Name: Desulfogranum mediterraneum 86FS1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 4014

Type strain:

Species: Desulfogranum mediterraneum

Strain Designation: 86FS1

Culture col. no.: DSM 13871, JCM 15784

Strain history: DSM 13871 <-- A. Sass 86FS1.

NCBI tax ID(s): 1121404 (strain), 160661 (species)

SI-ID 100625

DSM 13871, JCM 15784

Special Collections

DSMZ
JCM

Section

When using BacDive for research please cite our paper

Desulfogranum mediterraneum 86FS1 is an anaerobe, psychrophilic bacterium that was isolated from deep-sea surface sediment, 1268 m depth.

anaerobe
psychrophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfobacterales*
	Family	*Desulfobulbaceae*
	Genus	*Desulfogranum*
	Species	**Desulfogranum mediterraneum**
	Full Scientific Name (LPSN)	Desulfogranum mediterraneum (Sass et al. 2002) Galushko and Kuever 2021

Synonym

Desulfobulbus mediterraneus

Information on morphological and physiological properties Morphology

[Ref.: #125438]	Gram stain	negative Confidence in %96.589
[Ref.: #125439]	Gram stain	negative Confidence in %98.6

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5184]

Culture medium

DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c)

[Ref.: #5184]

Culture medium growth

[Ref.: #5184]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5184]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #5184]			growth	25 °C
[Ref.: #67770]			growth	20 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5184]	Oxygen tolerance	anaerobe
[Ref.: #125439]	Oxygen tolerance	anaerobe Confidence in %99.3

[Ref.: #125439]

Ability of spore formation

no Confidence in %97.2

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

[Ref.: #5184]	Sample type/isolated from	deep-sea surface sediment, 1268 m depth
[Ref.: #5184]	Geographic location (country and/or sea, region)	Mediterranean Sea, about 60 km off the coast of north-eastern Spain
[Ref.: #5184]	Country	Spain
[Ref.: #5184]	Country ISO 3 Code	ESP
[Ref.: #5184]	Continent	Europe
[Ref.: #5184]	Geographic location	41.2000°/2.8333°

[Ref.: #67770]	Sample type/isolated from	Deep-sea sediment in the western Mediterranean Sea
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF354663 (>99% sequence identity) for Desulfobulbus mediterraneus subclade from Microbeatlas

Aquatic Samples	153
Soil Samples	2
Animal Samples	1
Plant Samples	1
Total Samples	157

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

[Ref.: #5184]

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.: #5184]	Desulfobulbus mediterraneus 16S ribosomal RNA gene, partial sequence	AF354663	1457	GenBank ENA	160661 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Desulfogranum mediterraneum DSM 13871	GCA_000429965	scaffold	GenBank ENA	1121404 tax ID
[Ref.: #66792]	Desulfobulbus mediterraneus DSM 13871	1121404.3	wgs	PATRIC	1121404 tax ID	*
[Ref.: #66792]	Desulfobulbus mediterraneus DSM 13871	2523533605	draft	JGI IMG/M	1121404 tax ID	*

[Ref.: #5184]	GC-content	58.6 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	58.6 mol%

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Desulfobulbus mediterraneus DSM 13871 PATRIC: 1121404.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	96.589	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	72.188	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	83.272	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	74.644	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	90.072	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	82.147	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Desulfogranum mediterraneum DSM 13871 NCBI: GCA_000429965
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	99.3
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	98.6
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	76.1
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	97.2

Availability in culture collections External links

[Ref.: #5184]

Culture collection no.

DSM 13871, JCM 15784

[Ref.: #73519]

SI-ID 100625

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Desulfobulbus mediterraneus sp. nov., a sulfate-reducing bacterium growing on mono- and disaccharides.	Sass A, Rutters H, Cypionka H, Sass H	Arch Microbiol	10.1007/s00203-002-0415-5	2002	*

References

#5184

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13871

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#73519

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-ID100625.1 )

#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 .

* These data were automatically processed and therefore are not curated

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Desulfobulbus mediterraneus DSM 13871

Desulfogranum mediterraneum DSM 13871

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