Name: Methylobacterium tarhaniae N4211
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24173

Type strain:

Species: Methylobacterium tarhaniae

Strain Designation: N4211

Culture col. no.: DSM 25844, KCTC 23615

Strain history: <- N. Sahin, Ondokuz Mayis Univ., Dept. of Biology, Samsun, Turkey; N4211 <- M. Camas

NCBI tax ID(s): 1187852 (species)

SI-ID 404054

DSM 25844

Section

Methylobacterium tarhaniae N4211 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from arid soil.

Gram-negative
motile
rod-shaped
aerobe
mesophilic
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	*Methylobacteriaceae*
	Genus	*Methylobacterium*
	Species	**Methylobacterium tarhaniae**
	Full Scientific Name (LPSN)	Methylobacterium tarhaniae Veyisoglu et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31003]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #31003]	Cell length	4.1 µm

[Ref.: #31003]	Cell width	1.3 µm

[Ref.: #31003]	Cell shape	rod-shaped

[Ref.: #31003]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %93.921

[Ref.: #20648]

Incubation period

3-7 days

[Ref.: #31003]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20648]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #20648]

Culture medium growth

[Ref.: #20648]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20648]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #20648]	growth	28 °C
[Ref.: #31003]	growth	10-37 °C
[Ref.: #31003]	optimum	26.5 °C

[Ref.: #20648]	Temperature range	mesophilic
[Ref.: #31003]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31003]			optimum	7
[Ref.: #31003]			growth	4.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31003]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.991

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31003]	alanine ChEBI	+	carbon source
[Ref.: #31003]	arabinose ChEBI	+	carbon source
[Ref.: #31003]	arginine ChEBI	+	carbon source
[Ref.: #31003]	cellobiose ChEBI	+	carbon source
[Ref.: #31003]	dextrin ChEBI	+	carbon source
[Ref.: #31003]	galactose ChEBI	+	carbon source
[Ref.: #31003]	glucose ChEBI	+	carbon source
[Ref.: #31003]	lactose ChEBI	+	carbon source
[Ref.: #31003]	maltose ChEBI	+	carbon source
[Ref.: #31003]	mannitol ChEBI	+	carbon source
[Ref.: #31003]	mannose ChEBI	+	carbon source
[Ref.: #31003]	nitrate ChEBI	+	reduction
[Ref.: #31003]	phenylalanine ChEBI	+	carbon source
[Ref.: #31003]	proline ChEBI	+	carbon source
[Ref.: #31003]	rhamnose ChEBI	+	carbon source
[Ref.: #31003]	ribitol ChEBI	+	carbon source
[Ref.: #31003]	serine ChEBI	+	carbon source
[Ref.: #31003]	sorbitol ChEBI	+	carbon source
[Ref.: #31003]	sucrose ChEBI	+	carbon source
[Ref.: #31003]	threonine ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #31003]	acid phosphatase	+	3.1.3.2
[Ref.: #31003]	alkaline phosphatase	+	3.1.3.1
[Ref.: #31003]	catalase	+	1.11.1.6
[Ref.: #31003]	urease	+	3.5.1.5

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	molybdenum cofactor biosynthesis	100	9 of 9
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	ketogluconate metabolism	100	8 of 8
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	ethylmalonyl-CoA pathway	100	5 of 5
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	pentose phosphate pathway	100	11 of 11
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	enterobactin biosynthesis	100	3 of 3
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	photosynthesis	100	14 of 14
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	lactate fermentation	100	4 of 4
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	leucine metabolism	92.31	12 of 13
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	propionate fermentation	90	9 of 10
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	4-hydroxymandelate degradation	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	glutathione metabolism	85.71	12 of 14
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	83.33	10 of 12
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	purine metabolism	81.91	77 of 94
[Ref.: #66794]	3-chlorocatechol degradation	80	4 of 5
[Ref.: #66794]	methanofuran biosynthesis	80	4 of 5
[Ref.: #66794]	phenol degradation	80	16 of 20
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	gallate degradation	80	4 of 5
[Ref.: #66794]	histidine metabolism	79.31	23 of 29
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	tyrosine metabolism	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	allantoin degradation	77.78	7 of 9
[Ref.: #66794]	methionine metabolism	76.92	20 of 26
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	cyclohexanol degradation	75	3 of 4
[Ref.: #66794]	arginine metabolism	75	18 of 24
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	lipid metabolism	74.19	23 of 31
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	oxidative phosphorylation	72.53	66 of 91
[Ref.: #66794]	chlorophyll metabolism	72.22	13 of 18
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	non-pathway related	71.05	27 of 38
[Ref.: #66794]	tryptophan metabolism	71.05	27 of 38
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	sulfate reduction	69.23	9 of 13
[Ref.: #66794]	urea cycle	69.23	9 of 13
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	degradation of sugar acids	68	17 of 25
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	3-phenylpropionate degradation	66.67	10 of 15
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	degradation of pentoses	64.29	18 of 28
[Ref.: #66794]	lysine metabolism	64.29	27 of 42
[Ref.: #66794]	metabolism of disaccharids	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	glycine metabolism	60	6 of 10
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	58.82	10 of 17
[Ref.: #66794]	methanogenesis from CO2	58.33	7 of 12
[Ref.: #66794]	polyamine pathway	56.52	13 of 23
[Ref.: #66794]	nitrate assimilation	55.56	5 of 9
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	resorcinol degradation	50	1 of 2
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	androgen and estrogen metabolism	50	8 of 16
[Ref.: #66794]	alginate biosynthesis	50	2 of 4
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	ascorbate metabolism	45.45	10 of 22
[Ref.: #66794]	cholesterol biosynthesis	45.45	5 of 11
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	aclacinomycin biosynthesis	42.86	3 of 7
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	carotenoid biosynthesis	40.91	9 of 22
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #20648]	Sample type/isolated from	arid soil
[Ref.: #20648]	Geographic location (country and/or sea, region)	Abuja
[Ref.: #20648]	Country	Nigeria
[Ref.: #20648]	Country ISO 3 Code	NGA
[Ref.: #20648]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Condition	#Xerophilic	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JQ864432 (>99% sequence identity) for Methylobacterium aquaticum from Microbeatlas

Aquatic Samples	656
Soil Samples	319
Animal Samples	1502
Plant Samples	597
Total Samples	3074

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

[Ref.: #20648]

Biosafety level

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.: #20648]	Methylobacterium tarhaniae strain N4211 16S ribosomal RNA gene, partial sequence	JQ864432	1417	ENA	1187852 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methylobacterium tarhaniae DSM 25844	GCA_001043955	contig	GenBank	1187852 tax ID	*
[Ref.: #66792]	Methylobacterium tarhaniae strain DSM 25844	1187852.3	wgs	PATRIC	1187852 tax ID	*
[Ref.: #66792]	Methylobacterium tarhaniae DSM 25844	2636415909	draft	JGI IMG/M	1187852 tax ID	*

[Ref.: #20648]	GC-content	67.3 mol%	fluorimetric
[Ref.: #31003]	GC-content	67.3 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Methylobacterium tarhaniae strain DSM 25844 PATRIC: 1187852.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methylobacterium tarhaniae strain DSM 25844 PATRIC: 1187852.3
[Ref.: #69480]	motile	yes	89.408	yes
[Ref.: #69480]	gram-positive	no	97.295	yes
[Ref.: #69480]	anaerobic	no	97.537	no
[Ref.: #69480]	aerobic	yes	94.074	no
[Ref.: #69480]	halophile	no	91.397	no
[Ref.: #69480]	spore-forming	no	91.259	no
[Ref.: #69480]	flagellated	no	71.713	no
[Ref.: #69480]	glucose-util	yes	90.88	yes
[Ref.: #69480]	thermophile	no	98.833	no
[Ref.: #69480]	glucose-ferment	no	89.027	no

Availability in culture collections External links

[Ref.: #20648]

Culture collection no.

DSM 25844, KCTC 23615

[Ref.: #88128]

SI-ID 404054

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methylobacterium terrae sp. nov., a radiation-resistant bacterium isolated from gamma ray-irradiated soil.	Kim J, Chhetri G, Kim I, Kim H, Kim MK, Seo T	J Microbiol	10.1007/s12275-019-9007-9	2019	*
Phylogeny	Methylobacterium frigidaeris sp. nov., isolated from an air conditioning system.	Lee Y, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.002500	2017	*
Phylogeny	Methylobacterium tarhaniae sp. nov., isolated from arid soil.	Veyisoglu A, Camas M, Tatar D, Guven K, Sazak A, Sahin N	Int J Syst Evol Microbiol	10.1099/ijs.0.049551-0	2013	*

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 )

#20648

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25844

#31003

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 #27333 (see below)

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 )

#88128

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-ID404054.1 )

#27333

IJSEM 2823 2013 ( DOI 10.1099/ijs.0.049551-0 , PubMed 23315404 )

* These data were automatically processed and therefore are not curated

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Methylobacterium tarhaniae strain DSM 25844

Methylobacterium tarhaniae strain DSM 25844

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