Aerococcus urinaehominis (CCUG 42038 B, CCM 7338, DSM 15634)

Name: Aerococcus urinaehominis (CCUG 42038 B, CCM 7338, DSM 15634)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 225

Type strain

Culture col. no. CCUG 42038 B CCM 7338 DSM 15634 ATCC BAA-464 CIP 106675 3 more

NCBI tax ID(s) 128944

Special Collections DSMZ CCUG JCM CIP Literature strains

History <- CIP <- CCUG <- Y. Wyon, PHLS CIP 106675 <-- CCUG 42038 B <-- Y. Wyon. CIP <- 2000, CCUG <- 1999, Y. Wyon, PHLS, Lindköping, Sweden

Links

Aerococcus urinaehominis CCUG 42038 B is a microaerophile, mesophilic, Gram-positive prokaryote that was isolated from human urine.

Gram-positive coccus-shaped microaerophile mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 87796

CCUG 42038,CIP 106675,CCUG 42038 b,ATCC BAA-464,DSM 15634,CCM 7338,JCM 18987

@ref 20215

Last LPSN update 2026-02-09 11:17:49

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Aerococcaceae

Genus Aerococcus

Species Aerococcus urinaehominis

Full scientific name Aerococcus urinaehominis Lawson et al. 2001

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
22978	positive	coccus-shaped
123751	positive	ovoid-shaped

Colony morphology

@ref	Type of hemolysis	Hemolysis ability	Colony size	Incubation period	Medium used
22978	alpha	1	<1.0 mm	1 day	Columbia horse blood agar
123751		1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5921	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
5921	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
22978	Columbia horse blood agar
36413	MEDIUM 6 - Columbia agar with 10 % horse blood		Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
123751	CIP Medium 6	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5921	positive	growth	37	mesophilic
36413	positive	growth	37	mesophilic
55315	positive	growth	37	mesophilic
67770	positive	growth	30	mesophilic
123751	positive	growth	25-41
123751	negative	growth	10
123751	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
5921	microaerophile
22978	facultative anaerobe
55315	microaerophile
123751	facultative anaerobe
125439	microaerophile	98.2

Spore formation

@ref	Spore formation	Confidence
22978
125439		98.3

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123751	NaCl		growth	6.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
22978	23456 ChEBI	cyclodextrin	-	builds acid from
22978	18333 ChEBI	D-arabitol	-	builds acid from
22978	16988 ChEBI	D-ribose	+	builds acid from
22978	65327 ChEBI	D-xylose	-	builds acid from
22978	4853 ChEBI	esculin	+	hydrolysis
123751	4853 ChEBI	esculin	+	hydrolysis
22978	5291 ChEBI	gelatin	-	hydrolysis
22978	17234 ChEBI	glucose	+	builds acid from
22978	28087 ChEBI	glycogen	-	builds acid from
22978	606565 ChEBI	hippurate	+	hydrolysis
123751	606565 ChEBI	hippurate	+	hydrolysis
22978	30849 ChEBI	L-arabinose	-	builds acid from
22978	17716 ChEBI	lactose	-	builds acid from
22978	17306 ChEBI	maltose	+	builds acid from
22978	29864 ChEBI	mannitol	-	builds acid from
22978	6731 ChEBI	melezitose	-	builds acid from
22978	28053 ChEBI	melibiose	-	builds acid from
22978	320055 ChEBI	methyl beta-D-glucopyranoside	+	builds acid from
22978	17632 ChEBI	nitrate	-	reduction
123751	17632 ChEBI	nitrate	-	reduction
123751	16301 ChEBI	nitrite	-	reduction
22978	27941 ChEBI	pullulan	-	builds acid from
22978	16634 ChEBI	raffinose	-	builds acid from
22978	30911 ChEBI	sorbitol	-	builds acid from
22978	17992 ChEBI	sucrose	+	builds acid from
22978	33954 ChEBI	tagatose	-	builds acid from
22978	27082 ChEBI	trehalose	-	builds acid from

Metabolite production

@ref	Chebi-ID	Metabolite	Production
22978	15688 ChEBI	acetoin
22978	16301 ChEBI	nitrite

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
123751	15688 ChEBI	acetoin	-

Enzymes

@ref	Value	Activity	Ec
22978	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
123751	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
22978	alpha-fucosidase	-	3.2.1.51
68382	alpha-fucosidase	-	3.2.1.51	from API zym
22978	alpha-galactosidase	-	3.2.1.22
68382	alpha-galactosidase	-	3.2.1.22	from API zym
22978	alpha-glucosidase	-	3.2.1.20
68382	alpha-glucosidase	+	3.2.1.20	from API zym
22978	alpha-mannosidase	-	3.2.1.24
68382	alpha-mannosidase	-	3.2.1.24	from API zym
22978	arginine dihydrolase	-	3.5.3.6
22978	beta-galactosidase	-	3.2.1.23
68382	beta-galactosidase	-	3.2.1.23	from API zym
123751	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
22978	beta-glucuronidase	+	3.2.1.31
68382	beta-glucuronidase	+	3.2.1.31	from API zym
22978	beta-mannosidase	-	3.2.1.25
22978	catalase	-	1.11.1.6
123751	catalase	-	1.11.1.6
22978	chymotrypsin	-	3.4.4.5
22978	cystine arylamidase	-	3.4.11.3
68382	cystine arylamidase	-	3.4.11.3	from API zym
22978	cytochrome oxidase	-	1.9.3.1
22978	esterase (C 4)	+
68382	esterase (C 4)	+		from API zym
22978	esterase lipase (C 8)	-
68382	esterase lipase (C 8)	+		from API zym
123751	gamma-glutamyltransferase	-	2.3.2.2
22978	glycyl tryptophan arylamidase	-
22978	leucine arylamidase	-	3.4.11.1
68382	leucine arylamidase	-	3.4.11.1	from API zym
22978	lipase (C 14)	-
68382	lipase (C 14)	-		from API zym
123751	lysine decarboxylase	-	4.1.1.18
22978	N-acetyl-beta-glucosaminidase	-	3.2.1.52
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
123751	ornithine decarboxylase	-	4.1.1.17
123751	oxidase	-
22978	phosphoamidase	-	3.9.1.1
22978	pyrazinamidase	+	3.5.1.B15
22978	pyroglutamic acid arylamidase	-
22978	pyrrolidonyl arylamidase	-	3.4.19.3
22978	tripeptide aminopeptidase	-	3.4.11.4
22978	trypsin	-	3.4.21.4
68382	trypsin	-	3.4.21.4	from API zym
22978	urease	-	3.5.1.5
22978	valine arylamidase	-
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	coenzyme A metabolism	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	acetoin degradation	100	3 of 3
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	starch degradation	80	8 of 10
66794	threonine metabolism	80	8 of 10
66794	glycogen metabolism	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	serine metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	pentose phosphate pathway	72.73	8 of 11
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	photosynthesis	71.43	10 of 14
66794	phenylalanine metabolism	69.23	9 of 13
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	formaldehyde oxidation	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	cyanate degradation	66.67	2 of 3
66794	glycolysis	64.71	11 of 17
66794	ketogluconate metabolism	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	methionine metabolism	61.54	16 of 26
66794	leucine metabolism	61.54	8 of 13
66794	pyrimidine metabolism	60	27 of 45
66794	oxidative phosphorylation	58.24	53 of 91
66794	purine metabolism	56.38	53 of 94
66794	d-mannose degradation	55.56	5 of 9
66794	proline metabolism	54.55	6 of 11
66794	d-xylose degradation	54.55	6 of 11
66794	glutamate and glutamine metabolism	53.57	15 of 28
66794	sulfopterin metabolism	50	2 of 4
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	cysteine metabolism	50	9 of 18
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
66794	ethanol fermentation	50	1 of 2
66794	myo-inositol biosynthesis	50	5 of 10
66794	ribulose monophosphate pathway	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	adipate degradation	50	1 of 2
66794	non-pathway related	50	19 of 38
66794	alanine metabolism	48.28	14 of 29
66794	urea cycle	46.15	6 of 13
66794	vitamin B1 metabolism	46.15	6 of 13
66794	metabolism of disaccharids	45.45	5 of 11
66794	CO2 fixation in Crenarchaeota	44.44	4 of 9
66794	propanol degradation	42.86	3 of 7
66794	glutathione metabolism	42.86	6 of 14
66794	mevalonate metabolism	42.86	3 of 7
66794	tryptophan metabolism	42.11	16 of 38
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	arginine metabolism	41.67	10 of 24
66794	lysine metabolism	40.48	17 of 42
66794	degradation of sugar acids	40	10 of 25
66794	lipoate biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	lipid metabolism	38.71	12 of 31
66794	degradation of sugar alcohols	37.5	6 of 16
66794	vitamin B6 metabolism	36.36	4 of 11
66794	citric acid cycle	35.71	5 of 14
66794	tetrahydrofolate metabolism	35.71	5 of 14
66794	tyrosine metabolism	35.71	5 of 14
66794	heme metabolism	35.71	5 of 14
66794	degradation of pentoses	35.71	10 of 28
66794	histidine metabolism	34.48	10 of 29
66794	lipid A biosynthesis	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	flavin biosynthesis	33.33	5 of 15
66794	isoprenoid biosynthesis	30.77	8 of 26
66794	reductive acetyl coenzyme A pathway	28.57	2 of 7
66794	degradation of hexoses	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	CMP-KDO biosynthesis	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	phenylpropanoid biosynthesis	23.08	3 of 13
66794	nitrate assimilation	22.22	2 of 9
66794	4-hydroxymandelate degradation	22.22	2 of 9

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
123751	-	-	+	+	-	-	-	-	-	-	+	+	-	-	+	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Fluids	#Urine

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
5921	human urine		Linköping	Sweden	SWE	Europe
55315	Human urine,84-yr-old woman	1999-03-22	Linköping	Sweden	SWE	Europe
67770	Human urine
123751	Human, Urine		Linköping	Sweden	SWE	Europe

Taxonmaps

69479

Global distribution of 16S sequence LC589210 (>99% sequence identity) for Aerococcus urinaehominis subclade from Microbeatlas

Aquatic Samples	104
Soil Samples	204
Animal Samples	1435
Plant Samples	41
Total Samples	1784

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
5921	yes, in single cases	1	Risk group (German classification) According to TRBA 466
123751		1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM154324v1 assembly for Aerococcus urinaehominis CCUG42038B	complete	GCA_001543245	128944.3	2687453476	128944	87.52
66792	IMG-taxon 2619619005 annotated assembly for Aerococcus urinaehominis DSM 15634	scaffold	GCA_900103385	128944.7	2619619005	128944	59.38

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5921	Aerococcus urinaehominis 16S rRNA gene, strain CCUG 42038b	AJ278341	1367		128944
67770	Aerococcus urinaehominis JCM 18987 gene for 16S rRNA, partial sequence	LC589210	1487		128944

GC content

@ref	GC-content (mol%)	Method
5921	43.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Aerococcus urinaehominis DSM 15634
NCBI: GCA_900103385

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	microaerophile	98.20	no
125439	gram_stain	BacteriaNetⓘ	positive	87.00	no
125439	motility	BacteriaNetⓘ	no	82.30	no
125439	spore_formation	BacteriaNetⓘ	no	98.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Aerococcus urinaehominis DSM 15634
NCBI: GCA_900103385.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.78	no
125438	anaerobic	anaerobicⓘ	no	86.22	yes
125438	aerobic	aerobicⓘ	no	94.85	yes
125438	spore-forming	spore-formingⓘ	no	84.20	yes
125438	thermophilic	thermophileⓘ	no	96.97	no
125438	flagellated	motile2+ⓘ	no	88.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Development of disk diffusion susceptibility test methods for Aerococcus spp. and updates to Clinical and Laboratory Standards Institute MIC breakpoints.	Maynard R, Manuel C, Simpkins S, Haro M, Ledeboer N, Simner PJ, Fisher M, Humphries R.	J Clin Microbiol	10.1128/jcm.00115-25	2025
	Adaptive sampling during sequencing reveals the origins of the bovine reproductive tract microbiome across reproductive stages and sexes.	Ong CT, Ross EM, Boe-Hansen G, Turni C, Hayes BJ, Fordyce G, Tabor AE.	Sci Rep	10.1038/s41598-022-19022-w	2022
	Aerococcus-Related Infections and their Significance: A 9-Year Retrospective Study.	Sahu KK, Lal A, Mishra AK, Abraham GM.	J Microsc Ultrastruct	10.4103/jmau.jmau_61_19	2021
Phylogeny	Phenotypic description and antimicrobial susceptibilities of Aerococcus sanguinicola isolates from human clinical samples.	Facklam R, Lovgren M, Shewmaker PL, Tyrrell G.	J Clin Microbiol	10.1128/jcm.41.6.2587-2592.2003	2003
Genetics	Complete Genome Sequences of Aerococcus christensenii CCUG 28831T, Aerococcus sanguinicola CCUG 43001T, Aerococcus urinae CCUG 36881T, Aerococcus urinaeequi CCUG 28094T, Aerococcus urinaehominis CCUG 42038 BT, and Aerococcus viridans CCUG 4311T.	Carkaci D, Dargis R, Nielsen XC, Skovgaard O, Fuursted K, Christensen JJ	Genome Announc	10.1128/genomeA.00302-16	2016
Phylogeny	Aerococcus vaginalis sp. nov., isolated from the vaginal mucosa of a beef cow, and emended descriptions of Aerococcus suis, Aerococcus viridans, Aerococcus urinaeequi, Aerococcus urinaehominis, Aerococcus urinae, Aerococcus christensenii and Aerococcus sanguinicola.	Tohno M, Kitahara M, Matsuyama S, Kimura K, Ohkuma M, Tajima K.	Int J Syst Evol Microbiol	10.1099/ijs.0.058081-0	2014
Phylogeny	Aerococcus urinaehominis sp. nov., isolated from human urine.	Lawson PA, Falsen E, Ohlen M, Collins MD	Int J Syst Evol Microbiol	10.1099/00207713-51-2-683	2001

References

#5921	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15634
#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 )
#22978	P. A. Lawson,E. Falsen,M. Ohlén,M. D. Collins: Aerococcus urinaehominis sp. nov., isolated from human urine. IJSEM 51: 683 - 686 2001 ( DOI 10.1099/00207713-51-2-683 , PubMed 11321115 )
#36413	; Curators of the CIP;
#55315	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 42038 B
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#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 .
#123751	Collection of Institut Pasteur ; Curators of the CIP; CIP 106675
#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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Aerococcus urinaehominis (CCUG 42038 B, CCM 7338, DSM 15634)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001543245

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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