Name: Leeuwenhoekiella palythoae DSM 19859
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5603

Type strain:

Species: Leeuwenhoekiella palythoae

Culture col. no.: DSM 19859, KCTC 22020, KMM 6264, LMG 24856

Strain history: <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok <- V. V. Mikhailov, Inst. Marine Biol. FEB RAS, Vladivostok

NCBI tax ID(s): 573501 (species)

SI-ID 264790

LMG 24856, KCTC 22020, DSM 19859

Section

Leeuwenhoekiella palythoae DSM 19859 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from coral Palythoa sp..

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	*Leeuwenhoekiella*
	Species	**Leeuwenhoekiella palythoae**
	Full Scientific Name (LPSN)	Leeuwenhoekiella palythoae Nedashkovskaya et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29293]	Gram stain	negative

[Ref.: #29293]	Cell length	2.3 µm

[Ref.: #29293]	Cell width	0.45 µm

[Ref.: #29293]	Cell shape	rod-shaped

[Ref.: #29293]	Motility	yes

[Ref.: #29293]	Flagellum arrangement	gliding

[Ref.: #29293]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8357]

Culture medium

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

[Ref.: #8357]

Culture medium growth

[Ref.: #8357]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8357]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8357]	growth	28 °C
[Ref.: #29293]	growth	04-38 °C
[Ref.: #29293]	optimum	23-25 °C

[Ref.: #8357]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29293]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29293]		NaCl		growth	0-12	%
[Ref.: #29293]		NaCl		optimum	03-04	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29293]	arabinose ChEBI	+	carbon source
[Ref.: #29293]	cellobiose ChEBI	+	carbon source
[Ref.: #29293]	esculin ChEBI	+	hydrolysis
[Ref.: #29293]	galactose ChEBI	+	carbon source
[Ref.: #29293]	glucose ChEBI	+	carbon source
[Ref.: #29293]	lactose ChEBI	+	carbon source
[Ref.: #29293]	leucine ChEBI	+	carbon source
[Ref.: #29293]	maltose ChEBI	+	carbon source
[Ref.: #29293]	rhamnose ChEBI	+	carbon source
[Ref.: #29293]	sucrose ChEBI	+	carbon source
[Ref.: #29293]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29293]		acid phosphatase	+	3.1.3.2
[Ref.: #29293]		alpha-galactosidase	+	3.2.1.22

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

[Ref.: #8357]	Sample type/isolated from	coral Palythoa sp.
[Ref.: #8357]	Host species	Palythoa
[Ref.: #8357]	Geographic location (country and/or sea, region)	South China Sea, Vanfong Bay
[Ref.: #8357]	Country	Vietnam
[Ref.: #8357]	Country ISO 3 Code	VNM
[Ref.: #8357]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Cnidaria (Corals)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ405187 (>99% sequence identity) for Leeuwenhoekiella palythoae from Microbeatlas

Aquatic Samples	1763
Soil Samples	55
Animal Samples	59
Plant Samples	3
Total Samples	1880

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

[Ref.: #8357]

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.: #8357]	Leeuwenhoekiella palythoae strain KMM 6264 16S ribosomal RNA gene, partial sequence	FJ405187	1480	ENA	573501 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Leeuwenhoekiella palythoae DSM 19859	GCA_900130045	scaffold	GenBank	573501 tax ID	*
[Ref.: #66792]	Leeuwenhoekiella palythoae LMG 24856	GCA_004104045	contig	GenBank	573501 tax ID	*
[Ref.: #66792]	Leeuwenhoekiella palythoae strain DSM 19859	573501.8	wgs	PATRIC	573501 tax ID	*
[Ref.: #66792]	Leeuwenhoekiella palythoae strain LMG 24856	573501.11	wgs	PATRIC	573501 tax ID	*
[Ref.: #66792]	Leeuwenhoekiella palythoae DSM 19859	2622736499	draft	JGI IMG/M	573501 tax ID	*
[Ref.: #66792]	Leeuwenhoekiella palythoae LMG 24856	2772190912	draft	JGI IMG/M	573501 tax ID	*

[Ref.: #8357]	GC-content	41.2 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29293]	GC-content	41.2 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: Leeuwenhoekiella palythoae DSM 19859 NCBI: GCA_900130045.1
[Ref.: #69480]	motile	no	86.216	no
[Ref.: #69480]	flagellated	no	94.87	yes
[Ref.: #69480]	gram-positive	no	97.367	no
[Ref.: #69480]	anaerobic	no	99.613	no
[Ref.: #69480]	aerobic	yes	91.739	yes
[Ref.: #69480]	halophile	no	56.676	no
[Ref.: #69480]	spore-forming	no	95.473	no
[Ref.: #69480]	thermophile	no	99.521	yes
[Ref.: #69480]	glucose-util	yes	88.435	yes
[Ref.: #69480]	glucose-ferment	no	87.183	no

Availability in culture collections External links

[Ref.: #8357]

Culture collection no.

DSM 19859, KCTC 22020, KMM 6264, LMG 24856

[Ref.: #75085]

SI-ID 264790

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Leeuwenhoekiella palythoae sp. nov., a new member of the family Flavobacteriaceae.	Nedashkovskaya OI, Vancanneyt M, Kim SB, Zhukova NV, Han JH, Mikhailov VV	Int J Syst Evol Microbiol	10.1099/ijs.0.010371-0	2009	*

References

#8357

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19859

#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 )

#29293

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 #25709 (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) .

#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) .

#75085

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-ID264790.1 )

#25709

IJSEM 3074 2009 ( DOI 10.1099/ijs.0.010371-0 , PubMed 19643875 )

* These data were automatically processed and therefore are not curated

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