Adlercreutzia caecicola (DSM 22242, CCUG 57646, KCTC 15365)

Name: Adlercreutzia caecicola (DSM 22242, CCUG 57646, KCTC 15365)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 22982

Type strain

Strain Designation NR06

Culture col. no. DSM 22242 CCUG 57646 KCTC 15365 NR06

NCBI tax ID(s) 747645

Special Collections DSMZ CCUG KCTC Mouse Literature strains DZIF

Links

Adlercreutzia caecicola NR06 is an obligate anaerobe, mesophilic, Gram-positive prokaryote that was isolated from cecal content of a male TNF^deltaARE C57BL/6 mouse.

Gram-positive rod-shaped obligate anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 399853

KCTC 15365,DSM 22242,CCUG 57646

@ref 20215

Last LPSN update 2025-12-16 09:52:33

Domain Bacillati

Phylum Actinomycetota

Class Coriobacteriia

Order Eggerthellales

Family Eggerthellaceae

Genus Adlercreutzia

Species Adlercreutzia caecicola

Full scientific name Adlercreutzia caecicola (Clavel et al. 2013) Nouioui et al. 2018

Synonyms (1)

Parvibacter caecicola

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
30824	positive	1.5 µm	0.5 µm	rod-shaped
67771				rod-shaped
67771	positive
125439	negative

Colony morphology

@ref	Incubation period
19370	2-3 days
61403	2 days

Pigmentation

30824

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
19370	ACIDAMINOCOCCUS FERMENTANS MEDIUM (DSMZ Medium 414)		Medium recipe at MediaDive	Name: ACIDAMINOCOCCUS FERMENTANS MEDIUM (DSMZ Medium 414) Composition: Casamino acids 10.0 g/l Yeast extract 5.0 g/l Trypticase peptone 5.0 g/l Glucose 5.0 g/l Na glutamate 4.0 g/l KH2PO4 2.0 g/l Arginine 1.0 g/l Glycine 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l DL-Tryptophan 0.1 g/l Tween 80 Distilled water
19370	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)		Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
19370	positive	growth	37	mesophilic
30824	positive	growth	25-37	mesophilic
30824	positive	optimum	37	mesophilic
61403	positive	growth	37	mesophilic
67771	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
19370	obligate anaerobe
30824	anaerobe
61403	anaerobe
67771	anaerobe
125439	anaerobe

Spore formation

@ref	Spore formation
30824
125439

Observation

@ref	Observation
30824	aggregates in clumps
67771	quinones: MMK-6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68380	29016 ChEBI	arginine	+	hydrolysis	from API rID32A
68380	16024 ChEBI	D-mannose	-	fermentation	from API rID32A
30824	33984 ChEBI	fucose	+	carbon source
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
30824	24996 ChEBI	lactate	+	carbon source
30824	25115 ChEBI	malate	+	carbon source
30824	51850 ChEBI	methyl pyruvate	+	carbon source
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
30824	28044 ChEBI	phenylalanine	+	carbon source
30824	15361 ChEBI	pyruvate	+	carbon source
68380	16634 ChEBI	raffinose	-	fermentation	from API rID32A
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68380	35581 ChEBI	indole		from API rID32A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	-	from API rID32A

Enzymes

@ref	Value	Activity	Ec
68380	alanine arylamidase	+	3.4.11.2	from API rID32A
68380	alkaline phosphatase	-	3.1.3.1	from API rID32A
68380	alpha-arabinosidase	-	3.2.1.55	from API rID32A
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
68380	alpha-galactosidase	-	3.2.1.22	from API rID32A
68380	alpha-glucosidase	-	3.2.1.20	from API rID32A
68380	arginine dihydrolase	+	3.5.3.6	from API rID32A
68380	beta-galactosidase	-	3.2.1.23	from API rID32A
68380	beta-Galactosidase 6-phosphate	-		from API rID32A
68380	beta-glucosidase	-	3.2.1.21	from API rID32A
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
68380	glutamate decarboxylase	-	4.1.1.15	from API rID32A
68380	glutamyl-glutamate arylamidase	-		from API rID32A
68380	glycin arylamidase	+		from API rID32A
68380	histidine arylamidase	+		from API rID32A
68380	L-arginine arylamidase	-		from API rID32A
68380	leucine arylamidase	+	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	-	3.4.11.1	from API rID32A
68380	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32A
68380	phenylalanine arylamidase	+		from API rID32A
68380	proline-arylamidase	+	3.4.11.5	from API rID32A
68380	pyrrolidonyl arylamidase	-	3.4.19.3	from API rID32A
68380	serine arylamidase	+		from API rID32A
68380	tryptophan deaminase	-	4.1.99.1	from API rID32A
68380	tyrosine arylamidase	+		from API rID32A
68380	urease	-	3.5.1.5	from API rID32A

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	enterobactin biosynthesis	100	3 of 3
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	cardiolipin biosynthesis	100	7 of 7
66794	vitamin K metabolism	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	hydrogen production	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	palmitate biosynthesis	86.36	19 of 22
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	threonine metabolism	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	photosynthesis	78.57	11 of 14
66794	chorismate metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	acetate fermentation	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	glycolysis	70.59	12 of 17
66794	purine metabolism	70.21	66 of 94
66794	acetoin degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	isoleucine metabolism	62.5	5 of 8
66794	histidine metabolism	62.07	18 of 29
66794	phenylalanine metabolism	61.54	8 of 13
66794	pyrimidine metabolism	60	27 of 45
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	alanine metabolism	58.62	17 of 29
66794	glutamate and glutamine metabolism	57.14	16 of 28
66794	propanol degradation	57.14	4 of 7
66794	degradation of sugar alcohols	56.25	9 of 16
66794	NAD metabolism	55.56	10 of 18
66794	serine metabolism	55.56	5 of 9
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	proline metabolism	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	oxidative phosphorylation	51.65	47 of 91
66794	cysteine metabolism	50	9 of 18
66794	suberin monomers biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	butanoate fermentation	50	2 of 4
66794	ketogluconate metabolism	50	4 of 8
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	gluconeogenesis	50	4 of 8
66794	glycine metabolism	50	5 of 10
66794	citric acid cycle	50	7 of 14
66794	urea cycle	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	lipid metabolism	45.16	14 of 31
66794	d-mannose degradation	44.44	4 of 9
66794	glutathione metabolism	42.86	6 of 14
66794	methionine metabolism	42.31	11 of 26
66794	lipoate biosynthesis	40	2 of 5
66794	propionate fermentation	40	4 of 10
66794	methylglyoxal degradation	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	vitamin B1 metabolism	38.46	5 of 13
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	37.5	3 of 8
66794	non-pathway related	36.84	14 of 38
66794	pentose phosphate pathway	36.36	4 of 11
66794	lysine metabolism	35.71	15 of 42
66794	tyrosine metabolism	35.71	5 of 14
66794	tryptophan metabolism	34.21	13 of 38
66794	lipid A biosynthesis	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	formaldehyde oxidation	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	sulfate reduction	30.77	4 of 13
66794	Entner Doudoroff pathway	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	arginine metabolism	29.17	7 of 24
66794	ubiquinone biosynthesis	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	ascorbate metabolism	27.27	6 of 22
66794	flavin biosynthesis	26.67	4 of 15
66794	CMP-KDO biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	glycogen biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	4-hydroxymandelate degradation	22.22	2 of 9

API rID32A

@ref	URE	ADH (Arg)	alpha GAL	beta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha GLU	beta GLU	alpha ARA	beta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	MNE	RAF	GDC	alpha FUC	Reduction of nitrateNIT	IND	PAL	L-arginine arylamidaseArgA	ProA	LGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	PyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
19370	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	+	-	+	+	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body Product	#Gastrointestinal tract	#Caecal content

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
19370	cecal content of a male TNF^deltaARE C57BL/6 mouse	Germany	DEU	Europe
61403	Mouse cecal content,male TNFdeltaARE	Germany	DEU	Europe
67771	From cecal content of a male TNF^deltaARE^ C57BL/6 mouse	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence GQ456228 (>99% sequence identity) for Adlercreutzia caecicola subclade from Microbeatlas

Aquatic Samples	28
Soil Samples	9
Animal Samples	7602
Plant Samples	9
Total Samples	7648

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2462322v1 assembly for Parvibacter caecicola DSM 22242	contig	GCA_024623225	747645.20	8062859344	747645	75.35
66792	ASM1419248v1 assembly for Parvibacter caecicola DSM 22242	contig	GCA_014192485	747645.17	2824484654	747645	73.76
67771	ASM372533v1 assembly for Parvibacter caecicola DSM 22242	contig	GCA_003725335	747645.3	2831651148	747645	65.79

Genome browser: GCA_024623225

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
19370	Parvibacter caecicola strain NR06 16S ribosomal RNA gene, partial sequence	GQ456228	1442		747645

GC content

@ref	GC-content (mol%)	Method
19370	62.5	high performance liquid chromatography (HPLC)
30824	62.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Parvibacter caecicola DSM 22242
NCBI: GCA_014192485

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.80	no
125439	motility	BacteriaNetⓘ	yes	63.50	no
125439	gram_stain	BacteriaNetⓘ	negative	97.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	98.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Parvibacter caecicola strain DSM 22242
PATRIC: 747645.17

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	83.42	yes
125438	anaerobic	anaerobicⓘ	yes	82.37	yes
125438	aerobic	aerobicⓘ	no	88.01	no
125438	spore-forming	spore-formingⓘ	no	81.98	yes
125438	thermophilic	thermophileⓘ	no	88.58	yes
125438	flagellated	motile2+ⓘ	no	86.38	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	A Genomic Toolkit for the Mechanistic Dissection of Intractable Human Gut Bacteria.	Bisanz JE, Soto-Perez P, Noecker C, Aksenov AA, Lam KN, Kenney GE, Bess EN, Haiser HJ, Kyaw TS, Yu FB, Rekdal VM, Ha CWY, Devkota S, Balskus EP, Dorrestein PC, Allen-Vercoe E, Turnbaugh PJ.	Cell Host Microbe	10.1016/j.chom.2020.04.006	2020
Genetics	Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
Genetics	Draft Genome Sequences of Type Strains of Gordonibacter faecihominis, Paraeggerthella hongkongensis, Parvibacter caecicola,Slackia equolifaciens, Slackia faecicanis, and Slackia isoflavoniconvertens.	Danylec N, Stoll DA, Dotsch A, Huch M	Microbiol Resour Announc	10.1128/MRA.01532-18	2019
Phylogeny	Genome analysis reveals that the correct name of type strain Adlercreutzia caecicola DSM 22242(T) is Parvibacter caecicola Clavel et al. 2013.	Stoll DA, Danylec N, Grimmler C, Kulling SE, Huch M	Int J Syst Evol Microbiol	10.1099/ijsem.0.004814	2021
Phylogeny	Ellagibacter isourolithinifaciens gen. nov., sp. nov., a new member of the family Eggerthellaceae, isolated from human gut.	Beltran D, Romo-Vaquero M, Espin JC, Tomas-Barberan FA, Selma MV	Int J Syst Evol Microbiol	10.1099/ijsem.0.002735	2018
Phylogeny	Parvibacter caecicola gen. nov., sp. nov., a bacterium of the family Coriobacteriaceae isolated from the caecum of a mouse.	Clavel T, Charrier C, Wenning M, Haller D	Int J Syst Evol Microbiol	10.1099/ijs.0.045344-0	2013

References

#19370	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22242
#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 )
#30824	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 #27155 (see below)
#61403	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 57646
#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 )
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68380	Automatically annotated from API rID32A .
#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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Adlercreutzia caecicola (DSM 22242, CCUG 57646, KCTC 15365)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_024623225

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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