Name: Nitratireductor aquibiodomus NL21
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11871

Type strain:

Species: Nitratireductor aquibiodomus

Strain Designation: NL21

Culture col. no.: DSM 15645, ATCC BAA-762, JCM 21793, CGMCC 1.8928, IAM 15348

Strain history: IAM 15348 <-- DSM 15645 <-- R. Villemur NL21 <-- N. Labbé.

NCBI tax ID(s): 1231185 (strain), 204799 (species)

SI-ID 130846

ATCC BAA-762, DSM 15645, JCM 21793, IAM 15348

Section

Nitratireductor aquibiodomus NL21 is a facultative aerobe, mesophilic, Gram-negative bacterium that was isolated from marine denitrification system.

Gram-negative
motile
rod-shaped
facultative aerobe
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	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Phyllobacteriaceae*
	Genus	*Nitratireductor*
	Species	**Nitratireductor aquibiodomus**
	Full Scientific Name (LPSN)	Nitratireductor aquibiodomus Labbé et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #29988]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.969

[Ref.: #29988]	Cell length	2.0-3.0 µm

[Ref.: #29988]	Cell width	1 µm

[Ref.: #29988]	Cell shape	rod-shaped

[Ref.: #29988]	Motility	yes

[Ref.: #29988]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6015]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #6015]

Culture medium growth

[Ref.: #6015]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6015]

Culture medium composition

expand / minimize

[Ref.: #6015]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #6015]

Culture medium growth

[Ref.: #6015]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6015]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6015]	growth	28 °C
[Ref.: #29988]	growth	30-35 °C
[Ref.: #29988]	optimum	32.5 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #6015]	Temperature range	mesophilic
[Ref.: #29988]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29988]			optimum	7.25
[Ref.: #29988]			growth	7-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29988]

Oxygen tolerance

facultative aerobe

[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.: #29988]		NaCl		growth	1.0-5.0	%
[Ref.: #29988]		NaCl		optimum	1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29988]	adipate ChEBI	+	carbon source
[Ref.: #29988]	citrate ChEBI	+	carbon source
[Ref.: #29988]	malate ChEBI	+	carbon source
[Ref.: #29988]	nitrate ChEBI	+	reduction

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29988]		catalase	+	1.11.1.6
[Ref.: #29988]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #6015]	Sample type/isolated from	marine denitrification system
[Ref.: #6015]	Geographic location (country and/or sea, region)	Montreal
[Ref.: #6015]	Country	Canada
[Ref.: #6015]	Country ISO 3 Code	CAN
[Ref.: #6015]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Water of the Montréal Biodôme
[Ref.: #67770]	Country	Canada
[Ref.: #67770]	Country ISO 3 Code	CAN
[Ref.: #67770]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF534573 (>99% sequence identity) for Nitratireductor from Microbeatlas

Aquatic Samples	1046
Soil Samples	144
Animal Samples	279
Plant Samples	53
Total Samples	1522

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

[Ref.: #6015]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #6015]	Nitratireductor aquibiodomus NL21 16S ribosomal RNA gene, partial sequence	AF534573	1456	ENA	1231185 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nitratireductor aquibiodomus NL21 = JCM 21793	GCA_000615975	contig	GenBank	1231185 tax ID
[Ref.: #66792]	Nitratireductor aquibiodomus NL21 = JCM 21793	1231185.4	wgs	PATRIC	1231185 tax ID	*
[Ref.: #66792]	Nitratireductor aquibiodomus JCM 21793	2585427885	draft	JGI IMG/M	1231185 tax ID	*

[Ref.: #6015]	GC-content	57 mol%
[Ref.: #67770]	GC-content	57 mol%	high performance liquid chromatography (HPLC)

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: Nitratireductor aquibiodomus NL21 = JCM 21793 PATRIC: 1231185.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nitratireductor aquibiodomus NL21 = JCM 21793 PATRIC: 1231185.4
[Ref.: #69480]	motile	yes	90.56	yes
[Ref.: #69480]	gram-positive	no	98.28	yes
[Ref.: #69480]	anaerobic	no	98.703	yes
[Ref.: #69480]	aerobic	yes	96.654	no
[Ref.: #69480]	halophile	yes	59.001	no
[Ref.: #69480]	spore-forming	no	97.731	no
[Ref.: #69480]	thermophile	no	93.24	yes
[Ref.: #69480]	glucose-util	yes	94.137	no
[Ref.: #69480]	flagellated	no	61.184	no
[Ref.: #69480]	glucose-ferment	no	89.773	no

Availability in culture collections External links

[Ref.: #6015]

Culture collection no.

DSM 15645, ATCC BAA-762, JCM 21793, CGMCC 1.8928, IAM 15348

[Ref.: #81089]

SI-ID 130846

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nitratireductor lacus sp. nov., isolated from Yuncheng Salt Lake, China.	Yu Z, Zhuang L, Pan J, Wang Y, Zhou S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001453	2016	*
Phylogeny	Nitratireductor kimnyeongensis sp. nov., isolated from seaweed.	Kang HS, Yang HL, Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.65734-0	2009	*
Phylogeny	Nitratireductor aquibiodomus gen. nov., sp. nov., a novel alpha-proteobacterium from the marine denitrification system of the Montreal Biodome (Canada).	Labbe N, Parent S, Villemur R	Int J Syst Evol Microbiol	10.1099/ijs.0.02793-0	2004	*

References

#6015

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15645

#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 )

#29988

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 #26355 (see below)

#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;

#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 )

#81089

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-ID130846.1 )

#26355

IJSEM 269 2004 ( DOI 10.1099/ijs.0.02793-0 , PubMed 14742492 )

* These data were automatically processed and therefore are not curated

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Nitratireductor aquibiodomus NL21 = JCM 21793

Nitratireductor aquibiodomus NL21 = JCM 21793

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