Name: Geminicoccus roseus D2-3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17872

Type strain:

Species: Geminicoccus roseus

Strain Designation: D2-3

Culture col. no.: DSM 18922, ATCC BAA-1445, UCCCB102

Strain history: Fösel, B. Deptartment of Ecological Microbiology, University Bayreuth

NCBI tax ID(s): 1089551 (strain), 404900 (species)

SI-ID 403064

DSM 18922

Section

Geminicoccus roseus D2-3 is a mesophilic, Gram-negative bacterium that was isolated from biofilter of a recirculating marine aquaculture system .

Gram-negative
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	*Alphaproteobacteria*
	Order	*Rhodospirillales*
	Family	*Geminicoccaceae*
	Genus	*Geminicoccus*
	Species	**Geminicoccus roseus**
	Full Scientific Name (LPSN)	Geminicoccus roseus Foesel et al. 2008

Information on morphological and physiological properties Morphology

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

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7776]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #7776]	growth	30 °C
[Ref.: #67772]	optimum	30-35 °C
[Ref.: #67772]	minimum	15 °C
[Ref.: #67772]	maximum	45 °C

[Ref.: #7776]	Temperature range	mesophilic
[Ref.: #67772]	Temperature range	mesophilic
[Ref.: #67772]	Temperature range	psychrophilic
[Ref.: #67772]	Temperature range	thermophilic

		pH
[Ref.: #67772]	maximum	11.0
[Ref.: #67772]	minimum	5.5
[Ref.: #67772]	optimum	8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.956

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

[Ref.: #7776]	Sample type/isolated from	biofilter of a recirculating marine aquaculture system (digestion basin)
[Ref.: #7776]	Geographic location (country and/or sea, region)	Rehovot
[Ref.: #7776]	Country	Israel
[Ref.: #7776]	Country ISO 3 Code	ISR
[Ref.: #7776]	Continent	Asia

[Ref.: #67772]	Sample type/isolated from	Biofilter of a recirculating marine aquaculture system (digestion basin)
[Ref.: #67772]	Geographic location (country and/or sea, region)	Central District, Rehovot
[Ref.: #67772]	Country	Israel
[Ref.: #67772]	Country ISO 3 Code	ISR
[Ref.: #67772]	Continent	Asia
[Ref.: #67772]	Geographic location	31.8980°/34.8081°
* marker position based on {}

Isolation sources categories

#Engineered	#Bioremediation	#Biofilter
#Engineered	#Industrial	#Machines and devices
#Environmental	#Aquatic	#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM403172 (>99% sequence identity) for Geminicoccus roseus subclade from Microbeatlas

Aquatic Samples	1563
Soil Samples	4823
Animal Samples	1543
Plant Samples	1158
Total Samples	9087

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

[Ref.: #7776]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #67772]	Biosafety level	1

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.: #7776]	Geminicoccus roseus partial 16S rRNA gene, type strain D2-3T	AM403172	1352	ENA	404900 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67772]	Geminicoccus roseus DSM 18922	GCA_000427665	scaffold	GenBank	1089551 tax ID
[Ref.: #66792]	Geminicoccus roseus DSM 18922	1089551.3	wgs	PATRIC	1089551 tax ID	*
[Ref.: #66792]	Geminicoccus roseus DSM 18922	2517093010	draft	JGI IMG/M	1089551 tax ID	*

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GC-content

60.3 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: Geminicoccus roseus DSM 18922 DSM 18922 NCBI: GCA_000427665.1
[Ref.: #69481]	spore-forming	no	82	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Geminicoccus roseus DSM 18922 PATRIC: 1089551.3
[Ref.: #69480]	motile	yes	72.98	no
[Ref.: #69480]	flagellated	no	78.919	no
[Ref.: #69480]	gram-positive	no	98.346	no
[Ref.: #69480]	anaerobic	no	97.773	no
[Ref.: #69480]	aerobic	yes	86.72	no
[Ref.: #69480]	halophile	no	82.376	no
[Ref.: #69480]	spore-forming	no	92.178	no
[Ref.: #69480]	glucose-util	yes	91.333	no
[Ref.: #69480]	thermophile	no	98.969	no
[Ref.: #69480]	glucose-ferment	no	89.461	no

Availability in culture collections External links

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Culture collection no.

DSM 18922, ATCC BAA-1445, UCCCB102

[Ref.: #86861]

SI-ID 403064

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Arboriscoccus pini gen. nov., sp. nov., an endophyte from a pine tree of the class Alphaproteobacteria, emended description of Geminicoccus roseus, and proposal of Geminicoccaceae fam. nov.	Proenca DN, Whitman WB, Varghese N, Shapiro N, Woyke T, Kyrpides NC, Morais PV	Syst Appl Microbiol	10.1016/j.syapm.2017.11.006	2017	*
Phylogeny	Geminicoccus roseus gen. nov., sp. nov., an aerobic phototrophic Alphaproteobacterium isolated from a marine aquaculture biofilter.	Foesel BU, Gossner AS, Drake HL, Schramm A	Syst Appl Microbiol	10.1016/j.syapm.2007.05.005	2007	*
Phylogeny	Geminicoccus flavidas sp. nov. and Geminicoccus harenae sp. nov., two IAA-producing novel rare bacterial species inhabiting desert biological soil crusts.	Jiang ZM, Deng Y, Han XF, Su J, Wang H, Yu LY, Zhang YQ	Front Microbiol	10.3389/fmicb.2022.1034816	2022	*

References

#7776

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18922

#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 )

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#67772 The University of Coimbra Bacteria Culture Collection (UCCCB) ; Curators of the UCCCB;

#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 )

#86861

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-ID403064.1 )

* These data were automatically processed and therefore are not curated

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Geminicoccus roseus DSM 18922 DSM 18922

Geminicoccus roseus DSM 18922

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