Name: Sedimentibacter hydroxybenzoicus JW/Z-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 18007

Type strain:

Species: Sedimentibacter hydroxybenzoicus

Strain Designation: JW/Z-1

Culture col. no.: DSM 7310, ATCC 51151

Strain history: <- J. Wiegel, JW/Z-1

NCBI tax ID(s): 1123245 (strain), 29345 (species)

SI-ID 45271

ATCC 51151, DSM 7310

Section

Sedimentibacter hydroxybenzoicus JW/Z-1 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from freshwater pond.

Gram-positive
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	*Bacillota*
	Class	*Clostridia*
	Order	*Tissierellales*
	Family	"Sedimentibacteraceae"
	Genus	*Sedimentibacter*
	Species	**Sedimentibacter hydroxybenzoicus**
	Full Scientific Name (LPSN)	Sedimentibacter hydroxybenzoicus (Zhang et al. 1994) Breitenstein et al. 2002

Synonym

Clostridium hydroxybenzoicum

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %99.999

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3112]

Culture medium

SEDIMENTIBACTER MEDIUM (DSMZ Medium 643)

[Ref.: #3112]

Culture medium growth

[Ref.: #3112]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3112]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #3112]			growth	35 °C

[Ref.: #3112]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #3112]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

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

[Ref.: #3112]	Sample type/isolated from	freshwater pond
[Ref.: #3112]	Geographic location (country and/or sea, region)	Athens
[Ref.: #3112]	Country	USA
[Ref.: #3112]	Country ISO 3 Code	USA
[Ref.: #3112]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Pond (small)

What are isolation sources categories?

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

[Ref.: #3112]

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.: #3112]	Sedimentibacter hydroxybenzoicus strain JW/Z-1 16S ribosomal RNA gene, partial sequence	L11305	1457	ENA	29345 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sedimentibacter hydroxybenzoicus DSM 7310	GCA_013403245	contig	GenBank	1123245 tax ID	*
[Ref.: #66792]	Sedimentibacter hydroxybenzoicus DSM 7310	1123245.3	wgs	PATRIC	1123245 tax ID	*

[Ref.: #3112]

GC-content

35.5 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: Sedimentibacter hydroxybenzoicus DSM 7310 PATRIC: 1123245.3
[Ref.: #69481]	spore-forming	yes	85	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sedimentibacter hydroxybenzoicus DSM 7310 PATRIC: 1123245.3
[Ref.: #69480]	motile	yes	85.273	no
[Ref.: #69480]	flagellated	no	62.4	no
[Ref.: #69480]	gram-positive	yes	52.065	no
[Ref.: #69480]	anaerobic	yes	99.343	yes
[Ref.: #69480]	aerobic	no	97.726	no
[Ref.: #69480]	halophile	no	89.135	no
[Ref.: #69480]	spore-forming	yes	85.531	no
[Ref.: #69480]	glucose-util	yes	78.903	no
[Ref.: #69480]	thermophile	no	99.756	no
[Ref.: #69480]	glucose-ferment	no	57.177	no

Availability in culture collections External links

[Ref.: #3112]

Culture collection no.

DSM 7310, ATCC 51151

[Ref.: #86994]

SI-ID 45271

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Reclassification of Clostridium hydroxybenzoicum as Sedimentibacter hydroxybenzoicus gen. nov., comb. nov., and description of Sedimentibacter saalensis sp. nov..	Breitenstein A, Wiegel J, Haertig C, Weiss N, Andreesen JR, Lechner U	Int J Syst Evol Microbiol	10.1099/00207713-52-3-801	2002	*
Phylogeny	Clostridium hydroxybenzoicum sp. nov., an amino acid-utilizing, hydroxybenzoate-decarboxylating bacterium isolated from methanogenic freshwater pond sediment.	Zhang X, Mandelco L, Wiegel J	Int J Syst Bacteriol	10.1099/00207713-44-2-214	1994	*
Enzymology	Cloning, characterization, and expression of a novel gene encoding a reversible 4-hydroxybenzoate decarboxylase from Clostridium hydroxybenzoicum.	Huang J, He Z, Wiegel J	J Bacteriol	10.1128/JB.181.16.5119-5122.1999	1999	*
Enzymology	Purification and characterization of an oxygen-sensitive, reversible 3,4-dihydroxybenzoate decarboxylase from Clostridium hydroxybenzoicum.	He Z, Wiegel J	J Bacteriol	10.1128/jb.178.12.3539-3543.1996	1996	*
Enzymology	Purification and characterization of an oxygen-sensitive reversible 4-hydroxybenzoate decarboxylase from Clostridium hydroxybenzoicum.	He Z, Wiegel J	Eur J Biochem	10.1111/j.1432-1033.1995.tb20440.x	1995	*

References

#3112

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7310

#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) .

#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 )

#86994

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-ID45271.1 )

* These data were automatically processed and therefore are not curated

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Sedimentibacter hydroxybenzoicus DSM 7310

Sedimentibacter hydroxybenzoicus DSM 7310

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