Name: Persicitalea jodogahamensis Shu-9-SY12-35C
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134231

Type strain:

Species: Persicitalea jodogahamensis

Strain Designation: Shu-9-SY12-35C

Culture col. no.: MBIC 07417, IAM 15412, KCTC 12866, JCM 23195, CIP 109672, NBRC 103568

Strain history: IAM 15412 <-- J. Yoon et al. Shu-9-SY12-35C.

NCBI tax ID(s): 402147 (species)

SI-ID 308624

IAM 15412, KCTC 12866, JCM 23195, NBRC 103568, CIP 109672

Section

Persicitalea jodogahamensis Shu-9-SY12-35C is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater.

Gram-negative
rod-shaped
aerobe
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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Spirosomataceae*
	Genus	*Persicitalea*
	Species	**Persicitalea jodogahamensis**
	Full Scientific Name (LPSN)	Persicitalea jodogahamensis Yoon et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32004]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.997

[Ref.: #32004]	Cell length	4.5 µm

[Ref.: #32004]	Cell width	0.4 µm

[Ref.: #32004]	Cell shape	rod-shaped

[Ref.: #32004]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %97.39

[Ref.: #32004]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #32004]			optimum	27.5 °C
[Ref.: #67770]			growth	30 °C

[Ref.: #32004]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32004]			optimum	7
[Ref.: #32004]			growth	05-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32004]

Oxygen tolerance

aerobe

[Ref.: #32004]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.978

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32004]		NaCl		growth	0-7	%
[Ref.: #32004]		NaCl		optimum	3.5	%

[Ref.: #67770]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32004]	arabinose ChEBI	+	carbon source
[Ref.: #32004]	cellobiose ChEBI	+	carbon source
[Ref.: #32004]	fructose ChEBI	+	carbon source
[Ref.: #32004]	fucose ChEBI	+	carbon source
[Ref.: #32004]	galactose ChEBI	+	carbon source
[Ref.: #32004]	glucose ChEBI	+	carbon source
[Ref.: #32004]	lactose ChEBI	+	carbon source
[Ref.: #32004]	maltose ChEBI	+	carbon source
[Ref.: #32004]	mannose ChEBI	+	carbon source
[Ref.: #32004]	melibiose ChEBI	+	carbon source
[Ref.: #32004]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32004]	raffinose ChEBI	+	carbon source
[Ref.: #32004]	rhamnose ChEBI	+	carbon source
[Ref.: #32004]	salicin ChEBI	+	carbon source
[Ref.: #32004]	sucrose ChEBI	+	carbon source
[Ref.: #32004]	trehalose ChEBI	+	carbon source
[Ref.: #32004]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #32004]		catalase	+	1.11.1.6
[Ref.: #32004]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #32004]	Sample type/isolated from	seawater

[Ref.: #67770]	Sample type/isolated from	Seawater in Jodogahama
[Ref.: #67770]	Geographic location (country and/or sea, region)	Iwate
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB272165 (>99% sequence identity) for Persicitalea jodogahamensis subclade from Microbeatlas

Aquatic Samples	1245
Soil Samples	354
Animal Samples	153
Plant Samples	17
Total Samples	1769

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.: #32004]	Persicitalea jodogahamensis gene for 16S rRNA, partial sequence	AB272165	1464	GenBank	402147 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Persicitalea jodogahamensis KCTC 12866	GCA_014651615	scaffold	GenBank	402147 tax ID	*
[Ref.: #66792]	Persicitalea jodogahamensis strain KCTC 12866	402147.3	wgs	PATRIC	402147 tax ID	*

[Ref.: #32004]	GC-content	56.3 mol%
[Ref.: #67770]	GC-content	56.3 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 GenomeNet Sporulation v. 1 based on: Persicitalea jodogahamensis KCTC 12866 NCBI: GCA_014651615.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Persicitalea jodogahamensis KCTC 12866 NCBI: GCA_014651615.1
[Ref.: #69480]	motile	no	92.774	yes
[Ref.: #69480]	flagellated	no	97.444	yes
[Ref.: #69480]	gram-positive	no	97.377	yes
[Ref.: #69480]	anaerobic	no	99.391	no
[Ref.: #69480]	aerobic	yes	93.404	no
[Ref.: #69480]	halophile	no	94.163	no
[Ref.: #69480]	spore-forming	no	95.458	yes
[Ref.: #69480]	thermophile	no	98.745	yes
[Ref.: #69480]	glucose-util	yes	88.515	yes
[Ref.: #69480]	glucose-ferment	no	89.079	no

Availability in culture collections External links

[Ref.: #32004]

Culture collection no.

MBIC 07417, IAM 15412, KCTC 12866, JCM 23195, CIP 109672, NBRC 103568

[Ref.: #91825]

SI-ID 308624

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Persicitalea jodogahamensis gen. nov., sp. nov., a marine bacterium of the family 'Flexibacteraceae', isolated from seawater in Japan.	Yoon J, Ishikawa S, Kasai H, Yokota A	Int J Syst Evol Microbiol	10.1099/ijs.0.64792-0	2007	*

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 )

#32004

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 #28258 (see below)

#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;

#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 )

#91825

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-ID308624.1 )

#28258

IJSEM 1014 2007 ( DOI 10.1099/ijs.0.64792-0 , PubMed 17473250 )

* These data were automatically processed and therefore are not curated

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Persicitalea jodogahamensis KCTC 12866

Persicitalea jodogahamensis KCTC 12866

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