Name: Tsuneonella rigui WW3
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140815

Type strain:

Species: Tsuneonella rigui

Strain Designation: WW3

Culture col. no.: KCTC 42620, JCM 30975

Strain history: <- C.N. Seong, Sunchon National Univ..

NCBI tax ID(s): 1708790 (species)

Special Collections

Section

Tsuneonella rigui WW3 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from freshwater of Woopo wetland.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Sphingomonadales*
	Family	*Erythrobacteraceae*
	Genus	*Tsuneonella*
	Species	**Tsuneonella rigui**
	Full Scientific Name (LPSN)	Tsuneonella rigui (Kang et al. 2016) Xu et al. 2020

Synonym

Altererythrobacter rigui

Information on morphological and physiological properties Morphology

[Ref.: #43603]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %96.81

[Ref.: #43603]	Cell length	0.58-0.63 µm

[Ref.: #43603]	Cell width	0.42-0.58 µm

[Ref.: #43603]	Cell shape	rod-shaped

[Ref.: #43603]	Motility	no

[Ref.: #43603]	Colony size	1-2 mm
[Ref.: #43603]	Colony color	Yellow
[Ref.: #43603]	Colony shape	circular
[Ref.: #43603]	Incubation period	3 days
[Ref.: #43603]	Cultivation medium used	R2A agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43603]

Culture medium

Nutrient agar (NA)

[Ref.: #43603]

Culture medium growth

[Ref.: #43603]

Culture medium

PCA

[Ref.: #43603]

Culture medium growth

[Ref.: #43603]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #43603]

Culture medium growth

[Ref.: #43603]

Culture medium

Trypticase Soy Agar (TSA)

[Ref.: #43603]

Culture medium growth

[Ref.: #43603]

Culture medium

Marine agar (MA)

[Ref.: #43603]

Culture medium growth

		Temperature
[Ref.: #43603]	growth	4-37 °C
[Ref.: #43603]	optimum	25 °C
[Ref.: #67770]	growth	25 °C
[Ref.: #67771]	growth	25 °C

	pH	Kind of pH		pH
[Ref.: #43603]			optimum	7
[Ref.: #43603]			growth	6-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43603]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %94.68
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

[Ref.: #43603]

Halophily / tolerance level

non-halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43603]		NaCl		growth	0-3	%(w/v)
[Ref.: #43603]		NaCl		optimum	0	%(w/v)

[Ref.: #67770]

Observation

quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43603]	adipate ChEBI	+	assimilation
[Ref.: #43603]	alginate ChEBI	-	hydrolysis
[Ref.: #43603]	arabinose ChEBI	+	assimilation
[Ref.: #43603]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #43603]	casein	-	hydrolysis
[Ref.: #43603]	chitin ChEBI	-	hydrolysis
[Ref.: #43603]	citrate ChEBI	-	assimilation
[Ref.: #43603]	decanoate ChEBI	-	assimilation
[Ref.: #43603]	fructose ChEBI	-	builds acid from
[Ref.: #43603]	galactose ChEBI	-	builds acid from
[Ref.: #43603]	gelatin ChEBI	-	hydrolysis
[Ref.: #43603]	gluconate ChEBI	-	assimilation
[Ref.: #43603]	glucose ChEBI	-	assimilation
[Ref.: #43603]	glucose ChEBI	-	builds acid from
[Ref.: #43603]	hypoxanthine ChEBI	-	hydrolysis
[Ref.: #43603]	lactose ChEBI	+	builds acid from
[Ref.: #43603]	malate ChEBI	+	assimilation
[Ref.: #43603]	maltose ChEBI	-	builds acid from
[Ref.: #43603]	mannitol ChEBI	-	assimilation
[Ref.: #43603]	mannitol ChEBI	-	builds acid from
[Ref.: #43603]	mannose ChEBI	-	assimilation
[Ref.: #43603]	mannose ChEBI	-	builds acid from
[Ref.: #43603]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43603]	phenylacetate ChEBI	-	assimilation
[Ref.: #43603]	potassium gluconate ChEBI	+	assimilation
[Ref.: #43603]	rhamnose ChEBI	-	builds acid from
[Ref.: #43603]	sodium alginate ChEBI	-	hydrolysis
[Ref.: #43603]	starch ChEBI	-	hydrolysis
[Ref.: #43603]	sucrose ChEBI	-	builds acid from
[Ref.: #43603]	trehalose ChEBI	-	builds acid from
[Ref.: #43603]	tween 20 ChEBI	-	hydrolysis
[Ref.: #43603]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43603]	tyrosine ChEBI	-	hydrolysis
[Ref.: #43603]	urea ChEBI	-	hydrolysis
[Ref.: #43603]	xanthine ChEBI	-	hydrolysis
[Ref.: #43603]	xylan ChEBI	-	hydrolysis
[Ref.: #43603]	xylose ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43603]	amikacin ChEBI	yes	30	µg (disc)
[Ref.: #43603]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #43603]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #43603]	erythromycin ChEBI				yes	15	µg (disc)
[Ref.: #43603]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #43603]	kanamycin ChEBI	yes	30	µg (disc)
[Ref.: #43603]	nalidixic acid ChEBI				yes	30	µg (disc)
[Ref.: #43603]	penicillin ChEBI	yes	10	Unit (disc)
[Ref.: #43603]	polymyxin b ChEBI				yes	300	Unit (disc)
[Ref.: #43603]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #43603]	tetracycline ChEBI	yes	30	µg (disc)
[Ref.: #43603]	vancomycin ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #43603]	hydrogen sulfide ChEBI	no
[Ref.: #43603]	indole ChEBI	no
[Ref.: #43603]	nitrate ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #43603]	acid phosphatase	+	3.1.3.2
[Ref.: #43603]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43603]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43603]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43603]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43603]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43603]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43603]	beta-galactosidase	-	3.2.1.23
[Ref.: #43603]	beta-glucosidase	-	3.2.1.21
[Ref.: #43603]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43603]	catalase	+	1.11.1.6
[Ref.: #43603]	cystine arylamidase	-	3.4.11.3
[Ref.: #43603]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43603]	esterase (C 4)	+
[Ref.: #43603]	esterase Lipase (C 8)	+
[Ref.: #43603]	leucine arylamidase	+	3.4.11.1
[Ref.: #43603]	lipase (C 14)	-
[Ref.: #43603]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43603]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43603]	trypsin	-	3.4.21.4
[Ref.: #43603]	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.: #43603]	Sample type/isolated from	freshwater of Woopo wetland
[Ref.: #43603]	Geographic location (country and/or sea, region)	Woopo wetland, Changnyeong county
[Ref.: #43603]	Country	Republic of Korea
[Ref.: #43603]	Country ISO 3 Code	KOR
[Ref.: #43603]	Continent	Asia
[Ref.: #43603]	Geographic location	35.5500°/128.4160°

[Ref.: #67770]	Sample type/isolated from	Freshwater of Woopo wetland
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From freshwater
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Freshwater
#Environmental	#Terrestrial	#Wetland (Swamp)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KP997219 (>99% sequence identity) for Erythrobacteraceae from Microbeatlas

Aquatic Samples	834
Soil Samples	456
Animal Samples	152
Plant Samples	264
Total Samples	1706

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.: #43603]	Tsuneonella rigui strain WW3 16S ribosomal RNA gene, partial sequence	KP997219		GenBank ENA

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Tsuneonella rigui KCTC 42620	GCA_003958625	contig	GenBank ENA	1708790 tax ID
[Ref.: #66792]	Altererythrobacter rigui strain KCTC 42620	1708790.3	wgs	PATRIC	1708790 tax ID	*
[Ref.: #66792]	Tsuneonella rigui KCTC 42620	2880984762	draft	JGI IMG/M	1708790 tax ID	*

[Ref.: #67770]	GC-content	63 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	66.7 mol%	genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Altererythrobacter rigui strain KCTC 42620 PATRIC: 1708790.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Altererythrobacter rigui strain KCTC 42620 PATRIC: 1708790.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.81	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.017	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	94.68	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	87.174	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	91.8	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	62.021	no

Availability in culture collections External links

[Ref.: #43603]

Culture collection no.

KCTC 42620, JCM 30975

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 )

#43603

Joo Won Kang, Mi Sun Kim, Ji Hee Lee, Keun Sik Baik, Chi Nam Seong: Altererythrobacter rigui sp. nov., isolated from wetland freshwater. IJSEM 66: 2491 - 2496 2016 ( DOI 10.1099/ijsem.0.001078 , PubMed 27073894 )

#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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Altererythrobacter rigui in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Altererythrobacter rigui strain KCTC 42620

Altererythrobacter rigui strain KCTC 42620

Change proposal

Change proposal