Cite this strain

Pacificitalea manganoxidans (DSM 27541, JCM 19384, KCTC 32473)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132282

Type strain

Strain Designation DY2-5, DY2–5

Culture col. no. DSM 27541 JCM 19384 KCTC 32473 DY2-5 DY2–5

NCBI tax ID(s) 1411902

Special Collections DSMZ JCM KCTC

Links

Name and taxonomic classification

Pacificitalea manganoxidans DY2-5 is a mesophilic bacterium that was isolated from deep-sea surface sediment of a polymetallic nodule province.

mesophilic genome sequence 16S sequence Bacteria

SI-ID 405702

DSM 27541

Last LPSN update 2024-12-09 10:49:08

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Pacificitalea

Species Pacificitalea manganoxidans

Full scientific name Pacificitalea manganoxidans (Wang et al. 2015) Hördt et al. 2020

Synonyms (1)

Celeribacter manganoxidans

Morphology

Multimedia

@ref:	24071
manual_annotation:	1
multimedia content:	DSM_27541.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_27541.jpg
intellectual property rights:	© Leibniz-Institut DSMZ

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24071	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
24071	positive	growth	28	mesophilic
67770	positive	growth	30	mesophilic

Physiology and metabolism

Observation

67770

Observationquinones: Q-10

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68382	cystine arylamidase	-	3.4.11.3	from API zym
68369	gelatinase	-		from API 20NE
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
68382	trypsin	-	3.4.21.4	from API zym
68369	urease	+	3.5.1.5	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	+	hydrolysis	from API 20NE

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
24071	-	-	+/-	+/-	-	+	+/-	-	-	-	-	-	-	-	-	+	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
24071	-	-	-	-	+	+	-	+/-	+	-	-	+	-	+/-	-	-	-	+	+	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
24071	deep-sea surface sediment of a polymetallic nodule province	eastern equatorial Pacific Ocean, Clarion-Clippert Fracture Zone	China	CHN	Asia	-4.5167	-102.933 -4.5167/-102.933
67770	Surface sediment of Pacific Clarion-Clipperton Fracture Zone

Taxonmaps

69479

Global distribution of 16S sequence KF356415 (>99% sequence identity) for Celeribacter manganoxidans subclade from Microbeatlas

Aquatic Samples	671
Soil Samples	9
Animal Samples	20
Plant Samples	2
Total Samples	702

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
24071	1	Risk group (German classification)

Sequence information

GC content

@ref	GC-content (mol%)	Method
24071	64.8	high performance liquid chromatography (HPLC)

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24071	Celeribacter manganoxidans strain DY2-5 16S ribosomal RNA gene, partial sequence	KF356415	1419		1411902

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Celeribacter manganoxidans DSM 27541	2828402302	draft	JGI IMG/M	1411902

Genome-based predictions

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Celeribacter manganoxidans sp. nov., a manganese-oxidizing bacterium isolated from deep-sea sediment of a polymetallic nodule province.	Wang L, Liu Y, Wang Y, Dai X, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000558	2015

Straininfo Link

@ref	Straininfo	Culture collections
90629	405702	DSM 27541

Culture collection no.

Culture collection no.
DSM 27541
JCM 19384
KCTC 32473
DY2-5
DY2–5

References

#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 )
#24071	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27541
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68369	Automatically annotated from API 20NE .
#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 .
#90629	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID405702.1 )

Rate our new design

Content

About us