Name: Auritidibacter ignavus DSM 45359
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7792

Type strain:

Species: Auritidibacter ignavus

Culture col. no.: DSM 45359, CCUG 57943, JCM 19109, IMMIB L-1656

Strain history: CCUG 57943 <-- A. F. Yassin IMMIB L-1656.

NCBI tax ID(s): 678932 (species)

SI-ID 402569

DSM 45359, CCUG 57943

Special Collections

Section

Auritidibacter ignavus DSM 45359 is an aerobe, Gram-positive, motile human pathogen that was isolated from ear swab of a man with fulminant otitis externa.

Gram-positive
motile
rod-shaped
aerobe
human pathogen
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Micrococcaceae*
	Genus	*Auritidibacter*
	Species	**Auritidibacter ignavus**
	Full Scientific Name (LPSN)	Auritidibacter ignavus Yassin et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29737]	Gram stain	positive

[Ref.: #29737]	Cell length	2.3 µm

[Ref.: #29737]	Cell width	0.45 µm

[Ref.: #29737]	Cell shape	rod-shaped

[Ref.: #29737]	Motility	yes

[Ref.: #29737]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16349]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16349]

Culture medium growth

[Ref.: #16349]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16349]

Culture medium composition

expand / minimize

[Ref.: #16349]

Culture medium

TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)

[Ref.: #16349]

Culture medium growth

[Ref.: #16349]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16349]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16349]	growth	37 °C
[Ref.: #29737]	growth	10-37 °C
[Ref.: #67770]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #29737]			optimum	9
[Ref.: #29737]			growth	7.4-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29737]	Oxygen tolerance	aerobe
[Ref.: #61530]	Oxygen tolerance	aerobe

[Ref.: #29737]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29737]		NaCl		growth	0-12	%

[Ref.: #67770]

Observation

quinones: MK-10

	Enzyme	Enzyme activity	EC number
[Ref.: #29737]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29737]	catalase	+	1.11.1.6
[Ref.: #29737]	pyrazinamidase	+	3.5.1.B15

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

[Ref.: #16349]	Sample type/isolated from	ear swab of a man with fulminant otitis externa
[Ref.: #16349]	Geographic location (country and/or sea, region)	Bad Orb
[Ref.: #16349]	Country	Germany
[Ref.: #16349]	Country ISO 3 Code	DEU
[Ref.: #16349]	Continent	Europe

[Ref.: #61530]	Sample type/isolated from	Human ear,extern otitis
[Ref.: #61530]	Sampling date	1997-03-01
[Ref.: #61530]	Geographic location (country and/or sea, region)	Bad Orb
[Ref.: #61530]	Country	Germany
[Ref.: #61530]	Country ISO 3 Code	DEU
[Ref.: #61530]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Ear swab of a 28-year-old man with fulminant otitis externa
* marker position based on {}

Isolation sources categories

#Infection	#Inflammation	-
#Infection	#Patient	-
#Infection	#Patient	#Swab
#Host Body-Site	#Organ	#Ear
#Host	#Human	#Male

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence MK069432 (>99% sequence identity) for Auritidibacter ignavus subclade from Microbeatlas

Aquatic Samples	121
Soil Samples	46
Animal Samples	722
Plant Samples	27
Total Samples	916

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

[Ref.: #16349]	Pathogenicity (human)	yes, in single cases
[Ref.: #16349]	Biosafety level	1	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.: #16349]	Auritidibacter ignavus partial 16S rRNA gene, type strain IMMIB L-1656T	FN554542	1466	GenBank ENA	678932 tax ID
[Ref.: #67770]	Auritidibacter ignavus strain DSM 45359 16S ribosomal RNA gene, partial sequence	MK069432	1491	GenBank ENA	678932 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Auritidibacter ignavus DSM 45359	GCA_011758685	contig	GenBank ENA	678932 tax ID
[Ref.: #67770]	Auritidibacter ignavus IMMIB L-1656	GCA_003703835	contig	GenBank ENA	678932 tax ID
[Ref.: #66792]	Auritidibacter ignavus strain DSM 45359	678932.4	wgs	PATRIC	678932 tax ID	*
[Ref.: #66792]	Auritidibacter ignavus DSM 45359	2820977076	draft	JGI IMG/M	678932 tax ID	*

[Ref.: #16349]	GC-content	59.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29737]	GC-content	59.7 mol%
[Ref.: #67770]	GC-content	59.23 mol%	genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Auritidibacter ignavus strain DSM 45359 PATRIC: 678932.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Auritidibacter ignavus strain DSM 45359 PATRIC: 678932.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	87.477	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	91.179	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	84.416	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	70.263	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.967	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	88	no

Availability in culture collections External links

[Ref.: #16349]

Culture collection no.

DSM 45359, CCUG 57943, JCM 19109, IMMIB L-1656

[Ref.: #77235]

SI-ID 402569

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Emendation of the Genus Auritidibacter Yassin et al. 2011 and Auritidibacter ignavus Yassin et al. 2011 based on features observed from Canadian and Swiss clinical isolates and whole-genome sequencing analysis.	Bernard KA, Pacheco AL, Burdz T, Wiebe D, Beniac DR, Hiebert SL, Booth TF, Jakopp B, Goldenberger D, Seth-Smith HMB, Egli A, Bernier AM	Int J Syst Evol Microbiol	10.1099/ijsem.0.003719	2020	*
Phylogeny	Auritidibacter ignavus gen. nov., sp. nov., of the family Micrococcaceae isolated from an ear swab of a man with otitis externa, transfer of the members of the family Yaniellaceae Li et al. 2008 to the family Micrococcaceae and emended description of the suborder Micrococcineae.	Yassin AF, Hupfer H, Siering C, Klenk HP, Schumann P	Int J Syst Evol Microbiol	10.1099/ijs.0.019786-0	2010	*

References

#16349

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45359

#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 )

#29737

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26119 (see below)

#61530 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 57943

#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;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#77235

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-ID402569.1 )

#26119

IJSEM 223 2011 ( DOI 10.1099/ijs.0.019786-0 , PubMed 20190019 )

* These data were automatically processed and therefore are not curated

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Auritidibacter ignavus strain DSM 45359

Auritidibacter ignavus strain DSM 45359

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