Name: Novosphingobium lotistagni THG-DN6.20
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133226

Type strain:

Species: Novosphingobium lotistagni

Strain Designation: THG-DN6.20

Culture col. no.: KACC 18541, CCTCC AB 2015354

NCBI tax ID(s): 1736684 (species)

Section

Novosphingobium lotistagni THG-DN6.20 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from lotus pond.

colony-forming
Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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	*Sphingomonadales*
	Family	*Erythrobacteraceae*
	Genus	*Novosphingobium*
	Species	**Novosphingobium lotistagni**
	Full Scientific Name (LPSN)	Novosphingobium lotistagni Ngo et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #25028]	Gram stain	negative

[Ref.: #25028]	Cell length	0.9-4.2 µm

[Ref.: #25028]	Cell width	0.6-0.8 µm

[Ref.: #25028]	Cell shape	rod-shaped

[Ref.: #25028]	Motility	no

[Ref.: #25028]	Colony size	0.5-1.5 mm
[Ref.: #25028]	Colony color	yellow
[Ref.: #25028]	Colony shape	circular

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #25028]			growth	4-42 °C
[Ref.: #25028]			optimum	25-35 °C

[Ref.: #25028]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #25028]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25028]		NaCl		maximum	1	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #25028]	2-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #25028]	3-hydroxybenzoate ChEBI	-	carbon source
[Ref.: #25028]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #25028]	4-hydroxybenzoate ChEBI	-	carbon source
[Ref.: #25028]	5-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #25028]	adipate ChEBI	-	assimilation
[Ref.: #25028]	butyrate ChEBI	-	assimilation
[Ref.: #25028]	butyrate ChEBI	-	carbon source
[Ref.: #25028]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #25028]	casein	-	hydrolysis
[Ref.: #25028]	chitin ChEBI	-	hydrolysis
[Ref.: #25028]	citrate ChEBI	-	assimilation
[Ref.: #25028]	D-glucose ChEBI	+	assimilation
[Ref.: #25028]	D-glucose ChEBI	+	carbon source
[Ref.: #25028]	D-mannitol ChEBI	-	assimilation
[Ref.: #25028]	D-mannitol ChEBI	-	carbon source
[Ref.: #25028]	D-mannose ChEBI	-	assimilation
[Ref.: #25028]	D-ribose ChEBI	-	carbon source
[Ref.: #25028]	D-sorbitol ChEBI	-	carbon source
[Ref.: #25028]	dna ChEBI	+	hydrolysis
[Ref.: #25028]	esculin ChEBI	+	hydrolysis
[Ref.: #25028]	gelatin ChEBI	-	hydrolysis
[Ref.: #25028]	gluconate ChEBI	-	assimilation
[Ref.: #25028]	glycogen ChEBI	-	carbon source
[Ref.: #25028]	itaconate ChEBI	-	carbon source
[Ref.: #25028]	L-alanine ChEBI	-	carbon source
[Ref.: #25028]	L-arabinose ChEBI	+	assimilation
[Ref.: #25028]	L-arabinose ChEBI	+	carbon source
[Ref.: #25028]	L-fucose ChEBI	-	carbon source
[Ref.: #25028]	L-histidine ChEBI	-	carbon source
[Ref.: #25028]	L-proline ChEBI	-	carbon source
[Ref.: #25028]	L-rhamnose ChEBI	+	carbon source
[Ref.: #25028]	L-serine ChEBI	-	carbon source
[Ref.: #25028]	L-tyrosine ChEBI	+	hydrolysis
[Ref.: #25028]	lactate ChEBI	-	carbon source
[Ref.: #25028]	malate ChEBI	-	assimilation
[Ref.: #25028]	maltose ChEBI	+	assimilation
[Ref.: #25028]	maltose ChEBI	+	carbon source
[Ref.: #25028]	melibiose ChEBI	+	carbon source
[Ref.: #25028]	myo-inositol ChEBI	-	carbon source
[Ref.: #25028]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #25028]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #25028]	nitrate ChEBI	-	reduction
[Ref.: #25028]	phenylacetate ChEBI	-	assimilation
[Ref.: #25028]	propionate ChEBI	-	carbon source
[Ref.: #25028]	salicin ChEBI	-	carbon source
[Ref.: #25028]	sodium acetate ChEBI	-	carbon source
[Ref.: #25028]	sodium citrate ChEBI	-	carbon source
[Ref.: #25028]	sodium malonate ChEBI	-	carbon source
[Ref.: #25028]	starch ChEBI	-	hydrolysis
[Ref.: #25028]	suberic acid ChEBI	-	carbon source
[Ref.: #25028]	sucrose ChEBI	+	carbon source
[Ref.: #25028]	tryptophan ChEBI	-	energy source
[Ref.: #25028]	tween 20 ChEBI	+	hydrolysis
[Ref.: #25028]	tween 80 ChEBI	+	hydrolysis
[Ref.: #25028]	urea ChEBI	-	hydrolysis
[Ref.: #25028]	valerate ChEBI	-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #25028]		indole ChEBI	no

	Physiological tests	Metabolite	Indole test
[Ref.: #25028]		indole ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #25028]	6-phospho-beta-galactosidase	+	3.2.1.85
[Ref.: #25028]	acid phosphatase	+	3.1.3.2
[Ref.: #25028]	alkaline phosphatase	+	3.1.3.1
[Ref.: #25028]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #25028]	alpha-fucosidase	+	3.2.1.51
[Ref.: #25028]	alpha-galactosidase	+	3.2.1.22
[Ref.: #25028]	alpha-glucosidase	+	3.2.1.20
[Ref.: #25028]	alpha-mannosidase	-	3.2.1.24
[Ref.: #25028]	arginine dihydrolase	-	3.5.3.6
[Ref.: #25028]	beta-glucosidase	+	3.2.1.21
[Ref.: #25028]	beta-glucuronidase	+	3.2.1.31
[Ref.: #25028]	catalase	+	1.11.1.6
[Ref.: #25028]	cystine arylamidase	+	3.4.11.3
[Ref.: #25028]	cytochrome oxidase	+	1.9.3.1
[Ref.: #25028]	esterase (C 4)	+
[Ref.: #25028]	esterase lipase (C 8)	+
[Ref.: #25028]	leucine arylamidase	+	3.4.11.1
[Ref.: #25028]	lipase (C 14)	-
[Ref.: #25028]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #25028]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #25028]	trypsin	+	3.4.21.4
[Ref.: #25028]	tryptophan deaminase	-	4.1.99.1
[Ref.: #25028]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #25028]	Sample type/isolated from	lotus pond
[Ref.: #25028]	Geographic location (country and/or sea, region)	Donghaksa temple in Daejeon
[Ref.: #25028]	Country	Republic of Korea
[Ref.: #25028]	Country ISO 3 Code	KOR
[Ref.: #25028]	Continent	Asia
[Ref.: #25028]	Enrichment culture duration	7 days
[Ref.: #25028]	Enrichment culture temperature	28 ̊C
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Pond (small)
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT885190 (>99% sequence identity) for Novosphingobium oryzae from Microbeatlas

Aquatic Samples	257
Soil Samples	301
Animal Samples	81
Plant Samples	57
Total Samples	696

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.: #25028]	Novosphingobium sp. THG-DN6.20 16S ribosomal RNA gene, partial sequence	KT885190	1417	GenBank	1736684 tax ID

[Ref.: #25028]

GC-content

63.1 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #25028]

Culture collection no.

KACC 18541, CCTCC AB 2015354

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Novosphingobium lotistagni sp. nov., isolated from a lotus pond.	Ngo HTT, Trinh H, Kim JH, Yang JE, Won KH, Kim JH, Kook M, Yi TH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001418	2016	*

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 )

#25028

H. T. T. Ngo, H.,Kim, J. H.,Yang, J. E.,Won, K. H.,Kim, J. H.,Kook, M.,Yi, T. H.: Novosphingobium lotistagni sp. nov., isolated from a lotus pond. IJSEM 66: 4729 - 4734 2016 ( DOI 10.1099/ijsem.0.001418 , PubMed 27515386 )

#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 .

* These data were automatically processed and therefore are not curated

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