Geminicoccus roseus (DSM 18922, ATCC BAA-1445, D2-3)

Name: Geminicoccus roseus (DSM 18922, ATCC BAA-1445, D2-3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17872

Type strain

Strain Designation D2-3

Culture col. no. DSM 18922 ATCC BAA-1445 D2-3 UCCCB102

NCBI tax ID(s) 1089551 404900

Special Collections DSMZ UCCCB

History <- B. Fösel, Dept. Ecological Microbiology, Univ. Bayreuth, Germany; D2-3 Fösel, B. Deptartment of Ecological Microbiology, University Bayreuth

Links

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

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 403064

ATCC BAA-1445,DSM 18922

@ref 20215

Last LPSN update 2026-02-09 11:22:19

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Geminicoccaceae

Genus Geminicoccus

Species Geminicoccus roseus

Full scientific name Geminicoccus roseus Foesel et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.5

Multimedia

@ref:	66793
multimedia content:	EM_DSM_18922_1.jpg
multimedia.multimedia content:	EM_DSM_18922_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7776	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
7776	positive	growth	30
67772	positive	optimum	30-35
67772	positive	minimum	15
67772	positive	maximum	45

Culture pH

@ref	Ability	Type	PH	PH range
67772	positive	maximum	11.0	alkaliphile
67772	positive	minimum	5.5
67772	positive	optimum	8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	95.6

Spore formation

@ref	Spore formation	Confidence
125439		90.3

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Bioremediation	#Biofilter
#Engineered	#Industrial	#Machines and devices
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
7776	biofilter of a recirculating marine aquaculture system (digestion basin)	Rehovot	Israel	ISR	Asia
67772	Biofilter of a recirculating marine aquaculture system (digestion basin)	Central District, Rehovot	Israel	ISR	Asia	31.898	34.8081 31.898/34.8081

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7776	1	Risk group (German classification) According to TRBA 466
67772	1

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67772	ASM42766v1 assembly for Geminicoccus roseus DSM 18922	scaffold	GCA_000427665	1089551.3	2517093010	1089551	76.6

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7776	Geminicoccus roseus partial 16S rRNA gene, type strain D2-3T	AM403172	1352		404900

GC content

7776

GC-content (mol%)60.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Geminicoccus roseus DSM 18922
NCBI: GCA_000427665

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	90.30	no
125439	motility	BacteriaNetⓘ	no	52.60	no
125439	gram_stain	BacteriaNetⓘ	positive	65.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	95.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Geminicoccus roseus DSM 18922
PATRIC: 1089551.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	94.39	no
125438	spore-forming	spore-formingⓘ	no	84.01	no
125438	aerobic	aerobicⓘ	yes	81.73	no
125438	thermophilic	thermophileⓘ	no	98.00	no
125438	flagellated	motile2+ⓘ	yes	74.43	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	An integrated phylogenomic approach toward pinpointing the origin of mitochondria.	Wang Z, Wu M.	Sci Rep	10.1038/srep07949	2015
Metabolism	Synthesis of UDP-apiose in Bacteria: The marine phototroph Geminicoccus roseus and the plant pathogen Xanthomonas pisi.	Smith JA, Bar-Peled M.	PLoS One	10.1371/journal.pone.0184953	2017
Phylogeny	Salinicoccus jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood.	Aslam Z, Lim JH, Im WT, Yasir M, Chung YR, Lee ST.	Int J Syst Evol Microbiol	10.1099/ijs.0.64586-0	2007
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 )
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Geminicoccus roseus (DSM 18922, ATCC BAA-1445, D2-3)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000427665

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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