ CCUG JCM CIP

History DSMZ <- CCUG <- S. Aleksic, Inst. of Hygiene, Hamburg; H 271-36/78 JCM <-- CDC 3022-85. CIP <- 1988, ATCC <- D.J. Brenner, CDC, Atlanta, Georgia, USA: strain 3022-85 <- S. Aleksic: strain H271-36/78

Links

Yersinia rohdei H 271-36/78 is an aerobe, Gram-negative, motile bacterium that was isolated from dog faeces.

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

Name and taxonomic classification

SI-ID 6457

LMG 8454,ATCC 43380,CIP 103163,JCM 7376,CCM 4075,CCUG 38833,DSM 18270,CNCTC 6235

@ref 20215

Last LPSN update 2026-05-29 08:26:07

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Yersiniaceae

Genus Yersinia

Species Yersinia rohdei

Full scientific name Yersinia rohdei Aleksic et al. 1987

BacDive ID	Other strains from **Yersinia rohdei** (3)	Type strain
144781	Y. rohdei CCUG 26543, ATCC 43872
144782	Y. rohdei CCUG 26544
144783	Y. rohdei CCUG 26545

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
122247	negative	rod-shaped
125438	negative		100
125439	negative		96.84

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7468	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
36553	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122247	CIP Medium 3	Medium recipe at CIP
122247	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
7468	positive	growth	30
36553	positive	growth	30
54500	positive	growth	26-30
67770	positive	growth	36

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
54500	aerobe
125439	obligate aerobe	94.66

Spore formation

@ref	Spore formation	Confidence
125439		99.76
125438		91.726

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Canidae (Dog)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Sampling date	Isolation date
7468	dog faeces	Hamburg	Germany	DEU	Europe
54500	Dog feces		Germany	DEU	Europe	1978
67770	Dog feces
122247	Animal, Dog, feces		Germany	DEU	Europe		1978

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
7468	yes, in single cases	1	Risk group (German classification) According to TRBA 466
122247		2	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM17377v1 assembly for Yersinia rohdei ATCC 43380	contig	GCA_000173775	527004.3	645058789	527004	49.8

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Yersinia rohdei strain ATCC 43380 16S ribosomal RNA gene, partial sequence	AY332843	501	29485
7468	Yersinia rohdei 16S ribosomal RNA gene, partial sequence	AF366384	1461	29485
124043	Yersinia rohdei gene for 16S rRNA, partial sequence, strain: NBRC 105715.	AB682282	1468	29485
124043	Yersinia rohdei strain ATCC 43380 16S ribosomal RNA gene, partial sequence.	KC788307	410	29485
124043	Yersinia rohdei strain DSM 18270 16S ribosomal RNA gene, partial sequence.	KJ606913	1465	29485

GC content

@ref	GC-content (mol%)	Method
67770	49.1	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM17377v1 assembly for Yersinia rohdei ATCC 43380
NCBI: GCA_000173775

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.66	no
125439	gram_stain	BacteriaNetⓘ	negative	96.84	no
125439	motility	BacteriaNetⓘ	yes	66.74	no
125439	spore_formation	BacteriaNetⓘ	no	99.76	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Yersinia rohdei ATCC 43380
PATRIC: 527004.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	100.00	no
125438	anaerobic	anaerobicⓘ	no	95.67	no
125438	spore-forming	spore-formingⓘ	no	91.73	no
125438	aerobic	aerobicⓘ	no	60.03	yes
125438	thermophilic	thermophileⓘ	no	99.50	no
125438	flagellated	motile2+ⓘ	yes	76.65	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Evaluation of Oxford Nanopore's MinION Sequencing Device for Microbial Whole Genome Sequencing Applications.	Tyler AD, Mataseje L, Urfano CJ, Schmidt L, Antonation KS, Mulvey MR, Corbett CR.	Sci Rep	10.1038/s41598-018-29334-5	2018
Enzymology	Comprehensive Laboratory Evaluation of a Lateral Flow Assay for the Detection of Yersinia pestis.	Prentice KW, DePalma L, Ramage JG, Sarwar J, Parameswaran N, Petersen J, Yockey B, Young J, Joshi M, Thirunavvukarasu N, Singh A, Chapman C, Avila JR, Pillai CA, Manickam G, Sharma SK, Morse SA, Venkateswaran KV, Anderson K, Hodge DR, Pillai SP.	Health Secur	10.1089/hs.2019.0094	2019
	Development and evaluation of a multi-target droplet digital PCR assay for highly sensitive and specific detection of Yersinia pestis.	Zhao Y, Yan Z, Song K, Li Y, Shen L, Cui Y, Du Z, Yang R, Song Y, Jing L, Zhao Y.	PLoS Negl Trop Dis	10.1371/journal.pntd.0012167	2024
Enzymology	Comparison of two suspension arrays for simultaneous detection of five biothreat bacterial in powder samples.	Yang Y, Wang J, Wen H, Liu H.	J Biomed Biotechnol	10.1155/2012/831052	2012
	H-NST induces LEE expression and the formation of attaching and effacing lesions in enterohemorrhagic Escherichia coli.	Levine JA, Hansen AM, Michalski JM, Hazen TH, Rasko DA, Kaper JB.	PLoS One	10.1371/journal.pone.0086618	2014
Metabolism	The role of iron uptake in pathogenicity and symbiosis in Photorhabdus luminescens TT01.	Watson RJ, Millichap P, Joyce SA, Reynolds S, Clarke DJ.	BMC Microbiol	10.1186/1471-2180-10-177	2010
Metabolism	Iron binding at specific sites within the octameric HbpS protects streptomycetes from iron-mediated oxidative stress.	Wedderhoff I, Kursula I, Groves MR, Ortiz de Orue Lucana D.	PLoS One	10.1371/journal.pone.0071579	2013
	Identification of putative adhesins of Actinobacillus suis and their homologues in other members of the family Pasteurellaceae.	Bujold AR, MacInnes JI.	BMC Res Notes	10.1186/s13104-015-1659-x	2015
Metabolism	Glycosylation of DsbA in Francisella tularensis subsp. tularensis.	Thomas RM, Twine SM, Fulton KM, Tessier L, Kilmury SL, Ding W, Harmer N, Michell SL, Oyston PC, Titball RW, Prior JL.	J Bacteriol	10.1128/jb.00438-11	2011
	EseG, an effector of the type III secretion system of Edwardsiella tarda, triggers microtubule destabilization.	Xie HX, Yu HB, Zheng J, Nie P, Foster LJ, Mok YK, Finlay BB, Leung KY.	Infect Immun	10.1128/iai.00152-10	2010
Enzymology	Molecular method for detection of total coliforms in drinking water samples.	Maheux AF, Boudreau DK, Bisson MA, Dion-Dupont V, Bouchard S, Nkuranga M, Bergeron MG, Rodriguez MJ.	Appl Environ Microbiol	10.1128/aem.00546-14	2014
Enzymology	Comparison of hand-held test kits, immunofluorescence microscopy, enzyme-linked immunosorbent assay, and flow cytometric analysis for rapid presumptive identification of Yersinia pestis.	Tomaso H, Thullier P, Seibold E, Guglielmo V, Buckendahl A, Rahalison L, Neubauer H, Scholz HC, Splettstoesser WD.	J Clin Microbiol	10.1128/jcm.00458-07	2007
Enzymology	Rapid concentration and molecular enrichment approach for sensitive detection of Escherichia coli and Shigella species in potable water samples.	Maheux AF, Bissonnette L, Boissinot M, Bernier JL, Huppe V, Picard FJ, Berube E, Bergeron MG.	Appl Environ Microbiol	10.1128/aem.02337-10	2011
Phylogeny	Rapid differentiation of Francisella species and subspecies by fluorescent in situ hybridization targeting the 23S rRNA.	Splettstoesser WD, Seibold E, Zeman E, Trebesius K, Podbielski A.	BMC Microbiol	10.1186/1471-2180-10-72	2010
Pathogenicity	The main virulence determinant of Yersinia entomophaga MH96 is a broad-host-range toxin complex active against insects.	Hurst MR, Jones SA, Binglin T, Harper LA, Jackson TA, Glare TR.	J Bacteriol	10.1128/jb.01044-10	2011

References

#7468	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18270
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#36553	; Curators of the CIP;
#54500	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 38833
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#122247	Collection of Institut Pasteur ; Curators of the CIP; CIP 103163
#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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Yersinia rohdei (DSM 18270, ATCC 43380, CCUG 38833)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000173775

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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