Name: Niveispirillum irakense KBC 1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 13995

Type strain:

Species: Niveispirillum irakense

Strain Designation: KBC 1, KBC1

Culture col. no.: DSM 11586, ATCC 51182, CIP 103311, CCUG 30621, LMG 10653, BCRC 15764

Strain history: CIP <- 1992, P.A.D. Grimont, Inst. Pasteur, Paris, France -> K.M. Khammas, Al-Mustansirya Univ., Bagdad, Iraq: strain KBC1

NCBI tax ID(s): 1121034 (strain), 34011 (species)

SI-ID 1059

LMG 10653, CIP 103311, ATCC 51182, CCUG 30621, DSM 11586, BCRC 15764, CCRC 15764, NCAIM B.01939

Section

Niveispirillum irakense KBC 1 is a mesophilic, motile bacterium that was isolated from rice roots .

motile
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	*Rhodospirillales*
	Family	*Azospirillaceae*
	Genus	*Niveispirillum*
	Species	**Niveispirillum irakense**
	Full Scientific Name (LPSN)	Niveispirillum irakense (Khammas et al. 1991) Hördt et al. 2020

	Synonym	Azospirillum irakense
	Synonym	"Niveispirillum* irakense"*

Information on morphological and physiological properties Morphology

[Ref.: #120279]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.806

[Ref.: #120279]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %96.048

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4332]

Culture medium

DIAZOTROPHIC MEDIUM (RBA) (DSMZ Medium 441)

[Ref.: #4332]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #4332]

Culture medium composition

expand / minimize

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Culture medium

HETEROTROPHIC MEDIUM H3P (DSMZ Medium 428)

[Ref.: #4332]

Culture medium growth

[Ref.: #4332]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4332]

Culture medium composition

expand / minimize

[Ref.: #4332]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #4332]

Culture medium growth

[Ref.: #4332]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4332]

Culture medium composition

expand / minimize

[Ref.: #40597]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #40597]

Culture medium growth

[Ref.: #40597]

Culture medium composition

expand / minimize

[Ref.: #120279]

Culture medium

CIP Medium 72

[Ref.: #120279]

Culture medium growth

[Ref.: #120279]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #4332]		growth	30 °C
[Ref.: #40597]		growth	30 °C
[Ref.: #50184]		growth	30 °C
[Ref.: #120279]		growth	30 °C
[Ref.: #120279]	no	growth	10 °C

[Ref.: #4332]	Temperature range	mesophilic
[Ref.: #40597]	Temperature range	mesophilic
[Ref.: #50184]	Temperature range	mesophilic
[Ref.: #120279]	Temperature range	mesophilic
[Ref.: #120279]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.925

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #120279]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #120279]	nitrite ChEBI	-	reduction
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #120279]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #120279]	beta-galactosidase	+	3.2.1.23
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #120279]	gelatinase	-
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #120279]	lysine decarboxylase	-	4.1.1.18
[Ref.: #120279]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #120279]	urease	-	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #50184]

Fatty acid	Percentage	ECL
C18:1 ω7c /12t/9t	43.7	17.824
C18:1 2OH	12.3	19.088
C16:1 ω5c	10.1	15.908
C16:0 3OH	9.2	17.52
C14:0 3OH/C16:1 ISO I	5.6	15.485
C16:0	5	16
C16:1 ω7c	4.2	15.819
Unidentified	3.2
C12:0	2.4	12
C19:0 CYCLO ω8c	2	18.9
C17:1 ω6c	1.3	16.862
C13:0 ISO 2OH	1.1	13.814

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #50184]	7570	+	-	-	-	-	+	-	+	+	+	+	-	+	+	-	+	-	+	-	-	+

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

[Ref.: #4332]	Sample type/isolated from	rice roots (Oryza sativa)
[Ref.: #4332]	Host species	Oryza sativa
[Ref.: #4332]	Geographic location (country and/or sea, region)	Diwaniyah
[Ref.: #4332]	Country	Iraq
[Ref.: #4332]	Country ISO 3 Code	IRQ
[Ref.: #4332]	Continent	Asia

[Ref.: #50184]	Sample type/isolated from	Oryza sativa,roots

[Ref.: #120279]	Sample type/isolated from	Plant, Rice roots
[Ref.: #120279]	Country	Iraq
[Ref.: #120279]	Country ISO 3 Code	IRQ
[Ref.: #120279]	Continent	Asia
[Ref.: #120279]	Isolation date	1987
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GU256440 (>99% sequence identity) for Niveispirillum from Microbeatlas

Aquatic Samples	206
Soil Samples	26
Animal Samples	50
Plant Samples	34
Total Samples	316

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

[Ref.: #4332]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #120279]	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.: #20218]	Azospirillum irakense strain DSM 11586 16S ribosomal RNA gene, partial sequence	GU256440	1405	ENA	34011 tax ID	*
[Ref.: #20218]	A.irakense (KBC1) 16S ribosomal RNA	Z29583	1418	ENA	34011 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Niveispirillum irakense DSM 11586	GCA_000429645	scaffold	GenBank	1121034 tax ID	*
[Ref.: #66792]	Azospirillum irakense DSM 11586	1121034.3	wgs	PATRIC	1121034 tax ID	*
[Ref.: #66792]	Niveispirillum irakense DSM 11586	2524023250	draft	JGI IMG/M	1121034 tax ID	*

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: Niveispirillum irakense DSM 11586 DSM 11586 NCBI: GCA_000429645.1
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Niveispirillum irakense DSM 11586 DSM 11586 NCBI: GCA_000429645.1
[Ref.: #69480]	motile	yes	83.948	no
[Ref.: #69480]	flagellated	no	55.429	no
[Ref.: #69480]	gram-positive	no	98.273	no
[Ref.: #69480]	anaerobic	no	98.591	no
[Ref.: #69480]	aerobic	yes	88.602	no
[Ref.: #69480]	halophile	no	93.353	no
[Ref.: #69480]	spore-forming	no	92.526	no
[Ref.: #69480]	thermophile	no	97.384	no
[Ref.: #69480]	glucose-util	yes	91.065	no
[Ref.: #69480]	glucose-ferment	no	89.281	no

Availability in culture collections External links

[Ref.: #4332]

Culture collection no.

DSM 11586, ATCC 51182, CIP 103311, CCUG 30621, LMG 10653, BCRC 15764

[Ref.: #83166]

SI-ID 1059

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Niveispirillum lacus sp. nov., isolated from cyanobacterial aggregates in a eutrophic lake.	Cai H, Cui H, Zeng Y, Wang Y, Jiang H	Int J Syst Evol Microbiol	10.1099/ijsem.0.002526	2017	*
Phylogeny	Description of Niveispirillum fermenti gen. nov., sp. nov., isolated from a fermentor in Taiwan, transfer of Azospirillum irakense (1989) as Niveispirillum irakense comb. nov., and reclassification of Azospirillum amazonense (1983) as Nitrospirillum amazonense gen. nov.	Lin SY, Hameed A, Shen FT, Liu YC, Hsu YH, Shahina M, Lai WA, Young CC	Antonie Van Leeuwenhoek	10.1007/s10482-014-0176-6	2014	*
Phylogeny	Rapid detection and identification of the free-living nitrogen fixing genus Azospirillum by 16S rRNA-gene-targeted genus-specific primers.	Lin SY, Shen FT, Young CC	Antonie Van Leeuwenhoek	10.1007/s10482-011-9558-1	2011	*
Phylogeny	Azospirillum irakense sp. nov., a nitrogen-fixing bacterium associated with rice roots and rhizosphere soil.	Khammas KM, Ageron E, Grimont PA, Kaiser P	Res Microbiol	10.1016/0923-2508(89)90199-x	1989	*

References

#4332

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11586

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#40597 ; Curators of the CIP;
#50184 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30621

#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) .

#68369

Automatically annotated from API 20NE .

#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 )

#83166

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-ID1059.1 )

#120279 Collection of Institut Pasteur ; Curators of the CIP; CIP 103311
* These data were automatically processed and therefore are not curated

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Niveispirillum irakense DSM 11586 DSM 11586

Niveispirillum irakense DSM 11586 DSM 11586

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