Name: Afipia clevelandensis Cleveland clinic foundation strain
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 1777

Type strain:

Species: Afipia clevelandensis

Strain Designation: Cleveland clinic foundation strain, 411m, B91-007353, F6703, G1849

Culture col. no.: CCUG 30457, DSM 7315, ATCC 49720, CIP 103516

Strain history: CIP <- 1992, ATCC <- D.J. Brenner, CDC: strain B91-007353 <- G.S. Hall: strain G1849, F6703

NCBI tax ID(s): 883079 (strain), 1034 (species)

SI-ID 12657

LMG 18883, ATCC 49720, CIP 103516, DSM 7315, NCTC 12721, CCUG 30457

Special Collections

Section

Afipia clevelandensis Cleveland clinic foundation strain is a Gram-negative bacterium that was isolated from human tibia, biopsy.

Gram-negative
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Nitrobacteraceae*
	Genus	*Afipia*
	Species	**Afipia clevelandensis**
	Full Scientific Name (LPSN)	Afipia clevelandensis Brenner et al. 1992

Information on morphological and physiological properties Morphology

[Ref.: #118308]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98.813

[Ref.: #118308]	Cell shape	rod-shaped

[Ref.: #118308]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3117]

Culture medium

BCYE-AGAR (DSMZ Medium 585)

[Ref.: #3117]

Culture medium growth

[Ref.: #3117]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3117]

Culture medium composition

expand / minimize

[Ref.: #40686]

Culture medium

MEDIUM 23 - for Afipia and Legionella

[Ref.: #40686]

Culture medium growth

[Ref.: #40686]

Culture medium composition

expand / minimize

[Ref.: #118308]

Culture medium

CIP Medium 23

[Ref.: #118308]

Culture medium growth

[Ref.: #118308]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #3117]		growth	28 °C
[Ref.: #40686]		growth	30 °C
[Ref.: #50091]		growth	37 °C
[Ref.: #118308]		growth	30 °C
[Ref.: #118308]	no	growth	10 °C
[Ref.: #118308]	no	growth	15 °C
[Ref.: #118308]	no	growth	41 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #118308]	glucose ChEBI	-	degradation
[Ref.: #118308]	malonate ChEBI	-	assimilation
[Ref.: #118308]	nitrate ChEBI	-	reduction
[Ref.: #118308]	nitrate ChEBI	-	respiration
[Ref.: #118308]	nitrite ChEBI	-	reduction

	Enzyme	Enzyme activity	EC number
[Ref.: #118308]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #118308]	catalase	-	1.11.1.6
[Ref.: #118308]	lysine decarboxylase	-	4.1.1.18
[Ref.: #118308]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #118308]	oxidase	+
[Ref.: #118308]	urease	+	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #50091]

Fatty acid	Percentage	ECL
C18:1 ω7c /12t/9t	26.6	17.824
C17:0 CYCLO	23.1	16.888
11 methyl 18:1 ω7c	13.3	18.081
C18:0	12.2	18
C16:1 ω7c	9.2	15.819
C19:0 CYCLO ω8c	8.6	18.9
C16:0	5.5	16
C20:1 ω7c	0.9	19.833
C17:0	0.7	17

Metadata FA analysis

Reference

[Ref.: #50091]

Fatty acid	Percentage	ECL
C18:1 ω7c /12t/9t	28.5	17.824
C16:1 ω7c	19.5	15.819
C17:0 CYCLO	16.3	16.888
C18:0	12.4	18
C16:0	7.1	16
11 methyl 18:1 ω7c	6.8	18.081
C18:2 ω6,9c/C18:0 ANTE	3.5	17.724
C19:0 CYCLO ω8c	2.6	18.9
C20:1 ω7c	1.4	19.833
C14:0	0.7	14
Unidentified	0.6	19.785
Unidentified	0.4	18.441
Unidentified	0.3	13.742

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

[Ref.: #3117]	Sample type/isolated from	human tibia, biopsy
[Ref.: #3117]	Geographic location (country and/or sea, region)	Ohio
[Ref.: #3117]	Country	USA
[Ref.: #3117]	Country ISO 3 Code	USA
[Ref.: #3117]	Continent	North America

[Ref.: #50091]	Sample type/isolated from	Tibial biopsy,male,age 69yr,died
[Ref.: #50091]	Sampling date	1988
[Ref.: #50091]	Geographic location (country and/or sea, region)	Ohio
[Ref.: #50091]	Country	USA
[Ref.: #50091]	Country ISO 3 Code	USA
[Ref.: #50091]	Continent	North America

[Ref.: #118308]	Sample type/isolated from	Human, Tibial biopsy
* marker position based on {}

Isolation sources categories

#Infection	#Patient	#Biopsy
#Host	#Human	-
#Host Body-Site	#Limb	#Leg

What are isolation sources categories?

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

[Ref.: #3117]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #118308]	Biosafety level	1	Risk group (French classification)

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.: #20218]	Afipia clevelandensis strain B-91-007353 16S ribosomal RNA gene, partial sequence	M69186	1425	GenBank ENA	883079 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Afipia clevelandensis ATCC 49720	GCA_000336555	scaffold	GenBank ENA	883079 tax ID	*
[Ref.: #66792]	Afipia clevelandensis ATCC 49720	883079.3	wgs	PATRIC	883079 tax ID	*
[Ref.: #66792]	Afipia clevelandensis ATCC 49720	2537561906	draft	JGI IMG/M	883079 tax ID	*

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: Afipia clevelandensis ATCC 49720 ATCC 49720 NCBI: GCA_000336555.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Afipia clevelandensis ATCC 49720 ATCC 49720 NCBI: GCA_000336555.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98.813	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.76	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	85.933	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	84.983	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98.999	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	75.511	no

Availability in culture collections External links

[Ref.: #3117]

Culture collection no.

CCUG 30457, DSM 7315, ATCC 49720, CIP 103516

[Ref.: #71424]

SI-ID 12657

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Bosea minatitlanensis sp. nov., a strictly aerobic bacterium isolated from an anaerobic digester.	Ouattara AS, Assih EA, Thierry S, Cayol JL, Labat M, Monroy O, Macarie H	Int J Syst Evol Microbiol	10.1099/ijs.0.02540-0	2003	*

References

#3117

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7315

#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 )

#40686 ; Curators of the CIP;
#50091 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30457

#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) .

#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 )

#71424

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-ID12657.1 )

#118308 Collection of Institut Pasteur ; Curators of the CIP; CIP 103516
* These data were automatically processed and therefore are not curated

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Afipia clevelandensis ATCC 49720 ATCC 49720

Afipia clevelandensis ATCC 49720 ATCC 49720

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