Cite this strain

Desulfoprunum benzoelyticum (DSM 28570, KCTC 15441, KoBa311)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130284

Type strain

Strain Designation KoBa311

Culture col. no. DSM 28570 KCTC 15441 KoBa311

NCBI tax ID(s) 1506996

Special Collections DSMZ KCTC

Links

Name and taxonomic classification

Desulfoprunum benzoelyticum KoBa311 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from sewage sludge from a municipal wastewater treatment plant.

Gram-negative anaerobe mesophilic genome sequence 16S sequence Bacteria

SI-ID 404777

DSM 28570

Last LPSN update 2024-12-09 10:48:55

Domain Bacteria

Phylum Pseudomonadota

Class Deltaproteobacteria

Order Desulfobacterales

Family Desulfobulbaceae

Genus Desulfoprunum

Species Desulfoprunum benzoelyticum

Full scientific name Desulfoprunum benzoelyticum Junghare and Schink 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	95.229

Colony morphology

22137

Incubation period8-14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22137	DESULFOBULBUS SP. MEDIUM (FRESHWATER) (DSMZ Medium 194)		Medium recipe at MediaDive	Name: DESULFOBULBUS SP. MEDIUM (FRESHWATER) (DSMZ Medium 194; with strain-specific modifications) Composition: Na2SO4 2.99103 g/l Na2CO3 1.49551 g/l NaCl 0.997009 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l MgCl2 x 6 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l Na-benzoate 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22137	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
22137	anaerobe
125439	anaerobe

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Sewage sludge
#Engineered	#Waste	#Water treatment plant

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
22137	sewage sludge from a municipal wastewater treatment plant	Konstanz	Germany	DEU	Europe

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
22137	1	Risk group (German classification)

Sequence information

GC content

@ref	GC-content (mol%)	Method
22137	52.3	high performance liquid chromatography (HPLC)

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22137	Desulfoprunum benzoelyticum strain KoBa311 16S ribosomal RNA gene, partial sequence	KJ766003	1357		1506996

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Desulfoprunum benzoelyticum DSM 28570	GCA_014201505	scaffold		1506996
66792	Desulfoprunum benzoelyticum DSM 28570	GCA_016918515	contig		1506996
66792	Desulfoprunum benzoelyticum strain DSM 28570	1506996.4	wgs	PATRIC	1506996
66792	Desulfoprunum benzoelyticum strain DSM 28570	1506996.3	wgs	PATRIC	1506996
66792	Desulfoprunum benzoelyticum DSM 28570	2861203348	draft	JGI IMG/M	1506996

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Desulfoprunum benzoelyticum DSM 28570
NCBI: GCA_014201505

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	87.30	no
125439	motility	BacteriaNetⓘ	yes	64.30	no
125439	gram_stain	BacteriaNetⓘ	negative	85.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	98.20	no

Predictions from Diaspora project based on:
Desulfoprunum benzoelyticum DSM 28570
NCBI: GCA_014201505.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.23	no
125438	anaerobic	anaerobicⓘ	yes	76.58	yes
125438	aerobic	aerobicⓘ	no	79.35	yes
125438	spore-forming	spore-formingⓘ	no	85.05	no
125438	thermophilic	thermophileⓘ	no	87.94	yes
125438	flagellated	motile2+ⓘ	no	50.80	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Desulfoprunum benzoelyticum gen. nov., sp. nov., a Gram-stain-negative, benzoate-degrading, sulfate-reducing bacterium isolated from a wastewater treatment plant.	Junghare M, Schink B	Int J Syst Evol Microbiol	10.1099/ijs.0.066761-0	2014

Straininfo Link

@ref	Straininfo	Culture collections
88819	404777	DSM 28570

Culture collection no.

Culture collection no.
DSM 28570
KCTC 15441
KoBa311

References

#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 )
#22137	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28570
#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) .
#88819	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID404777.1 )
#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 .

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