Dendrosporobacter quercicolus (DSM 1736, ATCC 25974)

Name: Dendrosporobacter quercicolus (DSM 1736, ATCC 25974)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17120

Type strain

Culture col. no. DSM 1736 ATCC 25974

NCBI tax ID(s) 1121386 146817

Special Collections DSMZ

History <- ATCC <- B.J. Cosenza

Links

Dendrosporobacter quercicolus DSM 1736 is an anaerobe, mesophilic prokaryote that was isolated from discolored tissue in living oak tree.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 38737

ATCC 25974,DSM 1736,BCRC 14524,CCRC 14524

@ref 20215

Last LPSN update 2026-02-09 11:22:08

Domain Bacteria

Phylum Bacillota

Class Negativicutes

Order Selenomonadales

Family Sporomusaceae

Genus Dendrosporobacter

Species Dendrosporobacter quercicolus

Full scientific name Dendrosporobacter quercicolus (Stankewich et al. 1971) Strömpl et al. 2000

Synonyms (1)

Clostridium quercicolum

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
891	PY + X MEDIUM (DSMZ Medium 104b)		Medium recipe at MediaDive	Name: PY + X MEDIUM (DSMZ Medium 104b; with strain-specific modifications) Composition: Yeast extract 10.0 g/l D-Fructose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
891	CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)		Medium recipe at MediaDive	Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
891	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
891	anaerobe
125439	facultative anaerobe	96.2

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	isoleucine metabolism	100	8 of 8
66794	enterobactin biosynthesis	100	3 of 3
66794	aspartate and asparagine metabolism	100	9 of 9
66794	methylglyoxal degradation	100	5 of 5
66794	biotin biosynthesis	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	threonine metabolism	100	10 of 10
66794	ribulose monophosphate pathway	100	2 of 2
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	valine metabolism	100	9 of 9
66794	aminopropanol phosphate biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	vitamin B1 metabolism	92.31	12 of 13
66794	pentose phosphate pathway	90.91	10 of 11
66794	glutamate and glutamine metabolism	89.29	25 of 28
66794	chorismate metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	vitamin B12 metabolism	85.29	29 of 34
66794	alanine metabolism	82.76	24 of 29
66794	glycine betaine biosynthesis	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	hydrogen production	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	heme metabolism	78.57	11 of 14
66794	citric acid cycle	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	phenylalanine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	pyrimidine metabolism	75.56	34 of 45
66794	glycogen biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	sulfopterin metabolism	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	vitamin B6 metabolism	72.73	8 of 11
66794	purine metabolism	72.34	68 of 94
66794	propanol degradation	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	starch degradation	70	7 of 10
66794	myo-inositol biosynthesis	70	7 of 10
66794	Entner Doudoroff pathway	70	7 of 10
66794	urea cycle	69.23	9 of 13
66794	leucine metabolism	69.23	9 of 13
66794	acetoin degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	formaldehyde oxidation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	histidine metabolism	65.52	19 of 29
66794	methionine metabolism	65.38	17 of 26
66794	tryptophan metabolism	63.16	24 of 38
66794	ketogluconate metabolism	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	oxidative phosphorylation	60.44	55 of 91
66794	factor 420 biosynthesis	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	arginine metabolism	58.33	14 of 24
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	glutathione metabolism	57.14	8 of 14
66794	non-pathway related	55.26	21 of 38
66794	sulfate reduction	53.85	7 of 13
66794	lysine metabolism	52.38	22 of 42
66794	lipid metabolism	51.61	16 of 31
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	pantothenate biosynthesis	50	3 of 6
66794	glycine metabolism	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
66794	lactate fermentation	50	2 of 4
66794	adipate degradation	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	quinate degradation	50	1 of 2
66794	cysteine metabolism	50	9 of 18
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	ethanol fermentation	50	1 of 2
66794	vitamin E metabolism	50	2 of 4
66794	proline metabolism	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	degradation of hexoses	44.44	8 of 18
66794	tyrosine metabolism	42.86	6 of 14
66794	D-cycloserine biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	phenol degradation	40	8 of 20
66794	arachidonate biosynthesis	40	2 of 5
66794	degradation of sugar acids	40	10 of 25
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	carnitine metabolism	37.5	3 of 8
66794	degradation of pentoses	35.71	10 of 28
66794	sulfoquinovose degradation	33.33	1 of 3
66794	methane metabolism	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	metabolism of disaccharids	27.27	3 of 11
66794	methanogenesis from CO2	25	3 of 12
66794	cyclohexanol degradation	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	phenylpropanoid biosynthesis	23.08	3 of 13
66794	4-hydroxymandelate degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Tree
#Host Body-Site	#Plant	-

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
891	discolored tissue in living oak tree	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
891	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 2622736508 annotated assembly for Dendrosporobacter quercicolus DSM 1736	scaffold	GCA_900104455	146817.6	2622736508	146817	70.06
66792	ASM1330316v1 assembly for Dendrosporobacter quercicolus DSM 1736	contig	GCA_013303165	1121386.4	8118616204	1121386	65.04

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Clostridium quercicolum 16S ribosomal RNA	M59110	1512		146817
891	Clostridium quercicolum 16S rRNA gene, strain DSM 1736(T)	AJ010962	1506		146817

GC content

891

GC-content (mol%)52.0-54.0

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Dendrosporobacter quercicolus DSM 1736
NCBI: GCA_900104455

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	71.60	no
125439	motility	BacteriaNetⓘ	yes	54.60	no
125439	gram_stain	BacteriaNetⓘ	positive	70.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	96.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Dendrosporobacter quercicolus DSM 1736
PATRIC: 1121386.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	83.52	no
125438	anaerobic	anaerobicⓘ	yes	81.07	no
125438	spore-forming	spore-formingⓘ	yes	64.24	no
125438	aerobic	aerobicⓘ	no	89.04	yes
125438	thermophilic	thermophileⓘ	no	88.79	no
125438	flagellated	motile2+ⓘ	yes	78.66	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Detection of Mycobacterium ulcerans with IS2404 loop-mediated isothermal amplification and a fluorescent reporter probe.	Lee JYH, Porter JL, Globan M, Lavender CJ, Zhang Y, Tanner NA, Hobbs EC, Buultjens AH, Stinear TP.	Appl Environ Microbiol	10.1128/aem.00270-25	2025
	A Type III Polyketide Synthase Specific for Sporulating Negativicutes is Responsible for Alkylpyrone Biosynthesis.	Bredy F, Ishida K, Hertweck C.	Chembiochem	10.1002/cbic.202200431	2022
Genetics	Oak-Associated Negativicute Equipped with Ancestral Aromatic Polyketide Synthase Produces Antimycobacterial Dendrubins.	Ishida K, Shabuer G, Schieferdecker S, Pidot SJ, Stinear TP, Knuepfer U, Cyrulies M, Hertweck C.	Chemistry	10.1002/chem.202001939	2020
Genetics	Tartrate fermentation with H₂ production by a new member of Sporomusaceae enriched from rice paddy soil.	Pereira-Mora L, Guerrero LD, Erijman L, Fernandez-Scavino A.	Appl Environ Microbiol	10.1128/aem.02351-23	2024
Metabolism	Isolation of acetic, propionic and butyric acid-forming bacteria from biogas plants.	Cibis KG, Gneipel A, Konig H.	J Biotechnol	10.1016/j.jbiotec.2016.01.008	2016
Phylogeny	Reclassification of Clostridium quercicolum as Dendrosporobacter quercicolus gen. nov., comb. nov.	Strompl C, Tindall BJ, Lunsdorf H, Wong TY, Moore ER, Hippe H.	Int J Syst Evol Microbiol	10.1099/00207713-50-1-101	2000
Genetics	Disentangling hindgut metabolism in the American cockroach through single-cell genomics and metatranscriptomics.	Dukes HE, Tinker KA, Ottesen EA.	Front Microbiol	10.3389/fmicb.2023.1156809	2023
Phylogeny	Propionispora vibrioides, nov. gen., nov. sp., a new gram-negative, spore-forming anaerobe that ferments sugar alcohols.	Biebl H, Schwab-Hanisch H, Sproer C, Lunsdorf H.	Arch Microbiol	10.1007/s002030000198	2000
Metabolism	Characterization of four TCE-dechlorinating microbial enrichments grown with different cobalamin stress and methanogenic conditions.	Men Y, Lee PK, Harding KC, Alvarez-Cohen L.	Appl Microbiol Biotechnol	10.1007/s00253-013-4896-8	2013
Metabolism	Competition and coexistence of sulfate-reducing bacteria, acetogens and methanogens in a lab-scale anaerobic bioreactor as affected by changing substrate to sulfate ratio.	Dar SA, Kleerebezem R, Stams AJ, Kuenen JG, Muyzer G.	Appl Microbiol Biotechnol	10.1007/s00253-008-1391-8	2008
Phylogeny	Recurring seasonal dynamics of microbial communities in stream habitats.	Hullar MA, Kaplan LA, Stahl DA.	Appl Environ Microbiol	10.1128/aem.72.1.713-722.2006	2006
Metabolism	Microbial and Genetic Resources for Cobalamin (Vitamin B12) Biosynthesis: From Ecosystems to Industrial Biotechnology.	Balabanova L, Averianova L, Marchenok M, Son O, Tekutyeva L.	Int J Mol Sci	10.3390/ijms22094522	2021
Phylogeny	Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile.	Hansel CM, Fendorf S, Jardine PM, Francis CA.	Appl Environ Microbiol	10.1128/aem.01787-07	2008
Phylogeny	Azotosporobacter soli gen. nov., sp. nov., a novel nitrogen-fixing bacterium isolated from paddy soil.	Xie CJ, Yao L, Tang R, Han S, Yang S, Alwathnani H, Rensing C, Liu GH, Zhou SG.	Antonie Van Leeuwenhoek	10.1007/s10482-024-01978-6	2024
Transcriptome	Siderophore-producing Pantoea ferrattrahens sp. nov. isolated from a clinical specimen and Pantoea ferramans sp. nov. isolated from soil at the bottom of a pond.	Kutsuna R, Miyoshi-Akiyama T, Muramatsu Y, Hamada M, Tomida J, Kikuchi K, Kawamura Y.	Microbiol Immunol	10.1111/1348-0421.13097	2023
Phylogeny	Geobacter pickeringii sp. nov., Geobacter argillaceus sp. nov. and Pelosinus fermentans gen. nov., sp. nov., isolated from subsurface kaolin lenses.	Shelobolina ES, Nevin KP, Blakeney-Hayward JD, Johnsen CV, Plaia TW, Krader P, Woodard T, Holmes DE, VanPraagh CG, Lovley DR.	Int J Syst Evol Microbiol	10.1099/ijs.0.64221-0	2007
	Co-culture of a Novel Fermentative Bacterium, Lucifera butyrica gen. nov. sp. nov., With the Sulfur Reducer Desulfurella amilsii for Enhanced Sulfidogenesis.	Sanchez-Andrea I, Florentino AP, Semerel J, Strepis N, Sousa DZ, Stams AJM.	Front Microbiol	10.3389/fmicb.2018.03108	2018

References

#891	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1736
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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 )
#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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Dendrosporobacter quercicolus (DSM 1736, ATCC 25974)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900104455

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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