Name: Desulfatirhabdium butyrativorans HB1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 3996

Type strain:

Species: Desulfatirhabdium butyrativorans

Strain Designation: HB1

Culture col. no.: DSM 18734, JCM 14470

Strain history: M. Balk HB1.

NCBI tax ID(s): 1121394 (strain), 340467 (species)

SI-ID 323960

DSM 18734, JCM 14470

Section

Desulfatirhabdium butyrativorans HB1 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from upflow anaerobic sludge blanket reactor.

Gram-negative
rod-shaped
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfobacterales*
	Family	*Desulfobacteraceae*
	Genus	*Desulfatirhabdium*
	Species	**Desulfatirhabdium butyrativorans**
	Full Scientific Name (LPSN)	Desulfatirhabdium butyrativorans Balk et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32373]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #32373]	Cell length	3.05 µm

[Ref.: #32373]	Cell width	1.15 µm

[Ref.: #32373]	Cell shape	rod-shaped

[Ref.: #7679]

Incubation period

>14 days

[Ref.: #32373]

Pigment production

yes

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7679]

Culture medium

DESULFATIRHABDIUM MEDIUM (DSMZ Medium 1086)

[Ref.: #7679]

Culture medium growth

[Ref.: #7679]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7679]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7679]	growth	28 °C
[Ref.: #32373]	growth	15-37 °C
[Ref.: #32373]	optimum	29 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #7679]	Temperature range	mesophilic
[Ref.: #32373]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32373]			optimum	7
[Ref.: #32373]			growth	6.5-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7679]	Oxygen tolerance	anaerobe
[Ref.: #32373]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.472

[Ref.: #32373]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.828

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32373]	2,3-butanediol ChEBI	+	carbon source
[Ref.: #32373]	4-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #32373]	acetate ChEBI	+	carbon source
[Ref.: #32373]	ethanol ChEBI	+	carbon source
[Ref.: #32373]	formate ChEBI	+	carbon source
[Ref.: #32373]	propionate ChEBI	+	carbon source
[Ref.: #32373]	pyruvate ChEBI	+	carbon source
[Ref.: #32373]	succinate ChEBI	+	carbon source

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

[Ref.: #7679]	Sample type/isolated from	upflow anaerobic sludge blanket (UASB) reactor
[Ref.: #7679]	Country	Netherlands
[Ref.: #7679]	Country ISO 3 Code	NLD
[Ref.: #7679]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Upflow anaerobic sludge blanket (UASB) reactor treating paper-mill wastewater
[Ref.: #67770]	Country	Netherlands
[Ref.: #67770]	Country ISO 3 Code	NLD
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	#Anaerobic digestor
#Condition	#Anoxic (anaerobic)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ146482 (>99% sequence identity) for Desulfatirhabdium butyrativorans subclade from Microbeatlas

Aquatic Samples	1057
Soil Samples	132
Animal Samples	19
Plant Samples	9
Total Samples	1217

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

[Ref.: #7679]

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.: #7679]	Desulfatirhabdium butyrativorans strain HB1 16S ribosomal RNA gene, partial sequence	DQ146482	1535	ENA	340467 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Desulfatirhabdium butyrativorans DSM 18734	GCA_000429925	scaffold	GenBank	1121394 tax ID
[Ref.: #66792]	Desulfatirhabdium butyrativorans DSM 18734	1121394.3	wgs	PATRIC	1121394 tax ID	*
[Ref.: #66792]	Desulfatirhabdium butyrativorans DSM 18734	2524023145	draft	JGI IMG/M	1121394 tax ID	*

[Ref.: #7679]	GC-content	55.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32373]	GC-content	55.1 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Desulfatirhabdium butyrativorans DSM 18734 DSM 18734 NCBI: GCA_000429925.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Desulfatirhabdium butyrativorans DSM 18734 PATRIC: 1121394.3
[Ref.: #69480]	motile	yes	82.152	no
[Ref.: #69480]	flagellated	no	85.955	no
[Ref.: #69480]	gram-positive	no	99.374	no
[Ref.: #69480]	anaerobic	yes	99.667	yes
[Ref.: #69480]	aerobic	no	98.344	no
[Ref.: #69480]	halophile	no	91.11	no
[Ref.: #69480]	spore-forming	no	88.868	yes
[Ref.: #69480]	thermophile	no	61.248	no
[Ref.: #69480]	glucose-util	no	54.871	no
[Ref.: #69480]	glucose-ferment	no	85.688	no

Availability in culture collections External links

[Ref.: #7679]

Culture collection no.

DSM 18734, JCM 14470

[Ref.: #73501]

SI-ID 323960

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Desulfatirhabdium butyrativorans gen. nov., sp. nov., a butyrate-oxidizing, sulfate-reducing bacterium isolated from an anaerobic bioreactor.	Balk M, Altinbas M, Rijpstra WI, Sinninghe Damste JS, Stams AJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65396-0	2008	*

References

#7679

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18734

#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 )

#32373

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28601 (see below)

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#73501

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-ID323960.1 )

#28601

IJSEM 110 2008 ( DOI 10.1099/ijs.0.65396-0 , PubMed 18175693 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Desulfatirhabdium butyrativorans in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Desulfatirhabdium butyrativorans DSM 18734 DSM 18734

Desulfatirhabdium butyrativorans DSM 18734

Change proposal

Change proposal