Cite this strain

(DSM 102578, Leaf344)

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

BacDive ID 132078

Type strain

Strain Designation Leaf344

Culture col. no. DSM 102578 Leaf344

NCBI tax ID(s) 211457

Special Collections DSMZ Arabidopsis

Links

Name and taxonomic classification

Leaf344 is a mesophilic, Gram-negative bacterium that was isolated from leaf of Arabidopsis thaliana, wild-type genotype.

Gram-negative mesophilic genome sequence Bacteria

SI-ID 405073

DSM 102578

Last LPSN update 2024-12-09 10:49:07

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Boseaceae

Genus Bosea

Full scientific name Bosea Das et al. 1996

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97.833
125439	negative	98.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23869	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
23869	positive	growth	28	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		92.677
125439		97.3

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	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	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	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

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	92.7

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
23869	+	-	-	-	+	+	-	-	+	-	+/-	-	-	-	-	-	+/-	+/-	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
23869	leaf of Arabidopsis thaliana, wild-type genotype	Arabidopsis thaliana	Brugg (47.4816806N 8.217547222E)	Switzerland	CHE	Europe	47.4817	8.2176 47.4817/8.2176

Safety information

Sequence information

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Bosea sp. Leaf344	1736346.3	wgs	PATRIC	1736346
66792	Bosea sp. Leaf344	2643221958	draft	JGI IMG/M	1736346
66792	Bosea sp. Leaf344	GCA_001426225	scaffold		1736346

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Bosea sp. Leaf344
NCBI: GCA_001426225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.30	no
125439	motility	BacteriaNetⓘ	yes	71.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	92.70	no

Predictions from Diaspora project based on:
Bosea sp. Leaf344 Leaf344
NCBI: GCA_001426225.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.83	no
125438	anaerobic	anaerobicⓘ	no	95.37	no
125438	aerobic	aerobicⓘ	yes	80.63	no
125438	spore-forming	spore-formingⓘ	no	92.68	no
125438	thermophilic	thermophileⓘ	no	95.13	yes
125438	flagellated	motile2+ⓘ	yes	71.31	no

External links

Straininfo Link

@ref	Straininfo	Culture collections
90436	405073	DSM 102578

Culture collection no.

Culture collection no.
DSM 102578
Leaf344

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 )
#23869	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102578
#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) .
#68369	Automatically annotated from API 20NE .
#90436	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-ID405073.1 )
#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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