Name: Delftia tsuruhatensis T7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2952

Type strain:

Species: Delftia tsuruhatensis

Strain Designation: T7

Culture col. no.: DSM 17581, ATCC BAA-554, NBRC 16741

Strain history: <- T. Shigematsu, Kumamoto University; T7

NCBI tax ID(s): 1220577 (strain), 180282 (species)

SI-ID 127988

ATCC BAA-554, IFO 16741, NBRC 16741, DSM 17581, LMG 29104

Other strains from Delftia tsuruhatensis

D. tsuruhatensis AK20, DSM 8370
D. tsuruhatensis MV01, DSM 23722
D. tsuruhatensis CIMB62, CIMB 04-7726, CRBIP17.62
D. tsuruhatensis CM13, CIP 111669

Section

Delftia tsuruhatensis T7 is a mesophilic, Gram-negative, motile bacterium that was isolated from activated sludge at a domestic wastewater treatment plant.

Gram-negative
motile
rod-shaped
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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Comamonadaceae*
	Genus	*Delftia*
	Species	**Delftia tsuruhatensis**
	Full Scientific Name (LPSN)	Delftia tsuruhatensis Shigematsu et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #23084]	Gram stain	negative

[Ref.: #23084]	Cell length	2.4-4.0 µm

[Ref.: #23084]	Cell width	0.7-1.2 µm

[Ref.: #23084]	Cell shape	rod-shaped

[Ref.: #23084]	Motility	yes

[Ref.: #23084]	Colony color	white
[Ref.: #23084]	Cultivation medium used	nutrient broth plates

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7068]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #7068]

Culture medium growth

[Ref.: #7068]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7068]

Culture medium composition

expand / minimize

[Ref.: #23084]

Culture medium

nutrient broth plates

[Ref.: #23084]

Culture medium growth

		Temperature
[Ref.: #7068]	growth	35 °C
[Ref.: #23084]	growth	10.0-40.0 °C
[Ref.: #23084]	optimum	35.0 °C

[Ref.: #7068]	Temperature range	mesophilic
[Ref.: #23084]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #23084]			optimum	7.0
[Ref.: #23084]			growth	5.0-9.0

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23084]	3-aminobutyrate ChEBI	-	carbon source
[Ref.: #23084]	3-aminobutyrate ChEBI	-	growth
[Ref.: #68369]	adipate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #23084]	beta-alanine ChEBI	+	carbon source
[Ref.: #23084]	beta-alanine ChEBI	+	growth
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #23084]	glycerol ChEBI	+	carbon source
[Ref.: #23084]	glycerol ChEBI	+	growth
[Ref.: #23084]	isophthalate ChEBI	+	carbon source
[Ref.: #23084]	isophthalate ChEBI	+	growth
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #23084]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #23084]	phthalate ChEBI	-	carbon source
[Ref.: #23084]	phthalate ChEBI	-	growth
[Ref.: #23084]	protocatechuate ChEBI	+	carbon source
[Ref.: #23084]	protocatechuate ChEBI	+	growth
[Ref.: #23084]	starch ChEBI	-	hydrolysis
[Ref.: #23084]	terephthalate ChEBI	+	carbon source
[Ref.: #23084]	terephthalate ChEBI	+	growth
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #23084]	arginine dihydrolase	+	3.5.3.6
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #23084]	catalase	+	1.11.1.6
[Ref.: #23084]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #23084]	lipase (Tween 80)	+
[Ref.: #23084]	urease	+	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #7068]	23390	+	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	+	+

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

[Ref.: #7068]	Sample type/isolated from	activated sludge at a domestic wastewater treatment plant
[Ref.: #7068]	Geographic location (country and/or sea, region)	Kumamoto
[Ref.: #7068]	Country	Japan
[Ref.: #7068]	Country ISO 3 Code	JPN
[Ref.: #7068]	Continent	Asia

[Ref.: #23084]	Geographic location (country and/or sea, region)	Tsuruhata, Kumamoto Prefecture
[Ref.: #23084]	Enrichment culture	basal salt medium
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Activated sludge
#Engineered	#Waste	#Water treatment plant

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB681119 (>99% sequence identity) for Delftia from Microbeatlas

Aquatic Samples	15249
Soil Samples	6069
Animal Samples	31574
Plant Samples	5219
Total Samples	58111

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

[Ref.: #7068]

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.: #7068]	Delftia tsuruhatensis gene for 16S rRNA, partial sequence	AB075017	1456	ENA	180282 tax ID
[Ref.: #20218]	Delftia tsuruhatensis gene for 16S rRNA, partial sequence, strain: NBRC 16741	AB681119	1458	ENA	180282 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Delftia tsuruhatensis NBRC 16741	GCA_001571325	contig	GenBank	1220577 tax ID	*
[Ref.: #66792]	Delftia tsuruhatensis NBRC 16741	1220577.3	wgs	PATRIC	1220577 tax ID	*
[Ref.: #66792]	Delftia tsuruhatensis NBRC 16741	2839144908	draft	JGI IMG/M	1220577 tax ID	*

[Ref.: #23084]

GC-content

66.2 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: Delftia tsuruhatensis NBRC 16741 PATRIC: 1220577.3
[Ref.: #69480]	motile	yes	90.335	yes
[Ref.: #69480]	gram-positive	no	98.465	yes
[Ref.: #69480]	anaerobic	no	98.606	no
[Ref.: #69480]	aerobic	yes	93.279	no
[Ref.: #69480]	halophile	no	94.28	no
[Ref.: #69480]	spore-forming	no	93.926	no
[Ref.: #69480]	glucose-util	no	58.839	no
[Ref.: #69480]	flagellated	yes	64.694	no
[Ref.: #69480]	thermophile	no	99.62	no
[Ref.: #69480]	glucose-ferment	no	88.668	yes

Availability in culture collections External links

[Ref.: #7068]

Culture collection no.

DSM 17581, ATCC BAA-554, NBRC 16741

[Ref.: #72474]

SI-ID 127988

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Delftia deserti sp. nov., isolated from a desert soil sample.	Li CT, Yan ZF, Chu X, Hussain F, Xian WD, Yunus Z, Hozzein WN, Abaydulla G, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-015-0440-4	2015	*
Phylogeny	Delftia lacustris sp. nov., a peptidoglycan-degrading bacterium from fresh water, and emended description of Delftia tsuruhatensis as a peptidoglycan-degrading bacterium.	Jorgensen NO, Brandt KK, Nybroe O, Hansen M	Int J Syst Evol Microbiol	10.1099/ijs.0.008375-0	2009	*

References

#7068

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17581

#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 )

#23084

Toru Shigematsu,Kazuyo Yumihara,Yutaka Ueda,Masaki Numaguchi,Shigeru Morimura,Kenji Kida: Delftia tsuruhatensis sp. nov., a terephthalate-assimilating bacterium isolated from activated sludge. IJSEM 53: 1479 - 1483 2003 ( DOI 10.1099/ijs.0.02285-0 , PubMed 13130036 )

#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 .

#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) .

#72474

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-ID127988.1 )

* These data were automatically processed and therefore are not curated

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Delftia tsuruhatensis NBRC 16741

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