Name: Niabella hibiscisoli THG-DN5.5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133388

Type strain:

Species: Niabella hibiscisoli

Strain Designation: THG-DN5.5

Culture col. no.: KACC 18857, CCTCC AB 2016086

NCBI tax ID(s): 1825928 (species)

Section

Niabella hibiscisoli THG-DN5.5 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and has a yellow pigmentation.

colony-forming
Gram-negative
pigmented
rod-shaped
aerobe
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	*Bacteroidota*
	Class	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Niabella*
	Species	**Niabella hibiscisoli**
	Full Scientific Name (LPSN)	Niabella hibiscisoli Ngo et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #25286]	Gram stain	negative

[Ref.: #25286]	Cell length	1.3-1.9 µm

[Ref.: #25286]	Cell width	0.7-0.8 µm

[Ref.: #25286]	Cell shape	rod-shaped

[Ref.: #25286]	Motility	no

[Ref.: #25286]	Colony size	0.5-1.5 mm
[Ref.: #25286]	Colony color	yellow
[Ref.: #25286]	Colony shape	circular
[Ref.: #25286]	Cultivation medium used	PTYG

[Ref.: #25286]	Pigment production	yes
[Ref.: #25286]	Pigmentation color	yellow
[Ref.: #25286]	Pigment name	Flexirubin-type

Information on culture and growth conditions Culture and growth conditions

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Culture medium

R2A (Difco)

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

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Culture medium

tryptone soy agar (TSA; Oxoid)

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Culture medium growth

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Culture medium

MacConkey agar (Oxoid)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #25286]			growth	4-40 °C
[Ref.: #25286]			optimum	25-35 °C

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Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25286]		NaCl		growth	0.0-2.0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #25286]	2-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #25286]	3-hydroxybenzoate ChEBI	-	carbon source
[Ref.: #25286]	3-hydroxybutyrate ChEBI	-	carbon source
[Ref.: #25286]	4-hydroxybenzoate ChEBI	-	carbon source
[Ref.: #25286]	5-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #25286]	adipate ChEBI	-	assimilation
[Ref.: #25286]	butyrate ChEBI	-	assimilation
[Ref.: #25286]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #25286]	casein	+	hydrolysis
[Ref.: #25286]	chitin ChEBI	-	hydrolysis
[Ref.: #25286]	citrate ChEBI	-	assimilation
[Ref.: #25286]	D-glucose ChEBI	+	assimilation
[Ref.: #25286]	D-mannitol ChEBI	-	assimilation
[Ref.: #25286]	D-mannose ChEBI	+	assimilation
[Ref.: #25286]	D-ribose ChEBI	+	carbon source
[Ref.: #25286]	D-sorbitol ChEBI	-	carbon source
[Ref.: #25286]	dna ChEBI	-	hydrolysis
[Ref.: #25286]	esculin ChEBI	+	hydrolysis
[Ref.: #25286]	gelatin ChEBI	+	hydrolysis
[Ref.: #25286]	gluconate ChEBI	+	assimilation
[Ref.: #25286]	glucose ChEBI	-	builds acid from
[Ref.: #25286]	glycogen ChEBI	+	carbon source
[Ref.: #25286]	itaconate ChEBI	-	carbon source
[Ref.: #25286]	L-alanine ChEBI	-	carbon source
[Ref.: #25286]	L-arabinose ChEBI	+	assimilation
[Ref.: #25286]	L-fucose ChEBI	+	carbon source
[Ref.: #25286]	L-histidine ChEBI	-	carbon source
[Ref.: #25286]	L-proline ChEBI	+	carbon source
[Ref.: #25286]	L-rhamnose ChEBI	+	carbon source
[Ref.: #25286]	L-serine ChEBI	-	carbon source
[Ref.: #25286]	L-tyrosine ChEBI	+	hydrolysis
[Ref.: #25286]	lactate ChEBI	-	carbon source
[Ref.: #25286]	malate ChEBI	-	assimilation
[Ref.: #25286]	maltose ChEBI	+	assimilation
[Ref.: #25286]	melibiose ChEBI	+	carbon source
[Ref.: #25286]	myo-inositol ChEBI	-	carbon source
[Ref.: #25286]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #25286]	nitrate ChEBI	-	reduction
[Ref.: #25286]	phenylacetate ChEBI	-	assimilation
[Ref.: #25286]	propionate ChEBI	-	carbon source
[Ref.: #25286]	salicin ChEBI	+	carbon source
[Ref.: #25286]	sodium acetate ChEBI	-	carbon source
[Ref.: #25286]	sodium citrate ChEBI	-	carbon source
[Ref.: #25286]	sodium malonate ChEBI	-	carbon source
[Ref.: #25286]	starch ChEBI	+	hydrolysis
[Ref.: #25286]	suberic acid ChEBI	-	carbon source
[Ref.: #25286]	sucrose ChEBI	+	carbon source
[Ref.: #25286]	tryptophan ChEBI	-	energy source
[Ref.: #25286]	tween 20 ChEBI	+	hydrolysis
[Ref.: #25286]	tween 80 ChEBI	+	hydrolysis
[Ref.: #25286]	urea ChEBI	-	hydrolysis
[Ref.: #25286]	valerate ChEBI	-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #25286]		indole ChEBI	no

	Physiological tests	Metabolite	Indole test
[Ref.: #25286]		indole ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #25286]	acid phosphatase	+	3.1.3.2
[Ref.: #25286]	alkaline phosphatase	+	3.1.3.1
[Ref.: #25286]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #25286]	alpha-fucosidase	+	3.2.1.51
[Ref.: #25286]	alpha-galactosidase	+	3.2.1.22
[Ref.: #25286]	alpha-glucosidase	+	3.2.1.20
[Ref.: #25286]	alpha-mannosidase	+	3.2.1.24
[Ref.: #25286]	arginine dihydrolase	-	3.5.3.6
[Ref.: #25286]	beta-galactosidase	+	3.2.1.23
[Ref.: #25286]	beta-glucosidase	+	3.2.1.21
[Ref.: #25286]	beta-glucuronidase	+	3.2.1.31
[Ref.: #25286]	cystine arylamidase	+	3.4.11.3
[Ref.: #25286]	esterase (C 4)	+
[Ref.: #25286]	esterase Lipase (C 8)	+
[Ref.: #25286]	leucine arylamidase	+	3.4.11.1
[Ref.: #25286]	lipase (C 14)	-
[Ref.: #25286]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #25286]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #25286]	trypsin	+	3.4.21.4
[Ref.: #25286]	tryptophan deaminase	-	4.1.99.1
[Ref.: #25286]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

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Fatty acid	Percentage
C15:0 iso	27.5
C15:1 iso G	20.3
C16:0	13.3
C17:0 iso 3OH	10.7
C16:1ω7c / C16:1ω6c	8.8
C18:0	8.4
C15:0 iso 3OH	3
C16:0 3OH	1.8
C15:0 anteiso	0.6

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

[Ref.: #25286]	Sample type/isolated from	soil of a Rose
[Ref.: #25286]	Geographic location (country and/or sea, region)	Sharon garden in Daejeon
[Ref.: #25286]	Country	Republic of Korea
[Ref.: #25286]	Country ISO 3 Code	KOR
[Ref.: #25286]	Continent	Asia
[Ref.: #25286]	Enrichment culture	nutritient agar (NA; Difco)
[Ref.: #25286]	Enrichment culture duration	1 week
[Ref.: #25286]	Enrichment culture temperature	28 ̊C
[Ref.: #25286]	Isolation/enrichment procedure	Serial dilution
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU505213 (>99% sequence identity) for Niabella hibiscisoli from Microbeatlas

Aquatic Samples	16
Soil Samples	63
Animal Samples	51
Plant Samples	18
Total Samples	148

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.: #25286]	Niabella sp. THG-DN5.5 16S ribosomal RNA gene, partial sequence	KU505213	1458	GenBank	1825928 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Niabella hibiscisoli THG-DN5.5	GCA_022512515	contig	GenBank	1825928 tax ID	*

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GC-content

43.1 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 Diaspora project based on: Niabella hibiscisoli THG-DN5.5 NCBI: GCA_022512515.1
[Ref.: #69480]	flagellated	no	97.196	yes
[Ref.: #69480]	gram-positive	no	96.921	no
[Ref.: #69480]	anaerobic	no	99.591	no
[Ref.: #69480]	aerobic	yes	90.892	yes
[Ref.: #69480]	halophile	no	95.704	no
[Ref.: #69480]	spore-forming	no	94.578	no
[Ref.: #69480]	motile	no	92.969	yes
[Ref.: #69480]	glucose-ferment	no	89.914	no
[Ref.: #69480]	thermophile	no	98.897	yes
[Ref.: #69480]	glucose-util	yes	89.143	yes

Availability in culture collections External links

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Culture collection no.

KACC 18857, CCTCC AB 2016086

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Niabella hibiscisoli sp. nov., isolated from soil of a Rose of Sharon garden.	Ngo HTT, Trinh H, Yan ZF, Moya G, Kook M, Yi TH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001595	2017	*

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 )

#25286

H. T. T. T. Ngo, H.,Yan, Z. F.,Moya, G.,Kook, M.,Yi, T. H.: Niabella hibiscisoli sp. nov., isolated from soil of a Rose of Sharon garden. IJSEM 67: 784 - 788 2017 ( DOI 10.1099/ijsem.0.001595 , PubMed 27902198 )

#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) .

#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) .

* These data were automatically processed and therefore are not curated

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