Name: Desulfurococcus amylolyticus Z-1312
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 4199

Type strain:

Species: Desulfurococcus amylolyticus

Strain Designation: Z-1312

Culture col. no.: DSM 16532, JCM 13383, VKM V-2316

Strain history: DSM 16532 <-- E. A. Bonch-Osmolovskaya Z-1312 <-- V. A. Svetlichny.

NCBI tax ID(s): 768672 (strain), 94694 (species)

SI-ID 138978

DSM 16532, JCM 13383, VKM B-2316

Other strains from Desulfurococcus amylolyticus

D. amylolyticus DSM 3822, JCM 9188 (type strain)
D. amylolyticus 1221n, DSM 18924, JCM 16383, VKM ...

Section

Desulfurococcus amylolyticus Z-1312 is an anaerobe, chemoorganoheterotroph, spore-forming archaeon that was isolated from freshwater hot spring.

coccus-shaped
motile
spore-forming
anaerobe
chemoorganoheterotroph
hyperthermophilic
16S sequence
Archaea
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Thermoproteota*
	Class	*Thermoprotei*
	Order	*Desulfurococcales*
	Family	*Desulfurococcaceae*
	Genus	*Desulfurococcus*
	Species	**Desulfurococcus amylolyticus**
	Full Scientific Name (LPSN)	Desulfurococcus amylolyticus Bonch-Osmolovskaya et al. 2001

	Synonym	Desulfurococcus fermentans
	Synonym	Desulfurococcus kamchatkensis

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.922

[Ref.: #23225]	Cell length	1-4 µm

[Ref.: #23225]	Cell shape	coccus-shaped

[Ref.: #23225]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.818

[Ref.: #23225]	Flagellum arrangement	polar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6471]

Culture medium

FERVIDICOCCUS MEDIUM (DSMZ Medium 395b)

[Ref.: #6471]

Culture medium growth

[Ref.: #6471]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6471]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6471]	growth	80 °C
[Ref.: #23225]	growth	63-89 °C
[Ref.: #23225]	optimum	82 °C
[Ref.: #67770]	growth	80 °C

[Ref.: #6471]	Temperature range	hyperthermophilic
[Ref.: #23225]	Temperature range	hyperthermophilic
[Ref.: #67770]	Temperature range	hyperthermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.999

	pH	Kind of pH		pH
[Ref.: #23225]			optimum	6.0
[Ref.: #23225]			growth	4.8-6.8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6471]	Oxygen tolerance	anaerobe
[Ref.: #23225]	Oxygen tolerance	obligate anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.742

[Ref.: #23225]

Nutrition type

chemoorganoheterotroph

[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.908

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23225]	agarose ChEBI	+	energy source
[Ref.: #23225]	agarose ChEBI	+	fermentation
[Ref.: #23225]	amygdalin ChEBI	+	energy source
[Ref.: #23225]	amygdalin ChEBI	+	fermentation
[Ref.: #23225]	arabinose ChEBI	+	energy source
[Ref.: #23225]	arabinose ChEBI	+	fermentation
[Ref.: #23225]	arbutin ChEBI	+	energy source
[Ref.: #23225]	arbutin ChEBI	+	fermentation
[Ref.: #23225]	casein hydrolysate	+	energy source
[Ref.: #23225]	casein hydrolysate	+	fermentation
[Ref.: #23225]	cellulose ChEBI	+	energy source
[Ref.: #23225]	cellulose ChEBI	+	fermentation
[Ref.: #23225]	dextran ChEBI	+	energy source
[Ref.: #23225]	dextran ChEBI	+	fermentation
[Ref.: #23225]	elemental sulfur ChEBI	-	electron acceptor
[Ref.: #23225]	elemental sulfur ChEBI	-	growth
[Ref.: #23225]	fructose ChEBI	+	energy source
[Ref.: #23225]	fructose ChEBI	+	fermentation
[Ref.: #23225]	galactitol ChEBI	+	energy source
[Ref.: #23225]	galactitol ChEBI	+	fermentation
[Ref.: #23225]	glucose ChEBI	-	growth
[Ref.: #23225]	lactose ChEBI	+	energy source
[Ref.: #23225]	lactose ChEBI	+	fermentation
[Ref.: #23225]	laminarin ChEBI	+	energy source
[Ref.: #23225]	laminarin ChEBI	+	fermentation
[Ref.: #23225]	lichenin ChEBI	+	energy source
[Ref.: #23225]	lichenin ChEBI	+	fermentation
[Ref.: #23225]	maltose ChEBI	+	energy source
[Ref.: #23225]	maltose ChEBI	+	fermentation
[Ref.: #23225]	mannitol ChEBI	-	growth
[Ref.: #23225]	nitrate ChEBI	-	electron acceptor
[Ref.: #23225]	nitrate ChEBI	-	growth
[Ref.: #23225]	pectin ChEBI	+	energy source
[Ref.: #23225]	pectin ChEBI	+	fermentation
[Ref.: #23225]	peptone	+	energy source
[Ref.: #23225]	peptone	+	fermentation
[Ref.: #23225]	ribose ChEBI	+	energy source
[Ref.: #23225]	ribose ChEBI	+	fermentation
[Ref.: #23225]	sorbitol ChEBI	-	growth
[Ref.: #23225]	starch ChEBI	+	energy source
[Ref.: #23225]	starch ChEBI	+	fermentation
[Ref.: #23225]	sucrose ChEBI	+	energy source
[Ref.: #23225]	sucrose ChEBI	+	fermentation
[Ref.: #23225]	sulfate ChEBI	-	electron acceptor
[Ref.: #23225]	sulfate ChEBI	-	growth
[Ref.: #23225]	thiosulfate ChEBI	-	electron acceptor
[Ref.: #23225]	thiosulfate ChEBI	-	growth
[Ref.: #23225]	xylose ChEBI	-	growth
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #6471]	Sample type/isolated from	freshwater hot spring
[Ref.: #6471]	Geographic location (country and/or sea, region)	Kamchatka Peninsula, Uzon caldera
[Ref.: #6471]	Country	Russia
[Ref.: #6471]	Country ISO 3 Code	RUS
[Ref.: #6471]	Continent	Asia

[Ref.: #23225]	Sample type/isolated from	hot spring of Uzon caldera

[Ref.: #67770]	Sample type/isolated from	Hot spring of the Uzon caldera
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kamchatka
[Ref.: #67770]	Country	Russia
[Ref.: #67770]	Country ISO 3 Code	RUS
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Thermal spring
#Environmental	#Terrestrial	#Volcanic
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY264344 (>99% sequence identity) for Desulfurococcus from Microbeatlas

Aquatic Samples	7
Soil Samples	4
Animal Samples
Plant Samples
Total Samples	11

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

[Ref.: #6471]

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.: #6471]	Desulfurococcus fermentans strain Z-1312 16S ribosomal RNA gene, partial sequence	AY264344	1395	ENA	768672 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Desulfurococcus amylolyticus DSM 16532	GCA_000231015	complete	GenBank	768672 tax ID	*
[Ref.: #66792]	Desulfurococcus fermentans Z-1312, DSM 16532	2513020047	complete	JGI IMG/M	768672 tax ID	*
[Ref.: #66792]	Desulfurococcus fermentans DSM 16532	768672.7	complete	PATRIC	768672 tax ID	*

[Ref.: #6471]	GC-content	42.5 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #23225]	GC-content	42.5 mol%	Thermal denaturation, fluorometry

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: Desulfurococcus amylolyticus DSM 16532 DSM 16532 NCBI: GCA_000231015.3
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Desulfurococcus amylolyticus DSM 16532 DSM 16532 NCBI: GCA_000231015.3
[Ref.: #69480]	motile	no	59.7	yes
[Ref.: #69480]	flagellated	no	90.583	yes
[Ref.: #69480]	gram-positive	no	95.195	no
[Ref.: #69480]	anaerobic	yes	99.054	yes
[Ref.: #69480]	aerobic	no	96.933	yes
[Ref.: #69480]	halophile	no	77.816	no
[Ref.: #69480]	spore-forming	no	97.985	no
[Ref.: #69480]	glucose-util	yes	77.329	yes
[Ref.: #69480]	thermophile	yes	100	no
[Ref.: #69480]	glucose-ferment	no	58.871	no

Availability in culture collections External links

[Ref.: #6471]

Culture collection no.

DSM 16532, JCM 13383, VKM V-2316

[Ref.: #73699]

SI-ID 138978

Literature:

	Title	Authors	Journal	DOI	Year
Metabolism	Metabolic reconstruction and experimental verification of glucose utilization in Desulfurococcus amylolyticus DSM 16532.	Reischl B, Ergal I, Rittmann SKR	Folia Microbiol (Praha)	10.1007/s12223-018-0612-5	2018	*
Genetics	Permanent Draft Genome Sequence of Desulfurococcus amylolyticus Strain Z-533(T), a Peptide and Starch Degrader Isolated from Thermal Springs in the Kamchatka Peninsula and Kunashir Island, Russia.	Susanti D, Johnson EF, Lapidus A, Han J, Reddy TB, Mukherjee S, Pillay M, Perevalova AA, Ivanova NN, Woyke T, Kyrpides NC, Mukhopadhyay B	Genome Announc	10.1128/genomeA.00078-17	2017	*
Phylogeny	Desulfurococcus fermentans sp. nov., a novel hyperthermophilic archaeon from a Kamchatka hot spring, and emended description of the genus Desulfurococcus.	Perevalova AA, Svetlichny VA, Kublanov IV, Chernyh NA, Kostrikina NA, Tourova TP, Kuznetsov BB, Bonch-Osmolovskaya EA	Int J Syst Evol Microbiol	10.1099/ijs.0.63378-0	2005	*
	Formate Utilization by the Crenarchaeon Desulfurococcus amylolyticus.	Ergal I, Reischl B, Hasibar B, Manoharan L, Zipperle A, Bochmann G, Fuchs W, Rittmann SKR	Microorganisms	10.3390/microorganisms8030454	2020	*

References

#6471

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16532

#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 )

#23225

A. A. Perevalova, V. A. Svetlichny, I. V. Kublanov, N. A. Chernyh, N. A. Kostrikina, T. P. Tourova, B. B. Kuznetsov, E. A. Bonch-Osmolovskaya: Desulfurococcus fermentans sp. nov., a novel hyperthermophilic archaeon from a Kamchatka hot spring, and emended description of the genus Desulfurococcus. IJSEM 55: 995 - 999 2005 ( DOI 10.1099/ijs.0.63378-0 , PubMed 15879224 )

#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 .

#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 )

#73699

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-ID138978.1 )

* These data were automatically processed and therefore are not curated

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Desulfurococcus amylolyticus DSM 16532 DSM 16532

Desulfurococcus amylolyticus DSM 16532 DSM 16532

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