Prosthecochloris vibrioformis (DSM 260, 6030)

Name: Prosthecochloris vibrioformis (DSM 260, 6030)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2401

Type strain

Strain Designation 6030

Culture col. no. DSM 260 6030

NCBI tax ID(s) 1098

Special Collections DSMZ Literature strains

History DSMZ <- N. Pfennig, 6030

Links

Prosthecochloris vibrioformis 6030 is an anaerobe, phototroph, vibrio-shaped bacterium that was isolated from rivermouth.

vibrio-shaped anaerobe phototroph genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 87737

BCRC 81026,DSM 260,ATCC 6030

@ref 20215

Last LPSN update 2026-05-29 08:25:28

Domain Bacteria

Phylum Chlorobiota

Class Chlorobiia

Order Chlorobiales

Family Chlorobiaceae

Genus Prosthecochloris

Species Prosthecochloris vibrioformis

Full scientific name Prosthecochloris vibrioformis (Pelsh 1936) Imhoff 2003

Synonyms (1)

Chlorobium vibrioforme

Morphology

Cell morphology

@ref	Cell width	Cell shape	Gram stain	Confidence
23074	0.5-0.7 µm	vibrio-shaped
23074		rod-shaped
125439			negative	98.579
125438			negative	90.833

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
92	PFENNIG'S MEDIUM II WITH SALT (DSMZ Medium 40)		Medium recipe at MediaDive	Name: PFENNIG'S MEDIUM II WITH SALT (DSMZ Medium 40) Composition: NaCl 10.0 g/l NaHCO3 1.5 g/l MgSO4 x 7 H2O 0.52 g/l KCl 0.364 g/l KH2PO4 0.364 g/l Ammonium chloride 0.364 g/l Dextrose 0.26 g/l Ammonium acetate 0.26 g/l Pyruvic acid sodium salt 0.26 g/l Yeast extract 0.25 g/l CaCl2 x 2 H2O 0.25 g/l Resazurin 0.00225 g/l HCl 0.002002 g/l FeSO4 x 7 H2O 0.00156 g/l Vitamin B12 0.001 g/l H3BO3 0.000312 g/l CoCl2 x 6 H2O 0.0001976 g/l MnCl2 x 4 H2O 0.000104 g/l ZnCl2 7.28e-05 g/l Na2MoO4 x 2 H2O 3.744e-05 g/l NiCl2 x 6 H2O 2.496e-05 g/l CuCl2 x 2 H2O 2.08e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
92	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
92	anaerobe
23074	obligate anaerobe
125439	facultative anaerobe	91.112

Nutrition type

23074

Typephototroph

Spore formation

@ref	Spore formation	Confidence
125439		99.952

Halophily

@ref	Salt	Growth	Tested relation	Concentration
23074	NaCl		growth	<1.0 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23074	30411 ChEBI	cobalamin	+	growth

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#River (Creek)

Isolation

Sample typerivermouth

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
92	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	Score
66792	ASM626524v1 assembly for Prosthecochloris vibrioformis DSM 260	contig	GCA_006265245	1098.5	8065178851	1098	63.61

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Prosthecochloris vibrioformis partial 16S rRNA-23S rRNA ITS, strain DSM 260	AM049316	455		1098
23074	C.vibrioforme 16S ribosomal RNA	M62791	1507		1098

GC content

@ref	GC-content (mol%)	Method
23074	53.5	high performance liquid chromatography (HPLC)
92	53.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM626524v1 assembly for Prosthecochloris vibrioformis DSM 260
NCBI: GCA_006265245

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	91.11	no
125439	gram_stain	BacteriaNetⓘ	negative	98.58	no
125439	motility	BacteriaNetⓘ	no	62.10	no
125439	spore_formation	BacteriaNetⓘ	no	99.95	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Prosthecochloris vibrioformis strain DSM 260
PATRIC: 1098.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	90.83	no
125438	anaerobic	anaerobicⓘ	yes	88.57	yes
125438	spore-forming	spore-formingⓘ	no	88.92	no
125438	aerobic	aerobicⓘ	no	91.26	yes
125438	thermophilic	thermophileⓘ	no	82.06	no
125438	flagellated	motile2+ⓘ	no	83.97	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Comparative genomic insights into habitat adaptation of coral-associated Prosthecochloris.	Nie Z, Tang K, Wang W, Wang P, Guo Y, Wang Y, Kao SJ, Yin J, Wang X.	Front Microbiol	10.3389/fmicb.2023.1138751	2023
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
	Genome Sequence of Prosthecochloris sp. Strain HL-130-GSB from the Phylum Chlorobi.	Thiel V, Drautz-Moses DI, Purbojati RW, Schuster SC, Lindemann S, Bryant DA.	Genome Announc	10.1128/genomea.00538-17	2017
	Ecophysiological Features Shape the Distribution of Prophages and CRISPR in Sulfate Reducing Prokaryotes.	Orellana R, Arancibia A, Badilla L, Acosta J, Arancibia G, Escar R, Ferrada G, Seeger M.	Microorganisms	10.3390/microorganisms9050931	2021
Phylogeny	Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera.	Yang SH, Tandon K, Lu CY, Wada N, Shih CJ, Hsiao SS, Jane WN, Lee TC, Yang CM, Liu CT, Denis V, Wu YT, Wang LT, Huang L, Lee DC, Wu YW, Yamashiro H, Tang SL.	Microbiome	10.1186/s40168-018-0616-z	2019
Phylogeny	Green sulfur bacteria from hypersaline Chiprana Lake (Monegros, Spain): habitat description and phylogenetic relationship of isolated strains.	Vila X, Guyoneaud R, Cristina XP, Figueras JB, Abella CA	Photosynth Res	10.1023/A:1014915900644	2002

References

#92	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 260
#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 )
#23074	Johannes F. Imhoff: Phylogenetic taxonomy of the family Chlorobiaceae on the basis of 16S rRNA and fmo (Fenna-Matthews-Olson protein) gene sequences. IJSEM 53: 941 - 951 2003 ( DOI 10.1099/ijs.0.02403-0 , PubMed 12892110 )
#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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Prosthecochloris vibrioformis (DSM 260, 6030)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_006265245

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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