Rhodospirillum rubrum (DSM 107, Ha)

Name: Rhodospirillum rubrum (DSM 107, Ha)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14008

Type strain

Strain Designation Ha

Culture col. no. DSM 107 Ha

NCBI tax ID(s) 1085

Special Collections DSMZ

Links

Rhodospirillum rubrum Ha is an anaerobe, mesophilic prokaryote that was isolated from brackish ditch.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 4926

LMG 4359,DSM 107

@ref 20215

Last LPSN update 2025-12-16 09:50:14

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Rhodospirillaceae

Genus Rhodospirillum

Species Rhodospirillum rubrum

Full scientific name Rhodospirillum rubrum (Esmarch 1887) Molisch 1907 (Approved Lists 1980)

Synonyms (1)

"Spirillum rubrum"

BacDive ID	Other strains from **Rhodospirillum rubrum** (8)	Type strain
14005	R. rubrum S 1, S1, DSM 467, ATCC 11170, NCIB 8255, ... (type strain)
14006	R. rubrum G 9, DSM 468
14007	R. rubrum FR.1, DSM 1068
14009	R. rubrum 1785-1, DSM 11221, DSM 471
14010	R. rubrum 1761-1b, DSM 11222
14011	R. rubrum DSM 50914, ATCC 27048, ICPB 2204
143232	R. rubrum CCUG 17916, ATCC 9791, LMG 2955
143233	R. rubrum CCUG 17917, ATCC 17032, LMG 2956

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97
125439	negative	98.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
2080	RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27)		Medium recipe at MediaDive	Name: RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27) Composition: Disodium succinate 1.0 g/l KH2PO4 0.5 g/l Ammonium acetate 0.5 g/l NaCl 0.4 g/l NH4Cl 0.4 g/l MgSO4 x 7 H2O 0.4 g/l Yeast extract 0.3 g/l L-Cysteine HCl 0.3 g/l CaCl2 x 2 H2O 0.05 g/l Fe(III) citrate 0.005 g/l Resazurin 0.005 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Vitamin B12 Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
2080	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

2080

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		97.1

Compound production

2080

Compoundcarotenoids

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Brackish
#Environmental	#Terrestrial	#Tidal flat

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
2080	brackish ditch	Germany	DEU	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2080	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID
66792	ASM1658392v1 assembly for Rhodospirillum rubrum DSM 107	contig	GCA_016583925	1085.14	8098971559	1085

Genome browser: GCA_016583925

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	R.rubrum 16S rRNA gene	X87278	1477		1085

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodospirillum rubrum DSM 107
NCBI: GCA_016583925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.10	no
125439	motility	BacteriaNetⓘ	yes	59.70	no
125439	gram_stain	BacteriaNetⓘ	negative	98.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	59.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodospirillum rubrum strain DSM 107
PATRIC: 1085.14

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.00	no
125438	anaerobic	anaerobicⓘ	no	53.79	no
125438	spore-forming	spore-formingⓘ	no	83.96	no
125438	aerobic	aerobicⓘ	no	66.30	yes
125438	thermophilic	thermophileⓘ	no	95.66	no
125438	flagellated	motile2+ⓘ	yes	80.91	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Osmotic Adaptation and Compatible Solute Biosynthesis of Phototrophic Bacteria as Revealed from Genome Analyses.	Imhoff JF, Rahn T, Kunzel S, Keller A, Neulinger SC.	Microorganisms	10.3390/microorganisms9010046	2020
	Potential and limits of Raman spectroscopy for carotenoid detection in microorganisms: implications for astrobiology.	Jehlicka J, Edwards HG, Osterrothova K, Novotna J, Nedbalova L, Kopecky J, Nemec I, Oren A.	Philos Trans A Math Phys Eng Sci	10.1098/rsta.2014.0199	2014
Metabolism	RNase III processing of intervening sequences found in helix 9 of 23S rRNA in the alpha subclass of Proteobacteria.	Evguenieva-Hackenberg E, Klug G.	J Bacteriol	10.1128/jb.182.17.4719-4729.2000	2000
Enzymology	The abundance of Zoogloea ramigera in sewage treatment plants.	Rossello-Mora RA, Wagner M, Amann R, Schleifer KH.	Appl Environ Microbiol	10.1128/aem.61.2.702-707.1995	1995
Enzymology	The photoactive yellow protein from Ectothiorhodospira halophila as studied with a highly specific polyclonal antiserum: (intra)cellular localization, regulation of expression, and taxonomic distribution of cross-reacting proteins.	Hoff WD, Sprenger WW, Postma PW, Meyer TE, Veenhuis M, Leguijt T, Hellingwerf KJ.	J Bacteriol	10.1128/jb.176.13.3920-3927.1994	1994
Enzymology	Development of an rRNA-targeted oligonucleotide probe specific for the genus Acinetobacter and its application for in situ monitoring in activated sludge.	Wagner M, Erhart R, Manz W, Amann R, Lemmer H, Wedi D, Schleifer KH.	Appl Environ Microbiol	10.1128/aem.60.3.792-800.1994	1994

References

#2080	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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) .
#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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Rhodospirillum rubrum (DSM 107, Ha)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_016583925

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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