Name: Sphingorhabdus planktonica 585
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23286

Type strain:

Species: Sphingorhabdus planktonica

Strain Designation: 585, G1A, G1A_585

Culture col. no.: DSM 25081, LMG 26646

Strain history: <- M. Jogler, DSMZ GmbH, Germany; G1A

NCBI tax ID(s): 1078469 (species)

SI-ID 378339

LMG 26646, DSM 25081

Section

Sphingorhabdus planktonica 585 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from freshwater lake.

Gram-negative
rod-shaped
aerobe
psychrophilic
16S sequence
Bacteria

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	*Sphingomonadales*
	Family	*Sphingomonadaceae*
	Genus	*Sphingorhabdus*
	Species	**Sphingorhabdus planktonica**
	Full Scientific Name (LPSN)	Sphingorhabdus planktonica Jogler et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30727]	Gram stain	negative

[Ref.: #30727]	Cell length	1.17 µm

[Ref.: #30727]	Cell width	0.47 µm

[Ref.: #30727]	Cell shape	rod-shaped

[Ref.: #30727]	Motility	no

[Ref.: #19280]

Incubation period

8-14 days

[Ref.: #30727]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19280]

Culture medium

FRESHWATER HD MEDIUM (DSMZ Medium 1312)

[Ref.: #19280]

Culture medium growth

[Ref.: #19280]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19280]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #19280]	growth	20 °C
[Ref.: #30727]	growth	11-27 °C
[Ref.: #30727]	optimum	21 °C

[Ref.: #19280]	Temperature range	psychrophilic
[Ref.: #30727]	Temperature range	psychrophilic

	pH	Kind of pH		pH
[Ref.: #30727]			optimum	7.5
[Ref.: #30727]			growth	6.5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30727]

Oxygen tolerance

aerobe

[Ref.: #30727]

Ability of spore formation

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30727]		glucose ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30727]		catalase	+	1.11.1.6
[Ref.: #30727]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #19280]	Sample type/isolated from	freshwater lake
[Ref.: #19280]	Geographic location (country and/or sea, region)	Bavaria, lake Walchensee, near Kochel
[Ref.: #19280]	Country	Germany
[Ref.: #19280]	Country ISO 3 Code	DEU
[Ref.: #19280]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Lake (large)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JN381068 (>99% sequence identity) for Sphingorhabdus from Microbeatlas

Aquatic Samples	11197
Soil Samples	892
Animal Samples	834
Plant Samples	144
Total Samples	13067

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

[Ref.: #19280]

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.: #19280]	Sphingorhabdus planktonica strain G1A_585 16S ribosomal RNA gene, partial sequence	JN381068	1428	ENA	1078469 tax ID

[Ref.: #19280]	GC-content	55.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30727]	GC-content	55.7 mol%

Availability in culture collections External links

[Ref.: #19280]

Culture collection no.

DSM 25081, LMG 26646

[Ref.: #87507]

SI-ID 378339

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingorhabdus pulchriflava sp. nov., isolated from a river.	Jung GY, Nam IH, Han YS, Ahn JS, Rhee SK, Kim SJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.003503	2019	*
Phylogeny	Description of Sphingorhabdus planktonica gen. nov., sp. nov. and reclassification of three related members of the genus Sphingopyxis in the genus Sphingorhabdus gen. nov.	Jogler M, Chen H, Simon J, Rohde M, Busse HJ, Klenk HP, Tindall BJ, Overmann J	Int J Syst Evol Microbiol	10.1099/ijs.0.043133-0	2012	*

References

#19280

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25081

#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 )

#30727

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 #27058 (see below)

#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 .

#87507

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-ID378339.1 )

#27058

IJSEM 1342 2013 ( DOI 10.1099/ijs.0.043133-0 , PubMed 22798658 )

* These data were automatically processed and therefore are not curated

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