Name: Halothiobacillus neapolitanus c2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6089

Type strain:

Species: Halothiobacillus neapolitanus

Strain Designation: c2, ParkerX, X, X (X44)

Culture col. no.: DSM 15147, NCIMB 8539, CIP 104769

Strain history: CIP <- 1996, NCIMB <- Parker: strain X (X44)

NCBI tax ID(s): 927 (species)

SI-ID 311035

CIP 104769, NCIMB 8539, DSM 15147, NCIB 8539

Other strains from Halothiobacillus neapolitanus

H. neapolitanus C, DSM 581, NCIMB 11333
H. neapolitanus OSWA, DSM 16832, ATCC BAA-1086
H. neapolitanus JCM 3861, ATCC 23640, IAM 12116

Section

Halothiobacillus neapolitanus c2 is a chemoautolithotroph, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from Disintegrated concrete in sewer.

colony-forming
Gram-negative
motile
rod-shaped
chemoautolithotroph
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Chromatiales*
	Family	*Halothiobacillaceae*
	Genus	*Halothiobacillus*
	Species	**Halothiobacillus neapolitanus**
	Full Scientific Name (LPSN)	Halothiobacillus neapolitanus (Parker 1957) Kelly and Wood 2000

Synonym

Thiobacillus neapolitanus

Information on morphological and physiological properties Morphology

[Ref.: #43579]	Gram stain	negative
[Ref.: #121248]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #43579]	Cell length	1-1.5 µm

[Ref.: #43579]	Cell width	0.3-0.5 µm

[Ref.: #43579]	Cell shape	rod-shaped
[Ref.: #121248]	Cell shape	rod-shaped

[Ref.: #43579]	Motility	yes
[Ref.: #121248]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %90.625

[Ref.: #43579]	Colony size	1-2 mm
[Ref.: #43579]	Colony color	White, yellowing with age
[Ref.: #43579]	Colony shape	circular
[Ref.: #43579]	Cultivation medium used	Basal salts agr supplemented with thiosulfate

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5725]

Culture medium

HALOTHIOBACILLUS NEAPOLITANUS MEDIUM (DSMZ Medium 68)

[Ref.: #5725]

Culture medium growth

[Ref.: #5725]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5725]

Culture medium composition

expand / minimize

[Ref.: #41298]

Culture medium

MEDIUM 124 - for Thiobacillus

[Ref.: #41298]

Culture medium growth

[Ref.: #41298]

Culture medium composition

expand / minimize

[Ref.: #43579]

Culture medium

Basal salts agr supplemented with thiosulfate

[Ref.: #43579]

Culture medium growth

[Ref.: #121248]

Culture medium

CIP Medium 124

[Ref.: #121248]

Culture medium growth

[Ref.: #121248]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #121248]

Culture medium

CIP Medium 249

[Ref.: #121248]

Culture medium growth

[Ref.: #121248]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5725]		growth	25 °C
[Ref.: #41298]		growth	25 °C
[Ref.: #43579]		growth	8-39 °C
[Ref.: #43579]		optimum	28-32 °C
[Ref.: #121248]		growth	10-41 °C
[Ref.: #121248]	no	growth	5 °C

[Ref.: #5725]	Temperature range	mesophilic
[Ref.: #41298]	Temperature range	mesophilic
[Ref.: #43579]	Temperature range	mesophilic
[Ref.: #121248]	Temperature range	psychrophilic

	pH	Kind of pH		pH
[Ref.: #43579]			optimum	6.5-6.9
[Ref.: #43579]			growth	3-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43579]

Nutrition type

chemoautolithotroph

[Ref.: #43579]	Type of spore	endospore
[Ref.: #43579]	Ability of spore formation	no
[Ref.: #43579]	Type of spore	exospore (microbial cyst)
[Ref.: #43579]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43579]		NaCl		optimum	0-0.860	M

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43579]	ammonium ChEBI	+	nitrogen source
[Ref.: #43579]	dioxygen ChEBI	+	electron acceptor
[Ref.: #43579]	dithionite ChEBI	-	electron donor
[Ref.: #43579]	elemental sulfur ChEBI	+	electron donor
[Ref.: #121248]	esculin ChEBI	-	hydrolysis
[Ref.: #43579]	nitrate ChEBI	-	reduction
[Ref.: #43579]	nitrate ChEBI	+	nitrogen source
[Ref.: #121248]	nitrate ChEBI	-	reduction
[Ref.: #43579]	nitrite ChEBI	+	nitrogen source
[Ref.: #121248]	nitrite ChEBI	-	reduction
[Ref.: #43579]	sulfide ChEBI	+	electron donor
[Ref.: #43579]	sulfite ChEBI	-	electron donor
[Ref.: #43579]	tetrathionate ChEBI	+	electron donor
[Ref.: #43579]	thiocyanate ChEBI	-	electron donor
[Ref.: #43579]	thiosulfate ChEBI	+	electron donor
[Ref.: #43579]	trithionate ChEBI	+	electron donor
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #121248]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #43579]		elemental sulfur ChEBI	yes
[Ref.: #121248]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #121248]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #121248]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #121248]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #121248]	gelatinase	-
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #121248]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #121248]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #121248]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #121248]	tryptophan deaminase	-
[Ref.: #121248]	tween esterase	+
[Ref.: #121248]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #121248]	8184	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #5725]	Sample type/isolated from	Disintegrated concrete in sewer
[Ref.: #5725]	Geographic location (country and/or sea, region)	Melbourne
[Ref.: #5725]	Country	Australia
[Ref.: #5725]	Country ISO 3 Code	AUS
[Ref.: #5725]	Continent	Australia and Oceania

[Ref.: #43579]	Sample type/isolated from	Concrete in early stages of corrosion from sewers
[Ref.: #43579]	Geographic location (country and/or sea, region)	Melbourne, Victoria
[Ref.: #43579]	Country	Australia
[Ref.: #43579]	Country ISO 3 Code	AUS
[Ref.: #43579]	Continent	Australia and Oceania

[Ref.: #121248]	Sample type/isolated from	Disintegrated concrete in outfall sewer
[Ref.: #121248]	Geographic location (country and/or sea, region)	South East
[Ref.: #121248]	Country	Australia
[Ref.: #121248]	Country ISO 3 Code	AUS
[Ref.: #121248]	Continent	Australia and Oceania
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Engineered product
#Engineered	#Waste	#Wastewater
#Engineered	#Built environment	-
#Engineered	#Waste	#Sewage sludge

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence NR_104929 (>99% sequence identity) for Halothiobacillus neapolitanus subclade from Microbeatlas

Aquatic Samples	391
Soil Samples	80
Animal Samples	30
Plant Samples	14
Total Samples	515

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #5725]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121248]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #5725]	Halothiobacillus neapolitanus strain NCIMB 8539 16S ribosomal RNA (rrs) gene, partial sequence	JF416645	1379	ENA	927 tax ID
[Ref.: #5725]	Halothiobacillus neapolitanus strain Parker strain X 16S ribosomal RNA, partial sequence	NR_104929	1533	GenBank	927 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halothiobacillus neapolitanus c2	GCA_000024765	complete	GenBank	555778 tax ID	*
[Ref.: #66792]	Halothiobacillus neapolitanus DSM 15147	GCA_004361875	scaffold	GenBank	927 tax ID	*
[Ref.: #66792]	Halothiobacillus neapolitanus c2	555778.5	complete	PATRIC	555778 tax ID	*
[Ref.: #66792]	Halothiobacillus neapolitanus strain DSM 15147	927.3	wgs	PATRIC	927 tax ID	*
[Ref.: #66792]	Halothiobacillus neapolitanus DSM 15147	2756170244	draft	JGI IMG/M	927 tax ID	*

[Ref.: #5725]	GC-content	56 mol%
[Ref.: #43579]	GC-content	54.7 mol%	genome sequence analysis
[Ref.: #5725]	GC-content	54.7 mol%	sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Halothiobacillus neapolitanus strain DSM 15147 PATRIC: 927.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halothiobacillus neapolitanus c2 c2 NCBI: GCA_000024765.1
[Ref.: #69480]	motile	yes	89.842	yes
[Ref.: #69480]	flagellated	yes	63.548	no
[Ref.: #69480]	gram-positive	no	97.787	yes
[Ref.: #69480]	anaerobic	no	96.671	no
[Ref.: #69480]	aerobic	yes	54.102	no
[Ref.: #69480]	halophile	no	73.75	no
[Ref.: #69480]	spore-forming	no	97.155	yes
[Ref.: #69480]	glucose-util	yes	51.449	no
[Ref.: #69480]	thermophile	no	93.168	no
[Ref.: #69480]	glucose-ferment	no	85.722	no

Availability in culture collections External links

[Ref.: #5725]

Culture collection no.

DSM 15147, NCIMB 8539, CIP 104769

[Ref.: #75577]

SI-ID 311035

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Cultivation	Key internal factors leading to the variability in CO2 fixation efficiency of different sulfur-oxidizing bacteria during autotrophic cultivation.	Wang YN, Kai Y, Wang L, Tsang YF, Fu X, Hu J, Xie Y	J Environ Manage	10.1016/j.jenvman.2020.110957	2020	*
Cultivation	Inhibitory effect of self-generated extracellular dissolved organic carbon on carbon dioxide fixation in sulfur-oxidizing bacteria during a chemoautotrophic cultivation process and its elimination.	Wang YN, Tsang YF, Wang L, Fu X, Hu J, Li H, Le Y	Bioresour Technol	10.1016/j.biortech.2017.12.089	2017	*
Metabolism	Response of cbb gene transcription levels of four typical sulfur-oxidizing bacteria to the CO2 concentration and its effect on their carbon fixation efficiency during sulfur oxidation.	Wang YN, Wang L, Tsang YF, Fu X, Hu J, Li H, Le Y	Enzyme Microb Technol	10.1016/j.enzmictec.2016.06.015	2016	*
Phylogeny	Phylogenetic assessment of culture collection strains of Thiobacillus thioparus, and definitive 16S rRNA gene sequences for T. thioparus, T. denitrificans, and Halothiobacillus neapolitanus.	Boden R, Cleland D, Green PN, Katayama Y, Uchino Y, Murrell JC, Kelly DP	Arch Microbiol	10.1007/s00203-011-0747-0	2011	*
Phylogeny	Bacteria involved in sulfur amendment oxidation and acidification processes of alkaline 'alperujo' compost.	Garcia-de-la-Fuente R, Cuesta G, Sanchis-Jimenez E, Botella S, Abad M, Fornes F	Bioresour Technol	10.1016/j.biortech.2010.09.103	2010	*
Metabolism	[Corrosion of pipe steel samples and conjugated conversion of sulfur compounds by thiobacteria Halothiobacillus neapolitanus DSM 15147].	Vatsurina AV, Esikova TZ, Kholodenko VP, Vainshtein MB, Dubkova VI	Prikl Biokhim Mikrobiol		2005	*

References

#5725

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15147

#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 )

#41298 ; Curators of the CIP;

#43579

Rich Boden: Reclassification of Halothiobacillus hydrothermalis and Halothiobacillus halophilus to Guyparkeria gen. nov. in the Thioalkalibacteraceae fam. nov., with emended descriptions of the genus Halothiobacillus and family Halothiobacillaceae. IJSEM 67: 3919 - 3928 2017 ( DOI 10.1099/ijsem.0.002222 , PubMed 28884673 )

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#75577

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-ID311035.1 )

#121248 Collection of Institut Pasteur ; Curators of the CIP; CIP 104769
* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Halothiobacillus neapolitanus in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Halothiobacillus neapolitanus strain DSM 15147

Halothiobacillus neapolitanus c2 c2

Change proposal

Change proposal