Cite this strain

Acerihabitans arboris (DSM 104038, KCTC 52622, SAP-6)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 160325

Type strain

Strain Designation SAP-6

Culture col. no. DSM 104038 KCTC 52622 SAP-6

NCBI tax ID(s) 2691583

Special Collections DSMZ KCTC

Links

Name and taxonomic classification

Acerihabitans arboris SAP-6 is a mesophilic, Gram-negative bacterium that was isolated from Sap of plant.

Gram-negative mesophilic genome sequence 16S sequence Bacteria

SI-ID 398374

DSM 104038

Last LPSN update 2024-12-09 10:52:17

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Pectobacteriaceae

Genus Acerihabitans

Species Acerihabitans arboris

Full scientific name Acerihabitans arboris Lee et al. 2021

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.7
125438	negative	98.75

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
67228	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Soil extract 500.0 g/l NaCl 50.0 g/l Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
67228	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

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67228	positive	growth	28	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		96.6

Enzymes

@ref	Value	Activity	Ec
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68369	cytochrome oxidase	-	1.9.3.1	from API 20NE
68369	gelatinase	-		from API 20NE
68369	urease	-	3.5.1.5	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	+	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
67228	+	-	+	-	-	+	-	+	+	+	+	+	+	-	+	-	-	+	+	-	-

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67228	Sap of plant	Jeju	Republic of Korea	KOR	Asia

Safety information

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67228	Acerihabitans arboris strain SAP-6 16S ribosomal RNA gene, partial sequence	MN737198	1467		2691583

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Acerihabitans arboris SAP-6	GCA_010131535	scaffold		2691583

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Acerihabitans arboris SAP-6
NCBI: GCA_010131535

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.60	no
125439	motility	BacteriaNetⓘ	yes	63.70	no
125439	gram_stain	BacteriaNetⓘ	negative	98.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	59.50	no

Predictions from Diaspora project based on:
Acerihabitans arboris SAP-6
NCBI: GCA_010131535.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.75	no
125438	anaerobic	anaerobicⓘ	no	94.56	no
125438	aerobic	aerobicⓘ	no	62.79	no
125438	spore-forming	spore-formingⓘ	no	84.15	no
125438	thermophilic	thermophileⓘ	no	99.50	yes
125438	flagellated	motile2+ⓘ	yes	73.31	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Acerihabitans arboris gen. nov., sp. nov., a new member of the family Pectobacteriaceae isolated from sap drawn from Acer pictum.	Lee SD, Kim IS, Choe H, Kim JS	Int J Syst Evol Microbiol	10.1099/ijsem.0.004674	2021

Straininfo Link

@ref	Straininfo	Culture collections
112580	398374	DSM 104038

Culture collection no.

Culture collection no.
DSM 104038
KCTC 52622
SAP-6

References

#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) .
#67228	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 104038
#68369	Automatically annotated from API 20NE .
#112580	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-ID398374.1 )
#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 .

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