Name: Thalassospira tepidiphila 1-1B
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13968

Type strain:

Species: Thalassospira tepidiphila

Strain Designation: 1-1B

Culture col. no.: DSM 18888, JCM 14578

Strain history: Y. Kodama 1-1B.

NCBI tax ID(s): 393657 (species)

SI-ID 343474

DSM 18888, JCM 14578

Section

Thalassospira tepidiphila 1-1B is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from petroleum-contaminated seawater in a beachsimulation tank during a bioremediation experiment.

Gram-negative
motile
spiral-shaped
facultative anaerobe
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	*Thalassospiraceae*
	Genus	*Thalassospira*
	Species	**Thalassospira tepidiphila**
	Full Scientific Name (LPSN)	Thalassospira tepidiphila Kodama et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32424]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.987

[Ref.: #32424]	Cell length	1.45 µm

[Ref.: #32424]	Cell width	0.25 µm

[Ref.: #32424]	Cell shape	spiral-shaped

[Ref.: #32424]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %90.84

[Ref.: #32424]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7759]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #7759]

Culture medium growth

[Ref.: #7759]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7759]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7759]	growth	30-40 °C
[Ref.: #32424]	growth	08-45 °C
[Ref.: #32424]	optimum	43 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #32424]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32424]			optimum	7
[Ref.: #32424]			growth	05-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32424]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32424]		NaCl		growth	02-14	%
[Ref.: #32424]		NaCl		optimum	3	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32424]	acetate ChEBI	+	carbon source
[Ref.: #32424]	alanine ChEBI	+	carbon source
[Ref.: #32424]	arabinose ChEBI	+	carbon source
[Ref.: #32424]	asparagine ChEBI	+	carbon source
[Ref.: #32424]	aspartate ChEBI	+	carbon source
[Ref.: #32424]	cellobiose ChEBI	+	carbon source
[Ref.: #32424]	citrate ChEBI	+	carbon source
[Ref.: #32424]	fucose ChEBI	+	carbon source
[Ref.: #32424]	galactose ChEBI	+	carbon source
[Ref.: #32424]	glucose ChEBI	+	carbon source
[Ref.: #32424]	glutamate ChEBI	+	carbon source
[Ref.: #32424]	glycerol ChEBI	+	carbon source
[Ref.: #32424]	histidine ChEBI	+	carbon source
[Ref.: #32424]	L-arabitol ChEBI	+	carbon source
[Ref.: #32424]	lactate ChEBI	+	carbon source
[Ref.: #32424]	mannitol ChEBI	+	carbon source
[Ref.: #32424]	mannose ChEBI	+	carbon source
[Ref.: #32424]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #32424]	myo-inositol ChEBI	+	carbon source
[Ref.: #32424]	nitrate ChEBI	+	reduction
[Ref.: #32424]	proline ChEBI	+	carbon source
[Ref.: #32424]	quinate ChEBI	+	carbon source
[Ref.: #32424]	serine ChEBI	+	carbon source
[Ref.: #32424]	succinate ChEBI	+	carbon source
[Ref.: #32424]	tween 40 ChEBI	+	carbon source
[Ref.: #32424]	urocanic acid ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #32424]		catalase	+	1.11.1.6
[Ref.: #32424]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #7759]	Sample type/isolated from	petroleum-contaminated seawater in a beachsimulation tank during a bioremediation experiment
[Ref.: #7759]	Geographic location (country and/or sea, region)	Kamaishi City
[Ref.: #7759]	Country	Japan
[Ref.: #7759]	Country ISO 3 Code	JPN
[Ref.: #7759]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Petroleum-contaminated seawater in a beach-simulation tank during a bioremediation experiment
* marker position based on {}

Isolation sources categories

#Engineered	#Bioremediation	-
#Engineered	#Built environment	#Container (Reservoir)
#Engineered	#Contamination	-
#Environmental	#Aquatic	#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB265822 (>99% sequence identity) for Thalassospira from Microbeatlas

Aquatic Samples	7649
Soil Samples	540
Animal Samples	378
Plant Samples	159
Total Samples	8726

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

[Ref.: #7759]

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.: #7759]	Thalassospira tepidiphila gene for 16S rRNA, partial sequence	AB265822	1414	ENA	1177930 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Thalassospira tepidiphila DSM 18888	GCA_011927685	scaffold	GenBank	393657 tax ID
[Ref.: #66792]	Thalassospira tepidiphila strain DSM 18888	393657.3	wgs	PATRIC	393657 tax ID	*
[Ref.: #66792]	Thalassospira tepidiphila DSM 18888	2829832560	draft	JGI IMG/M	393657 tax ID	*

[Ref.: #32424]

GC-content

55.1 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: Thalassospira tepidiphila DSM 18888 NCBI: GCA_011927685.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Thalassospira tepidiphila strain DSM 18888 PATRIC: 393657.3
[Ref.: #69480]	gram-positive	no	98.82	no
[Ref.: #69480]	anaerobic	no	97.307	yes
[Ref.: #69480]	halophile	yes	61.291	no
[Ref.: #69480]	spore-forming	no	94.578	no
[Ref.: #69480]	glucose-util	yes	90.557	yes
[Ref.: #69480]	aerobic	yes	62.065	yes
[Ref.: #69480]	motile	yes	93.932	yes
[Ref.: #69480]	flagellated	yes	86.973	no
[Ref.: #69480]	thermophile	no	95.749	no
[Ref.: #69480]	glucose-ferment	no	85.886	no

Availability in culture collections External links

[Ref.: #7759]

Culture collection no.

DSM 18888, JCM 14578

[Ref.: #83140]

SI-ID 343474

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Thalassospira indica sp. nov., isolated from deep seawater.	Liu Y, Lai Q, Du J, Sun F, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.001449	2016	*
Phylogeny	Thalassospira tepidiphila sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from seawater.	Kodama Y, Stiknowati LI, Ueki A, Ueki K, Watanabe K	Int J Syst Evol Microbiol	10.1099/ijs.0.65476-0	2008	*

References

#7759

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18888

#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 )

#32424

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 #28647 (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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#83140

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-ID343474.1 )

#28647

IJSEM 711 2008 ( DOI 10.1099/ijs.0.65476-0 , PubMed 18319483 )

* These data were automatically processed and therefore are not curated

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Thalassospira tepidiphila DSM 18888

Thalassospira tepidiphila strain DSM 18888

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