Nosocomiicoccus ampullae (DSM 19163, CIP 109506, LMG 24060)

Name: Nosocomiicoccus ampullae (DSM 19163, CIP 109506, LMG 24060)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14681

Type strain

Strain Designation TRF-1

Culture col. no. DSM 19163 CIP 109506 LMG 24060 TRF-1 UCCCB22

NCBI tax ID(s) 489910

Special Collections DSMZ CIP Literature strains UCCCB

Links

Nosocomiicoccus ampullae TRF-1 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from transfer spike, physiological saline flask in a health care center.

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

Name and taxonomic classification

SI-ID 302705

LMG 24060,CIP 109506,DSM 19163

@ref 20215

Last LPSN update 2025-12-16 09:50:25

Domain Bacillati

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Staphylococcaceae

Genus Nosocomiicoccus

Species Nosocomiicoccus ampullae

Full scientific name Nosocomiicoccus ampullae Morais et al. 2008

BacDive ID	Other strains from **Nosocomiicoccus ampullae** (1)	Type strain
154903	N. ampullae CCUG 55627

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
32599	positive	coccus-shaped
116345	positive	coccus-shaped
125438	positive		91.945

Pigmentation

32599

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7944	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
39787	MEDIUM 45 - for Columbia agar with sheep blood		Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
116345	CIP Medium 45	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7944	positive	growth	30	mesophilic
32599	positive	growth	30-45
32599	positive	optimum	37	mesophilic
39787	positive	growth	37	mesophilic
67772	positive	optimum	30-37	mesophilic
67772	positive	minimum	30	mesophilic
67772	positive	maximum	37	mesophilic

Culture pH

@ref	Ability	Type	PH
67772	positive	maximum	8.0
67772	positive	minimum	7.5
32599	positive	optimum	7.5-8
32599	positive	growth	7.5-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
32599	aerobe
116345	obligate aerobe

Spore formation

32599

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32599	NaCl	positive	growth	0-10 %

Murein

@ref	Murein short key	Type
7944	A11.03	A3alpha L-Lys-Gly₂_-₄-L-Ser₁_-₂-Gly

Observation

32599

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32599	22599 ChEBI	arabinose	+	carbon source
116345	17632 ChEBI	nitrate	-	reduction
116345	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
116345	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
32599	alkaline phosphatase	+	3.1.3.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
32599	catalase	+	1.11.1.6
116345	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
32599	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
32599	gelatinase	+
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
116345	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
116345	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

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
116345	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Infection	#Medical device
#Infection	#Medical environment

Isolation

@ref	Sample type	Sampling date	Country	Country ISO 3 Code	Continent	Isolation date
7944	transfer spike, physiological saline flask in a health care center		Portugal	PRT	Europe
67772	Surface of bottles of saline solution used in wound cleansing	2005	Portugal	PRT	Europe
116345	Saline flask		Portugal	PRT	Europe	2005

Taxonmaps

69479

Global distribution of 16S sequence EU240886 (>99% sequence identity) for Nosocomiicoccus ampullae subclade from Microbeatlas

Aquatic Samples	1152
Soil Samples	1543
Animal Samples	15338
Plant Samples	342
Total Samples	18375

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
7944	yes, in single cases	1	Risk group (German classification) According to TRBA 466
67772		1
116345		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
66792	ASM1935749v1 assembly for Nosocomiicoccus ampullae DSM 19163	complete	GCA_019357495	489910.8	8001616904	489910	91.39
66792	ASM1420259v1 assembly for Nosocomiicoccus ampullae DSM 19163	scaffold	GCA_014202595	489910.5	2861585789	489910	68.22
67772	ASM169668v1 assembly for Nosocomiicoccus ampullae LUREC	scaffold	GCA_001696685		2806310642	489910	61.87

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7944	Nosocomiicoccus ampullae strain TRF-1 16S ribosomal RNA gene, partial sequence	EU240886	1502		489910

GC content

7944

GC-content (mol%)33.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nosocomiicoccus ampullae strain DSM 19163
PATRIC: 489910.8

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	61.80	no
125439	motility	BacteriaNetⓘ	yes	57.70	no
125439	gram_stain	BacteriaNetⓘ	positive	73.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	73.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nosocomiicoccus ampullae DSM 19163
NCBI: GCA_019357495.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.95	yes
125438	anaerobic	anaerobicⓘ	no	94.97	yes
125438	aerobic	aerobicⓘ	yes	69.04	yes
125438	spore-forming	spore-formingⓘ	no	78.07	no
125438	thermophilic	thermophileⓘ	no	94.16	yes
125438	flagellated	motile2+ⓘ	no	89.30	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	How do spherical bacteria regulate cell division?	Ramos-Leon F, Ramamurthi KS.	Biochem Soc Trans	10.1042/bst20240956	2025
Genetics	Complete Genome Sequences of Two Nosocomiicoccus ampullae Strains and a Growth-Adapted Mutant.	Schuster CF, Sommer F, Strommenger B, Werner G, Layer F	Microbiol Resour Announc	10.1128/MRA.00747-21	2021
Phylogeny	Nosocomiicoccus ampullae gen. nov., sp. nov., isolated from the surface of bottles of saline solution used in wound cleansing.	Alves M, Nogueira C, de Magalhaes-Sant'ana A, Chung AP, Morais PV, da Costa MS	Int J Syst Evol Microbiol	10.1099/ijs.0.65753-0	2008

References

#7944	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19163
#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 )
#32599	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 #28812 (see below)
#39787	; Curators of the CIP;
#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) .
#67772	The University of Coimbra Bacteria Culture Collection (UCCCB) ; Curators of the UCCCB;
#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 .
#116345	Collection of Institut Pasteur ; Curators of the CIP; CIP 109506
#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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Nosocomiicoccus ampullae (DSM 19163, CIP 109506, LMG 24060)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Murein

Observation

Metabolite utilization

Metabolite production

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_019357495

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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