Caldanaerobius fijiensis (DSM 17918, ATCC BAA-1278, JW/YJL-F3)

Name: Caldanaerobius fijiensis (DSM 17918, ATCC BAA-1278, JW/YJL-F3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16851

Type strain

Strain Designation JW/YJL-F3

Culture col. no. DSM 17918 ATCC BAA-1278 JW/YJL-F3

NCBI tax ID(s) 1121256 456330

Special Collections DSMZ Literature strains

History <- J. Wiegel; JW/YJL-F3

Links

Caldanaerobius fijiensis JW/YJL-F3 is an anaerobe, spore-forming, thermophilic prokaryote that was isolated from hot spring.

spore-forming Gram-negative motile rod-shaped anaerobe thermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 401951

DSM 17918

@ref 20215

Last LPSN update 2025-12-16 09:50:57

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Thermoanaerobacterales

Family Thermoanaerobacteraceae

Genus Caldanaerobius

Species Caldanaerobius fijiensis

Full scientific name Caldanaerobius fijiensis Lee et al. 2008

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
32332	negative	10.25 µm	0.85 µm	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7245	CALDANAEROBIUS MEDIUM (DSMZ Medium 903)		Medium recipe at MediaDive	Name: CALDANAEROBIUS MEDIUM (DSMZ Medium 903) Composition: Sucrose 4.98504 g/l Na2CO3 1.49551 g/l KH2PO4 0.498504 g/l NaCl 0.398804 g/l MgCl2 x 6 H2O 0.329013 g/l Na2S x 9 H2O 0.299103 g/l L-Cysteine HCl x H2O 0.299103 g/l Trypticase peptone 0.249252 g/l CaCl2 x 2 H2O 0.0498504 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l Pyridoxine hydrochloride 0.000299103 g/l Thiamine-HCl x 2 H2O 0.000199402 g/l Nicotinic acid 0.000199402 g/l CoCl2 x 6 H2O 0.000189432 g/l Calcium pantothenate 9.97009e-05 g/l Vitamin B12 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l p-Aminobenzoic acid 7.97607e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l D-(+)-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 Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7245	positive	growth	60	thermophilic
32332	positive	growth	40-67	thermophilic
32332	positive	optimum	61.5	thermophilic

Culture pH

@ref	Ability	Type	PH
32332	positive	optimum	6.8
32332	positive	growth	4.5-8.4

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
7245	anaerobe
32332	anaerobe
125439	anaerobe	99.9

Spore formation

32332

Spore formationyes

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32332	NaCl	positive	growth	0-0.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32332	22599 ChEBI	arabinose	+	carbon source
32332	17057 ChEBI	cellobiose	+	carbon source
32332	28757 ChEBI	fructose	+	carbon source
32332	28260 ChEBI	galactose	+	carbon source
32332	17234 ChEBI	glucose	+	carbon source
32332	17716 ChEBI	lactose	+	carbon source
32332	17306 ChEBI	maltose	+	carbon source
32332	37684 ChEBI	mannose	+	carbon source
32332	16634 ChEBI	raffinose	+	carbon source
32332	33942 ChEBI	ribose	+	carbon source
32332	27082 ChEBI	trehalose	+	carbon source
32332	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
32332	acid phosphatase	+	3.1.3.2
32332	alkaline phosphatase	+	3.1.3.1
32332	alpha-galactosidase	+	3.2.1.22

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	aminopropanol phosphate biosynthesis	100	2 of 2
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	formaldehyde oxidation	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	cardiolipin biosynthesis	100	7 of 7
66794	L-lactaldehyde degradation	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	vitamin B1 metabolism	92.31	12 of 13
66794	threonine metabolism	90	9 of 10
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	vitamin B12 metabolism	88.24	30 of 34
66794	pyrimidine metabolism	82.22	37 of 45
66794	starch degradation	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	d-mannose degradation	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	acetate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	biotin biosynthesis	75	3 of 4
66794	purine metabolism	73.4	69 of 94
66794	flavin biosynthesis	73.33	11 of 15
66794	heme metabolism	71.43	10 of 14
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	propanol degradation	71.43	5 of 7
66794	photosynthesis	71.43	10 of 14
66794	glycolysis	70.59	12 of 17
66794	myo-inositol biosynthesis	70	7 of 10
66794	Entner Doudoroff pathway	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	methionine metabolism	69.23	18 of 26
66794	histidine metabolism	68.97	20 of 29
66794	degradation of pentoses	67.86	19 of 28
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	degradation of hexoses	66.67	12 of 18
66794	acetoin degradation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	d-xylose degradation	63.64	7 of 11
66794	pentose phosphate pathway	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	oxidative phosphorylation	60.44	55 of 91
66794	hydrogen production	60	3 of 5
66794	glycine betaine biosynthesis	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	lipoate biosynthesis	60	3 of 5
66794	alanine metabolism	58.62	17 of 29
66794	arginine metabolism	58.33	14 of 24
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	tryptophan metabolism	52.63	20 of 38
66794	non-pathway related	52.63	20 of 38
66794	lipid metabolism	51.61	16 of 31
66794	CMP-KDO biosynthesis	50	2 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
66794	selenocysteine biosynthesis	50	3 of 6
66794	suberin monomers biosynthesis	50	1 of 2
66794	adipate degradation	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	glutathione metabolism	50	7 of 14
66794	cysteine metabolism	50	9 of 18
66794	glycine metabolism	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	ethanol fermentation	50	1 of 2
66794	citric acid cycle	50	7 of 14
66794	polyamine pathway	47.83	11 of 23
66794	leucine metabolism	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	lysine metabolism	45.24	19 of 42
66794	molybdenum cofactor biosynthesis	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	tyrosine metabolism	42.86	6 of 14
66794	methylglyoxal degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	urea cycle	38.46	5 of 13
66794	sulfate reduction	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	metabolism of disaccharids	36.36	4 of 11
66794	degradation of sugar acids	36	9 of 25
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	cyanate degradation	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	ascorbate metabolism	27.27	6 of 22
66794	vitamin B6 metabolism	27.27	3 of 11
66794	carotenoid biosynthesis	27.27	6 of 22
66794	toluene degradation	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	phenylpropanoid biosynthesis	23.08	3 of 13

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Thermal spring
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
7245	hot spring	Fiji	FJI	Australia and Oceania

Taxonmaps

69479

Global distribution of 16S sequence EF507903 (>99% sequence identity) for Caldanaerobius from Microbeatlas

Aquatic Samples	101
Soil Samples	71
Animal Samples	15
Plant Samples	2
Total Samples	189

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7245	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2582581265 annotated assembly for Caldanaerobius fijiensis DSM 17918	scaffold	GCA_900129075	1121256.4	2582581265	1121256	59.43

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7245	Caldanaerobius fijiensis strain JW/YJL-F3 16S ribosomal RNA gene, partial sequence	EF507903	1354		456330

GC content

@ref	GC-content (mol%)	Method
7245	37.6	high performance liquid chromatography (HPLC)
32332	37.6

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Caldanaerobius fijiensis DSM 17918
NCBI: GCA_900129075

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	86.60	no
125439	motility	BacteriaNetⓘ	yes	79.10	no
125439	gram_stain	BacteriaNetⓘ	variable	85.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Caldanaerobius fijiensis DSM 17918 DSM 17918
NCBI: GCA_900129075.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	58.17	yes
125438	anaerobic	anaerobicⓘ	yes	87.82	no
125438	aerobic	aerobicⓘ	no	91.88	yes
125438	spore-forming	spore-formingⓘ	yes	77.16	no
125438	thermophilic	thermophileⓘ	yes	71.91	yes
125438	flagellated	motile2+ⓘ	yes	68.82	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Study of Ecological Relationship of Yeast Species with Candida albicans in the Context of Vulvovaginal Infections.	Caetano CF, Gaspar C, Oliveira AS, Palmeira-de-Oliveira R, Rodrigues L, Goncalves T, Martinez-de-Oliveira J, Palmeira-de-Oliveira A, Rolo J.	Microorganisms	10.3390/microorganisms11102398	2023
	Fermentation of Mannitol Extracts From Brown Macro Algae by Thermophilic Clostridia.	Chades T, Scully SM, Ingvadottir EM, Orlygsson J.	Front Microbiol	10.3389/fmicb.2018.01931	2018
Phylogeny	Description of Caldanaerobius fijiensis gen. nov., sp. nov., an inulin-degrading, ethanol-producing, thermophilic bacterium from a Fijian hot spring sediment, and reclassification of Thermoanaerobacterium polysaccharolyticum and Thermoanaerobacterium zeae as Caldanaerobius polysaccharolyticus comb. nov. and Caldanaerobius zeae comb. nov.	Lee YJ, Mackie RI, Cann IK, Wiegel J	Int J Syst Evol Microbiol	10.1099/ijs.0.65329-0	2008

References

#7245	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17918
#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 )
#28566	IJSEM 666 2008 ( DOI 10.1099/ijs.0.65329-0 , PubMed 18319475 )
#32332	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 #28566
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Caldanaerobius fijiensis (DSM 17918, ATCC BAA-1278, JW/YJL-F3)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900129075

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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