Name: Psychroflexus tropicus LA1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5629

Type strain:

Species: Psychroflexus tropicus

Strain Designation: LA1, LA1T

Culture col. no.: DSM 15496, ATCC BAA-734, CIP 108448

Strain history: CIP <- 2004, S.P. Donachie, Honolulu, USA: strain LA1T

NCBI tax ID(s): 1123035 (strain), 197345 (species)

SI-ID 132028

ATCC BAA-734, DSM 15496, CIP 108448

Section

Psychroflexus tropicus LA1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from lake water.

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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Psychroflexus*
	Species	**Psychroflexus tropicus**
	Full Scientific Name (LPSN)	Psychroflexus tropicus Donachie et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #29948]	Gram stain	negative
[Ref.: #123594]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.993

[Ref.: #29948]	Cell length	2.25 µm

[Ref.: #29948]	Cell width	0.21 µm

[Ref.: #29948]	Cell shape	rod-shaped
[Ref.: #123594]	Cell shape	rod-shaped

[Ref.: #29948]	Motility	yes
[Ref.: #123594]	Motility	no

[Ref.: #29948]	Flagellum arrangement	gliding

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5957]

Culture medium

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

[Ref.: #5957]

Culture medium growth

[Ref.: #5957]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5957]

Culture medium composition

expand / minimize

[Ref.: #36736]

Culture medium

Marine agar (MA)

[Ref.: #36736]

Culture medium growth

[Ref.: #36736]

Culture medium composition

expand / minimize

[Ref.: #123594]

Culture medium

CIP Medium 13

[Ref.: #123594]

Culture medium growth

[Ref.: #123594]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5957]		growth	28 °C
[Ref.: #29948]		growth	04-43 °C
[Ref.: #29948]		optimum	30 °C
[Ref.: #36736]		growth	30 °C
[Ref.: #123594]		growth	25-30 °C
[Ref.: #123594]	no	growth	5 °C
[Ref.: #123594]	no	growth	10 °C
[Ref.: #123594]	no	growth	15 °C
[Ref.: #123594]	no	growth	37 °C

[Ref.: #5957]	Temperature range	mesophilic
[Ref.: #29948]	Temperature range	mesophilic
[Ref.: #36736]	Temperature range	mesophilic
[Ref.: #123594]	Temperature range	mesophilic
[Ref.: #123594]	Temperature range	psychrophilic
[Ref.: #123594]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29948]	Oxygen tolerance	aerobe
[Ref.: #123594]	Oxygen tolerance	facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29948]		NaCl		growth	01-20	%
[Ref.: #29948]		NaCl		optimum	8.75	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29948]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #29948]	alanine ChEBI	+	carbon source
[Ref.: #29948]	asparagine ChEBI	+	carbon source
[Ref.: #29948]	aspartate ChEBI	+	carbon source
[Ref.: #123594]	esculin ChEBI	-	hydrolysis
[Ref.: #29948]	fructose ChEBI	+	carbon source
[Ref.: #29948]	glucose ChEBI	+	carbon source
[Ref.: #29948]	glutamate ChEBI	+	carbon source
[Ref.: #29948]	glycerol ChEBI	+	carbon source
[Ref.: #123594]	hippurate ChEBI	+	hydrolysis
[Ref.: #29948]	L-alaninamide ChEBI	+	carbon source
[Ref.: #29948]	L-arabitol ChEBI	+	carbon source
[Ref.: #29948]	leucine ChEBI	+	carbon source
[Ref.: #29948]	mannitol ChEBI	+	carbon source
[Ref.: #29948]	mannose ChEBI	+	carbon source
[Ref.: #29948]	nitrate ChEBI	+	reduction
[Ref.: #123594]	nitrate ChEBI	+	reduction
[Ref.: #123594]	nitrite ChEBI	-	reduction
[Ref.: #29948]	ornithine ChEBI	+	carbon source
[Ref.: #29948]	proline ChEBI	+	carbon source
[Ref.: #29948]	serine ChEBI	+	carbon source
[Ref.: #29948]	sorbitol ChEBI	+	carbon source
[Ref.: #29948]	sucrose ChEBI	+	carbon source
[Ref.: #29948]	threonine ChEBI	+	carbon source
[Ref.: #29948]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #123594]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #29948]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #123594]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #29948]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123594]	amylase	-
[Ref.: #123594]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123594]	caseinase	+	3.4.21.50
[Ref.: #29948]	catalase	+	1.11.1.6
[Ref.: #123594]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #123594]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #123594]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #123594]	gelatinase	+/-
[Ref.: #123594]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #123594]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #123594]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123594]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #123594]	oxidase	-
[Ref.: #123594]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123594]	tryptophan deaminase	-
[Ref.: #123594]	tween esterase	-
[Ref.: #123594]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123594]	11197	-	+	+	+	-	+	+	-	+	-	+	+	-	-	-	+	-	-	-	-

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

[Ref.: #5957]	Sample type/isolated from	lake water
[Ref.: #5957]	Geographic location (country and/or sea, region)	Hawai, Lake Laysan
[Ref.: #5957]	Country	USA
[Ref.: #5957]	Country ISO 3 Code	USA
[Ref.: #5957]	Continent	North America

[Ref.: #123594]	Sample type/isolated from	Laysan hypersaline lagoon
[Ref.: #123594]	Geographic location (country and/or sea, region)	Northwestern Hawaiian Islands, Hawaii
[Ref.: #123594]	Country	United States of America
[Ref.: #123594]	Country ISO 3 Code	USA
[Ref.: #123594]	Continent	North America
[Ref.: #123594]	Isolation date	2000
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Lake (large)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF513434 (>99% sequence identity) for Psychroflexus tropicus subclade from Microbeatlas

Aquatic Samples	51
Soil Samples	6
Animal Samples	1
Plant Samples
Total Samples	58

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

[Ref.: #5957]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123594]	Biosafety level	1	Risk group (French classification)

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.: #5957]	Psychroflexus tropicus strain LA1 16S ribosomal RNA gene, partial sequence	AF513434	1418	ENA	197345 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Psychroflexus tropicus DSM 15496	GCA_000378765	scaffold	GenBank	1123035 tax ID	*
[Ref.: #66792]	Psychroflexus tropicus DSM 15496	1123035.3	wgs	PATRIC	1123035 tax ID	*
[Ref.: #66792]	Psychroflexus tropicus DSM 15496	2518645613	draft	JGI IMG/M	1123035 tax ID	*

[Ref.: #5957]	GC-content	35±0.8 mol%
[Ref.: #29948]	GC-content	35 mol%
[Ref.: #5957]	GC-content	36.5 mol%	sequence analysis

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: Psychroflexus tropicus DSM 15496 DSM 15496 NCBI: GCA_000378765.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Psychroflexus tropicus DSM 15496 DSM 15496 NCBI: GCA_000378765.1
[Ref.: #69480]	motile	no	88.928	no
[Ref.: #69480]	flagellated	no	95.954	yes
[Ref.: #69480]	gram-positive	no	98.406	no
[Ref.: #69480]	anaerobic	no	99.095	yes
[Ref.: #69480]	aerobic	yes	91.445	yes
[Ref.: #69480]	halophile	yes	82.786	yes
[Ref.: #69480]	spore-forming	no	96.374	no
[Ref.: #69480]	thermophile	no	98.514	no
[Ref.: #69480]	glucose-util	yes	84.35	yes
[Ref.: #69480]	glucose-ferment	no	89.906	no

Availability in culture collections External links

[Ref.: #5957]

Culture collection no.

DSM 15496, ATCC BAA-734, CIP 108448

[Ref.: #75112]

SI-ID 132028

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Psychroflexus tropicus sp. nov., an obligately halophilic Cytophaga-Flavobacterium-Bacteroides group bacterium from an Hawaiian hypersaline lake.	Donachie SP, Bowman JP, Alam M	Int J Syst Evol Microbiol	10.1099/ijs.0.02733-0	2004	*

References

#5957

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15496

#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 )

#29948

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 #26317 (see below)

#36736 ; Curators of the CIP;

#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) .

#68382

Automatically annotated from API zym .

#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 )

#75112

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-ID132028.1 )

#123594 Collection of Institut Pasteur ; Curators of the CIP; CIP 108448

#26317

IJSEM 935 2004 ( DOI 10.1099/ijs.0.02733-0 , PubMed 15143045 )

* These data were automatically processed and therefore are not curated

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Psychroflexus tropicus DSM 15496 DSM 15496

Psychroflexus tropicus DSM 15496 DSM 15496

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