Name: Allochromatium vinosum D
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2424

Type strain:

Species: Allochromatium vinosum

Strain Designation: D, Roelofsoen D

Culture col. no.: DSM 180, ATCC 17899

Strain history: <- C.B. van Niel <- P.A. Roelofsoen, D

NCBI tax ID(s): 572477 (strain), 1049 (species)

Other strains from Allochromatium vinosum

A. vinosum 2811, DSM 183, Pfennig 2811
A. vinosum 6412, DSM 185, Pfennig 6412
A. vinosum 6712, DSM 186, Pfennig 6712
A. vinosum 8211, Trüper 8211, DSM 189
A. vinosum 9511, DSM 196
A. vinosum de Boer, DSM 1686
A. vinosum N-9, DSM 1713

Section

Allochromatium vinosum D is an anaerobe, mesophilic bacterium that was isolated from ditch water.

anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Chromatiales*
	Family	*Chromatiaceae*
	Genus	*Allochromatium*
	Species	**Allochromatium vinosum**
	Full Scientific Name (PNU)	Allochromatium vinosum (Ehrenberg 1838) Imhoff et al. 1998

	Synonym	Chromatium vinosum
	Synonym	"Monas* vinosa"*

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5]

Culture medium

PFENNIG'S MEDIUM I (modified 1988, for purple sulfur bacteria) (DSMZ Medium 28)

[Ref.: #5]

Culture medium growth

[Ref.: #5]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #5]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #5]			growth	25 °C

[Ref.: #5]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5]

Oxygen tolerance

anaerobe

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	hydrogen production	100	5 of 5
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	ubiquinone biosynthesis	100	7 of 7
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	photosynthesis	100	14 of 14
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	heme metabolism	85.71	12 of 14
[Ref.: #66794]	selenocysteine biosynthesis	83.33	5 of 6
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	starch degradation	70	7 of 10
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	sulfate reduction	69.23	9 of 13
[Ref.: #66794]	isoprenoid biosynthesis	69.23	18 of 26
[Ref.: #66794]	pyrimidine metabolism	68.89	31 of 45
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	nitrate assimilation	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	alanine metabolism	65.52	19 of 29
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	glutathione metabolism	64.29	9 of 14
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	non-pathway related	63.16	24 of 38
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	lipid metabolism	58.06	18 of 31
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	chlorophyll metabolism	55.56	10 of 18
[Ref.: #66794]	lysine metabolism	54.76	23 of 42
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	carnitine metabolism	50	4 of 8
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	oxidative phosphorylation	47.25	43 of 91
[Ref.: #66794]	androgen and estrogen metabolism	43.75	7 of 16
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	tryptophan metabolism	42.11	16 of 38
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	urea cycle	30.77	4 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	degradation of pentoses	25	7 of 28
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
[Ref.: #66794]	allantoin degradation	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #5]	Sample type/isolated from	ditch water
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Engineered	#Built environment	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FM178268 (>99% sequence identity) for Allochromatium from Microbeatlas

Aquatic Samples	525
Soil Samples	87
Animal Samples	49
Plant Samples	10
Total Samples	671

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

[Ref.: #5]

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.: #20218]	Allochromatium vinosum DSM 180 16S ribosomal RNA gene, partial sequence	FJ812038	1267	ENA	572477 tax ID	*
[Ref.: #20218]	Allochromatium vinosum DSM 180 16S-23S ribosomal RNA intergenic spacer, partial sequence	FJ823965	420	ENA	572477 tax ID	*
[Ref.: #20218]	Allochromatium vinosum partial 16S rRNA gene, type strain DSM 180T	FM178268	1462	ENA	572477 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Allochromatium vinosum DSM 180 DSM 180	GCA_000025485	complete	GenBank	572477 tax ID	*
[Ref.: #66792]	Allochromatium vinosum DSM 180	572477.4	complete	PATRIC	572477 tax ID	*
[Ref.: #66792]	Allochromatium vinosum DSM 180	572477.21	plasmid	PATRIC	572477 tax ID	*
[Ref.: #66792]	Allochromatium vinosum DSM 180	572477.22	plasmid	PATRIC	572477 tax ID	*
[Ref.: #66792]	Allochromatium vinosum DSM 180	646564502	complete	JGI IMG/M	572477 tax ID	*

[Ref.: #5]

GC-content

64.3 mol%

Availability in culture collections External links

[Ref.: #5]

Culture collection no.

DSM 180, ATCC 17899

[Ref.: #20218]

Associated Passport(s) in StrainInfo

156452, 156453

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Transcriptome	Complete genome of the thermophilic purple sulfur Bacterium Thermochromatium tepidum compared to Allochromatium vinosum and other Chromatiaceae.	Sattley WM, Swingley WD, Burchell BM, Dewey ED, Hayward MK, Renbarger TL, Shaffer KN, Stokes LM, Gurbani SA, Kujawa CM, Nuccio DA, Schladweiler J, Touchman JW, Wang-Otomo ZY, Blankenship RE, Madigan MT	Photosynth Res	10.1007/s11120-021-00870-y	2021	*
Metabolism	Protein dynamics and molecular motions study in relation to molecular interaction between proteins from sulfur oxidizing proteobacteria Allochromatium vinosum.	Ghosh S, Bagchi A	J Biomol Struct Dyn	10.1080/07391102.2020.1754914	2020	*
Metabolism	Structural study to analyze the DNA-binding properties of DsrC protein from the dsr operon of sulfur-oxidizing bacterium Allochromatium vinosum.	Ghosh S, Bagchi A	J Mol Model	10.1007/s00894-019-3945-3	2019	*
Metabolism	Effect of Illumination Intensity and Inhibition of Carotenoid Biosynthesis on Assembly of Peripheral Light-Gathering Complexes in Purple Sulfur Bacteria C Allochromatium vinosum ATCC 17899.	Bol'shakov MA, Ashikhmin AA, Makhneva ZK, Moskalenko AA	Mikrobiologiia		2016	*
Metabolism	Geochemically distinct carbon isotope distributions in Allochromatium vinosum DSM 180(T) grown photoautotrophically and photoheterotrophically.	Tang T, Mohr W, Sattin SR, Rogers DR, Girguis PR, Pearson A	Geobiology	10.1111/gbi.12221	2017	*
Phylogeny	Allochromatium humboldtianum sp. nov., isolated from soft coastal sediments.	Serrano W, Schrubbers J, Amann R, Fischer U	Int J Syst Evol Microbiol	10.1099/ijs.0.000364	2015	*
Metabolism	Genome-wide transcriptional profiling of the purple sulfur bacterium Allochromatium vinosum DSM 180T during growth on different reduced sulfur compounds.	Weissgerber T, Dobler N, Polen T, Latus J, Stockdreher Y, Dahl C	J Bacteriol	10.1128/JB.00154-13	2013	*
Genetics	Complete genome sequence of Allochromatium vinosum DSM 180(T).	Weissgerber T, Zigann R, Bruce D, Chang YJ, Detter JC, Han C, Hauser L, Jeffries CD, Land M, Munk AC, Tapia R, Dahl C	Stand Genomic Sci	10.4056/sigs.2335270	2011	*
Phylogeny	The genus Allochromatium (Chromatiales Chromatiaceae) revisited: a study on its intragenic structure based on multilocus sequence analysis (MLSA) and DNA-DNA hybridization (DDH).	Serrano W, Amann R, Rossello-Mora R, Herbert RA, Fischer U	Syst Appl Microbiol	10.1016/j.syapm.2011.06.002	2011	*
Metabolism	Altered composition of Ralstonia eutropha poly(hydroxyalkanoate) through expression of PHA synthase from Allochromatium vinosum ATCC 35206.	Aneja KK, Ashby RD, Solaiman DK	Biotechnol Lett	10.1007/s10529-009-0052-z	2009	*
Metabolism	Novel genes of the dsr gene cluster and evidence for close interaction of Dsr proteins during sulfur oxidation in the phototrophic sulfur bacterium Allochromatium vinosum.	Dahl C, Engels S, Pott-Sperling AS, Schulte A, Sander J, Lubbe Y, Deuster O, Brune DC	J Bacteriol	10.1128/JB.187.4.1392-1404.2005	2005	*
Enzymology	Cloning and sequencing of the gene encoding the high potential iron-sulfur protein (HiPIP) from the purple sulfur bacterium Chromatium vinosum.	Bruser T, Truper HG, Dahl C	Biochim Biophys Acta	10.1016/s0167-4781(97)00033-x	1997	*
Enzymology	Insertional gene inactivation in a phototrophic sulphur bacterium: APS-reductase-deficient mutants of Chromatium vinosum.	Dahl C	Microbiology (Reading)	10.1099/13500872-142-12-3363	1996	*
Metabolism	Spectroscopic characterization of nitrosylheme in nitric oxide complexes of ferric and ferrous cytochrome c' from photosynthetic bacteria.	Yoshimura T, Fujii S, Kamada H, Yamaguchi K, Suzuki S, Shidara S, Takakuwa S	Biochim Biophys Acta	10.1016/0167-4838(95)00187-5	1996	*
Enzymology	Electron paramagnetic resonance studies of ferric cytochrome c' from photosynthetic bacteria.	Fujii S, Yoshimura T, Kamada H, Yamaguchi K, Suzuki S, Shidara S, Takakuwa S	Biochim Biophys Acta	10.1016/0167-4838(95)00092-9	1995	*

References

#5	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 180

#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) .

#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 )

#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 .

* These data were automatically processed and therefore are not curated

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