Name: Granulibacter bethesdensis CGDNIH1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 80

Type strain:

Species: Granulibacter bethesdensis

Strain Designation: CGDNIH1

Culture col. no.: DSM 17861, ATCC BAA-1260

Strain history: <- P. R. Murray, Natl. Inst. Health (NIH), US Dept. Health and Human Services, Bethesda; CGDNIH1

NCBI tax ID(s): 364410 (species)

SI-ID 292928

DSM 17861, ATCC BAA-1260, LMG 24392

Section

Granulibacter bethesdensis CGDNIH1 is an obligate aerobe, mesophilic, Gram-negative human pathogen that has a yellow pigmentation and was isolated from lymph node cultures from a chronic granulomatous disease patient.

coccus-shaped
Gram-negative
pigmented
human pathogen
mesophilic
obligate aerobe
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	*Rhodospirillales*
	Family	*Acetobacteraceae*
	Genus	*Granulibacter*
	Species	**Granulibacter bethesdensis**
	Full Scientific Name (LPSN)	Granulibacter bethesdensis Greenberg et al. 2006

Synonym

"Granulobacter bethesdensis"

Information on morphological and physiological properties Morphology

[Ref.: #22963]	Gram stain	negative

[Ref.: #22963]	Cell shape	coccus-shaped

[Ref.: #22963]	Motility	no

[Ref.: #22963]

Cultivation medium used

modifed glucose-yeast extract-CaCO3 Acetobacter medium

[Ref.: #22963]	Pigment production	yes
[Ref.: #22963]	Pigmentation color	yellow

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7145]

Culture medium

GRANULIBACTER MEDIUM (DSMZ Medium 1186)

[Ref.: #7145]

Culture medium growth

[Ref.: #7145]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7145]

Culture medium composition

expand / minimize

[Ref.: #22963]

Culture medium

glutamate agar

[Ref.: #22963]

Culture medium growth

[Ref.: #22963]

Culture medium

mannitol agar

[Ref.: #22963]

Culture medium growth

[Ref.: #22963]

Culture medium

modified glucose-yeast extract-CaCO3 Acetobacter medium

[Ref.: #22963]

Culture medium growth

[Ref.: #22963]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7145]			growth	35 °C
[Ref.: #22963]			optimum	35.0-37.0 °C

[Ref.: #7145]	Temperature range	mesophilic
[Ref.: #22963]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #22963]			optimum	5.0-6.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #22963]

Oxygen tolerance

obligate aerobe

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #22963]	acetate ChEBI	+	oxidation
[Ref.: #22963]	ethanol ChEBI	+	builds acid from
[Ref.: #22963]	galactitol ChEBI	-	builds acid from
[Ref.: #22963]	glucose ChEBI	+	builds acid from
[Ref.: #22963]	glucose ChEBI	+	growth
[Ref.: #22963]	glycerol ChEBI	+/-	builds acid from
[Ref.: #22963]	lactate ChEBI	+	oxidation
[Ref.: #22963]	lactose ChEBI	-	builds acid from
[Ref.: #22963]	maltose ChEBI	-	builds acid from
[Ref.: #22963]	mannitol ChEBI	-	builds acid from
[Ref.: #22963]	methanol ChEBI	+	carbon source
[Ref.: #22963]	sorbitol ChEBI	-	builds acid from
[Ref.: #22963]	sucrose ChEBI	-	builds acid from
[Ref.: #22963]	xylose ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #22963]		dihydroxyacetone ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #22963]	catalase	+	1.11.1.6
[Ref.: #22963]	cytochrome oxidase	-	1.9.3.1
[Ref.: #22963]	urease	+/-	3.5.1.5

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

[Ref.: #7145]	Sample type/isolated from	lymph node cultures from a chronic granulomatous disease patient
[Ref.: #7145]	Geographic location (country and/or sea, region)	Maryland, Bethesda
[Ref.: #7145]	Country	USA
[Ref.: #7145]	Country ISO 3 Code	USA
[Ref.: #7145]	Continent	North America

[Ref.: #22963]	Sample type/isolated from	three patients with chronic granulomatous disease
* marker position based on {}

Isolation sources categories

#Host Body-Site	#Organ	#Lymph node
#Infection	#Patient	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY788950 (>99% sequence identity) for Granulibacter bethesdensis subclade from Microbeatlas

Aquatic Samples	1723
Soil Samples	3219
Animal Samples	677
Plant Samples	954
Total Samples	6573

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

[Ref.: #7145]	Pathogenicity (human)	yes, in single cases
[Ref.: #7145]	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.: #7145]	Granulibacter bethesdensis CGDNIH1 16S ribosomal RNA gene, partial sequence	AY788950	1491	ENA	391165 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Granulibacter bethesdensis CGDNIH1	GCA_000014285	complete	GenBank	391165 tax ID	*
[Ref.: #66792]	Granulibacter bethesdensis CGDNIH1	391165.9	complete	PATRIC	391165 tax ID	*
[Ref.: #66792]	Granulibacter bethesdensis CGDNIH1	637000123	complete	JGI IMG/M	391165 tax ID	*

[Ref.: #7145]

GC-content

59.1 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Granulibacter bethesdensis CGDNIH1 CGDNIH1 NCBI: GCA_000014285.1
[Ref.: #69480]	motile	no	89.755	no
[Ref.: #69480]	flagellated	no	96.057	yes
[Ref.: #69480]	gram-positive	no	98.325	no
[Ref.: #69480]	anaerobic	no	97.328	yes
[Ref.: #69480]	halophile	no	91.195	no
[Ref.: #69480]	spore-forming	no	93.984	no
[Ref.: #69480]	thermophile	no	89.3	yes
[Ref.: #69480]	glucose-util	yes	87.901	yes
[Ref.: #69480]	aerobic	yes	74.845	yes
[Ref.: #69480]	glucose-ferment	no	88.968	no
[Ref.: #69480]	motile	no	89.755	no
[Ref.: #69480]	flagellated	no	96.057	yes
[Ref.: #69480]	gram-positive	no	98.325	no
[Ref.: #69480]	anaerobic	no	97.328	yes
[Ref.: #69480]	halophile	no	91.195	no
[Ref.: #69480]	spore-forming	no	93.984	no
[Ref.: #69480]	glucose-util	yes	87.901	yes
[Ref.: #69480]	aerobic	yes	74.845	yes
[Ref.: #69480]	thermophile	no	89.3	yes
[Ref.: #69480]	glucose-ferment	no	88.968	no

Availability in culture collections External links

[Ref.: #7145]

Culture collection no.

DSM 17861, ATCC BAA-1260

[Ref.: #69763]

SI-ID 292928

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Endobacter medicaginis gen. nov., sp. nov., isolated from alfalfa nodules in an acidic soil.	Ramirez-Bahena MH, Tejedor C, Martin I, Velazquez E, Peix A	Int J Syst Evol Microbiol	10.1099/ijs.0.041368-0	2012	*
Phylogeny	Granulibacter bethesdensis gen. nov., sp. nov., a distinctive pathogenic acetic acid bacterium in the family Acetobacteraceae.	Greenberg DE, Porcella SF, Stock F, Wong A, Conville PS, Murray PR, Holland SM, Zelazny AM	Int J Syst Evol Microbiol	10.1099/ijs.0.64412-0	2006	*

References

#7145

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17861

#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 )

#22963

David E. Greenberg,Stephen F. Porcella,Frida Stock,Alexandra Wong,Patricia S. Conville,Patrick R. Murray,Steven M. Holland, Adrian M. Zelazny: Granulibacter bethesdensis gen. nov., sp. nov., a distinctive pathogenic acetic acid bacterium in the family Acetobacteraceae. IJSEM 56: 2609 - 2616 2006 ( DOI 10.1099/ijs.0.64412-0 , PubMed 17082400 )

#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) .

#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) .

#69763

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-ID292928.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Granulibacter bethesdensis in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Granulibacter bethesdensis CGDNIH1 CGDNIH1

Change proposal

Change proposal