Rhodopseudomonas palustris (DSM 131, Klemme S1, S-1)

Name: Rhodopseudomonas palustris (DSM 131, Klemme S1, S-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1821

Type strain

Strain Designation Klemme S1, S-1

Culture col. no. DSM 131 Klemme S1 S-1

NCBI tax ID(s) 1076

Special Collections DSMZ

History <- N. Pfennig <- J.H. Klemme, S-1

Links

Rhodopseudomonas palustris Klemme S1 is an anaerobe bacterium that was isolated from garden pond.

anaerobe 16S sequence Bacteria

Name and taxonomic classification

SI-ID 47066

DSM 131

@ref 20215

Last LPSN update 2026-02-09 11:18:11

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Nitrobacteraceae

Genus Rhodopseudomonas

Species Rhodopseudomonas palustris

Full scientific name Rhodopseudomonas palustris (Molisch 1907) van Niel 1944 (Approved Lists 1980)

Synonyms (2)

Rhodopseudomonas rutila
"Rhodobacillus palustris"

BacDive ID	Other strains from **Rhodopseudomonas palustris** (6)	Type strain
168493	R. palustris Pa16, 2.1.6, ATH 2.1.6, ATCC 17001, BCRC ... (type strain)
1819	R. palustris 7850, DSM 127, Pfennig 7850
1822	R. palustris R1, DSM 8283, ATCC 33872, DSM 5869, JCM 2524, ...
100656	R. palustris SF000326(FSU),
100657	R. palustris SF000717(FSU),
169288	R. palustris 1850, DSM 126, Pfennig 1850

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
2112	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)
2112	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
2112	anaerobe
125439	obligate aerobe	99.7

Spore formation

@ref	Spore formation	Confidence
125439		97.3

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ethanol fermentation	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	resorcinol degradation	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	quinate degradation	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	threonine metabolism	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	taurine degradation	100	1 of 1
66794	ceramide biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	lactate fermentation	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	gallate degradation	100	5 of 5
66794	propionate fermentation	100	10 of 10
66794	cyanate degradation	100	3 of 3
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	folate polyglutamylation	100	1 of 1
66794	gluconeogenesis	100	8 of 8
66794	adipate degradation	100	2 of 2
66794	photosynthesis	92.86	13 of 14
66794	leucine metabolism	92.31	12 of 13
66794	pentose phosphate pathway	90.91	10 of 11
66794	starch degradation	90	9 of 10
66794	4-hydroxyphenylacetate degradation	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	serine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	flavin biosynthesis	86.67	13 of 15
66794	tyrosine metabolism	85.71	12 of 14
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	propanol degradation	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	vitamin B12 metabolism	85.29	29 of 34
66794	phenylalanine metabolism	84.62	11 of 13
66794	degradation of aromatic, nitrogen containing compounds	83.33	10 of 12
66794	alanine metabolism	82.76	24 of 29
66794	glycogen metabolism	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	hydrogen production	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	heme metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	methionine metabolism	76.92	20 of 26
66794	urea cycle	76.92	10 of 13
66794	tryptophan metabolism	76.32	29 of 38
66794	toluene degradation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	ketogluconate metabolism	75	6 of 8
66794	purine metabolism	73.4	69 of 94
66794	proline metabolism	72.73	8 of 11
66794	vitamin B6 metabolism	72.73	8 of 11
66794	chlorophyll metabolism	72.22	13 of 18
66794	glutathione metabolism	71.43	10 of 14
66794	non-pathway related	71.05	27 of 38
66794	lipid metabolism	70.97	22 of 31
66794	arginine metabolism	70.83	17 of 24
66794	glycolysis	70.59	12 of 17
66794	oxidative phosphorylation	69.23	63 of 91
66794	histidine metabolism	68.97	20 of 29
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	phenol degradation	65	13 of 20
66794	lysine metabolism	64.29	27 of 42
66794	metabolism of disaccharids	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	sulfate reduction	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	3-phenylpropionate degradation	60	9 of 15
66794	lipoate biosynthesis	60	3 of 5
66794	nitrate assimilation	55.56	5 of 9
66794	pyrimidine metabolism	55.56	25 of 45
66794	phosphatidylethanolamine bioynthesis	53.85	7 of 13
66794	degradation of pentoses	53.57	15 of 28
66794	pantothenate biosynthesis	50	3 of 6
66794	carnitine metabolism	50	4 of 8
66794	ribulose monophosphate pathway	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	degradation of sugar acids	48	12 of 25
66794	polyamine pathway	47.83	11 of 23
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	cholesterol biosynthesis	45.45	5 of 11
66794	arachidonic acid metabolism	44.44	8 of 18
66794	degradation of hexoses	44.44	8 of 18
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	ascorbate metabolism	40.91	9 of 22
66794	glycine betaine biosynthesis	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	vitamin K metabolism	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	allantoin degradation	33.33	3 of 9
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	myo-inositol biosynthesis	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	d-xylose degradation	27.27	3 of 11
66794	carotenoid biosynthesis	27.27	6 of 22
66794	methanogenesis from CO2	25	3 of 12
66794	vitamin E metabolism	25	1 of 4
66794	daunorubicin biosynthesis	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Garden
#Environmental	#Aquatic	#Pond (small)

Isolation

2112

Sample typegarden pond

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2112	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	IMG accession	NCBI tax ID	Score
66792	Rhodopseudomonas palustris S-1, DSM 131	complete	2516653013	1076	23.41

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
124043	Rhodopseudomonas palustris strain DSM 131 16S ribosomal RNA gene, partial sequence.	PQ580370	1482		1076

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodopseudomonas palustris S-1, DSM 131
IMG: 2516653013

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.30	no
125439	motility	BacteriaNetⓘ	yes	75.30	no
125439	gram_stain	BacteriaNetⓘ	negative	99.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.70	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Methods for the separation of hydraulic retention time and solids retention time in the application of photosynthetic microorganisms in photobioreactors: a review.	Keet G, Du Toit JP, Pott RWM.	World J Microbiol Biotechnol	10.1007/s11274-024-03909-z	2024
Metabolism	A distinct pathway for tetrahymanol synthesis in bacteria.	Banta AB, Wei JH, Welander PV.	Proc Natl Acad Sci U S A	10.1073/pnas.1511482112	2015

References

#2112	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 131
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Rhodopseudomonas palustris (DSM 131, Klemme S1, S-1)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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