Niabella aurantiaca (DSM 17617, CIP 109580, KACC 11698)

Name: Niabella aurantiaca (DSM 17617, CIP 109580, KACC 11698)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17758

Type strain

Strain Designation R2A15-11

Culture col. no. DSM 17617 CIP 109580 KACC 11698 R2A15-11

NCBI tax ID(s) 1122605 379900

Special Collections DSMZ CIP Literature strains

Links

Niabella aurantiaca R2A15-11 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from greenhouse soil.

Gram-negative rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 297283

DSM 17617,KACC 11698,CIP 109580

@ref 20215

Last LPSN update 2025-12-16 09:51:10

Domain Pseudomonadati

Phylum Bacteroidota

Class Chitinophagia

Order Chitinophagales

Family Chitinophagaceae

Genus Niabella

Species Niabella aurantiaca

Full scientific name Niabella aurantiaca Kim et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
31897	negative	1.25 µm	0.8 µm	rod-shaped
125438
125438	negative
125439	negative
116554	negative			oval-shaped

Pigmentation

31897

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7090	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
33310	MEDIUM 372 - for Aquabacterium		Distilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.050 g);Agar (15.000 g);Glucose (0.500 g);Yeast extract (0.500 g);Pyruvic acid (0.300g);Tween 80 (1.000 ml);Casamino acids (0.500 g);Proteose Peptone N°3 (0.500 g);Di Potassium mon
116554	CIP Medium 372	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7090	positive	growth	28	mesophilic
31897	positive	growth	10-35
31897	positive	optimum	27.5	mesophilic
33310	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
31897	positive	optimum	6.5
31897	positive	growth	5.0-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
31897	aerobe
116554	obligate aerobe

Spore formation

31897

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31897	NaCl	positive	growth	0-3 %
31897	NaCl	positive	optimum	1.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
31897	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
31897	17306 ChEBI	maltose	+	carbon source
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
31897	28053 ChEBI	melibiose	+	carbon source
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
116554	17632 ChEBI	nitrate	-	reduction
116554	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
31897	26546 ChEBI	rhamnose	+	carbon source
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
31897	17814 ChEBI	salicin	+	carbon source
31897	17992 ChEBI	sucrose	+	carbon source
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
31897	35581 ChEBI	indole
116554	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
31897	35581 ChEBI	indole	+

Enzymes

@ref	Value	Activity	Ec
31897	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
31897	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
31897	alpha-galactosidase	+	3.2.1.22
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
31897	catalase	+	1.11.1.6
116554	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
31897	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
116554	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
116554	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
116554	-	+	+	+	-	+	-	-	-	-	+	+	+	+	-	+	+	+	+	+

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
116554	not determinedn.d.	-	-	+/-	+/-	-	+/-	-	-	-	+/-	+/-	+/-	+/-	-	-	-	-	-	-	+/-	+/-	+/-	+/-	+/-	+	+/-	+/-	+/-	+/-	+/-	+/-	+/-	-	-	+/-	+/-	-	-	+/-	+/-	+/-	-	-	+/-	-	-	-	-	+/-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Greenhouse
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7090	greenhouse soil	Yeoju region	Republic of Korea	KOR	Asia
116554	Environment, Soil, greenhouse	Yeoju region	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ457019 (>99% sequence identity) for Niabella aurantiaca subclade from Microbeatlas

Aquatic Samples	291
Soil Samples	340
Animal Samples	214
Plant Samples	164
Total Samples	1009

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7090	1	Risk group (German classification) According to TRBA 466
116554	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	ASM37412v1 assembly for Niabella aurantiaca DSM 17617	scaffold	GCA_000374125	1122605.3	2515154175	1122605	73.56

Genome browser: GCA_000374125

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7090	Niabella aurantiaca strain R2A15-11 16S ribosomal RNA gene, partial sequence	DQ457019	1465		379900

GC content

@ref	GC-content (mol%)
7090	45.0
31897	45
7090	48.6

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Niabella aurantiaca DSM 17617
NCBI: GCA_000374125

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	87.70	no
125439	motility	BacteriaNetⓘ	no	60.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	61.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Niabella aurantiaca DSM 17617 DSM 17617
NCBI: GCA_000374125.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	92.62	yes
125438	anaerobic	anaerobicⓘ	no	97.67	yes
125438	aerobic	aerobicⓘ	yes	87.60	yes
125438	spore-forming	spore-formingⓘ	no	89.41	yes
125438	thermophilic	thermophileⓘ	no	98.43	yes
125438	flagellated	motile2+ⓘ	no	92.00	yes

Literature

Title	Authors	Journal	DOI	Year
Characterization and structural study of a novel beta-N-acetylgalactosaminidase from Niabella aurantiaca.	Moreno Prieto ES, Fjermedal S, Siebenhaar S, Vuillemin M, Holck J, Vincentelli R, Gippert GP, Wilkens C, Morth JP, Henrissat B.	FEBS J	10.1111/febs.17042	2024
Discovery of novel carbohydrate-active enzymes through the rational exploration of the protein sequences space.	Helbert W, Poulet L, Drouillard S, Mathieu S, Loiodice M, Couturier M, Lombard V, Terrapon N, Turchetto J, Vincentelli R, Henrissat B.	Proc Natl Acad Sci U S A	10.1073/pnas.1815791116	2019
Biochemical characterisation of four rhamnosidases from thermophilic bacteria of the genera Thermotoga, Caldicellulosiruptor and Thermoclostridium.	Baudrexl M, Schwarz WH, Zverlov VV, Zverlov VV, Liebl W.	Sci Rep	10.1038/s41598-019-52251-0	2019
Niabella aquatica sp. nov., isolated from lake water.	Siddiqi MZ, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.001053	2016
Niabella ginsengisoli sp. nov., isolated from soil cultivated with Korean ginseng.	Weon HY, Yoo SH, Kim BY, Son JA, Kim YJ, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.004333-0	2009
Sediminibacterium salmoneum gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from sediment of a eutrophic reservoir.	Qu JH, Yuan HL	Int J Syst Evol Microbiol	10.1099/ijs.0.65514-0	2008
Niabella soli sp. nov., isolated from soil from Jeju Island, Korea.	Weon HY, Kim BY, Joa JH, Kwon SW, Kim WG, Koo BS	Int J Syst Evol Microbiol	10.1099/ijs.0.65304-0	2008
Niabella aurantiaca gen. nov., sp. nov., isolated from a greenhouse soil in Korea.	Kim BY, Weon HY, Yoo SH, Hong SB, Kwon SW, Stackebrandt E, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64614-0	2007

References

#7090	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17617
#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 )
#31897	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 #28155 (see below)
#33310	; 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) .
#68371	Automatically annotated from API 50CH acid .
#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 .
#116554	Collection of Institut Pasteur ; Curators of the CIP; CIP 109580
#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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Niabella aurantiaca (DSM 17617, CIP 109580, KACC 11698)

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

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000374125

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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