Name: Segatella paludivivens KB7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12558

Type strain:

Species: Segatella paludivivens

Strain Designation: KB7

Culture col. no.: DSM 17968, JCM 13650, KCTC 15702

Strain history: A. Ueki KB7.

NCBI tax ID(s): 1122990 (strain), 185294 (species)

SI-ID 309478

DSM 17968, JCM 13650

Section

Segatella paludivivens KB7 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from soil, flooded rice field.

Gram-negative
rod-shaped
anaerobe
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	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Prevotellaceae*
	Genus	*Segatella*
	Species	**Segatella paludivivens**
	Full Scientific Name (LPSN)	Segatella paludivivens (Ueki et al. 2007) Hitch et al. 2023

Synonym

Prevotella paludivivens

Information on morphological and physiological properties Morphology

[Ref.: #32071]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #32071]	Cell length	1.7 µm

[Ref.: #32071]	Cell width	0.75 µm

[Ref.: #32071]	Cell shape	rod-shaped

[Ref.: #32071]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.006

[Ref.: #7300]

Incubation period

2-3 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7300]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #7300]

Culture medium growth

[Ref.: #7300]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7300]

Culture medium composition

expand / minimize

[Ref.: #7300]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #7300]

Culture medium growth

[Ref.: #7300]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7300]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7300]	growth	30 °C
[Ref.: #32071]	growth	10-40 °C
[Ref.: #32071]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #7300]	Temperature range	mesophilic
[Ref.: #32071]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32071]			optimum	6.2
[Ref.: #32071]			growth	4.7-7.6

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7300]	Oxygen tolerance	anaerobe
[Ref.: #32071]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

[Ref.: #32071]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32071]		NaCl		growth	0.0-1.0	%
[Ref.: #32071]		NaCl		optimum	0.5	%

[Ref.: #67770]

Observation

quinones: MK-11, MK-11(H₂)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32071]	arabinose ChEBI	+	carbon source
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #32071]	cellobiose ChEBI	+	carbon source
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #32071]	fructose ChEBI	+	carbon source
[Ref.: #32071]	galactose ChEBI	+	carbon source
[Ref.: #32071]	glucose ChEBI	+	carbon source
[Ref.: #32071]	lactose ChEBI	+	carbon source
[Ref.: #32071]	maltose ChEBI	+	carbon source
[Ref.: #32071]	mannose ChEBI	+	carbon source
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #32071]	rhamnose ChEBI	+	carbon source
[Ref.: #32071]	ribose ChEBI	+	carbon source
[Ref.: #32071]	salicin ChEBI	+	carbon source
[Ref.: #32071]	sucrose ChEBI	+	carbon source
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #32071]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68380]		indole ChEBI	no	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #68380]	alkaline phosphatase	+	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	+	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	+	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68380]	beta-galactosidase	+	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-glucosidase	+	3.2.1.21	* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	+		* from API rID32A
[Ref.: #68380]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine arylamidase	-		* from API rID32A
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	+	3.4.11.1	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

API® rID32A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #7300]	12220	-	-	+	+	+/-	+	+	+	-	+	-	-	-	-	-	-	+	-	-	+	-	-	-	-	+	-	-	+	-
[Ref.: #7300]	12219	-	-	+	+	-	+	+	+	-	+	-	-	-	-	-	-	+	-	-	+	-	-	-	-	+	-	-	+	-
[Ref.: #7300]	12218	-	-	+	+	-	+	+	+	-	+	-	-	-	-	-	-	+	-	-	+	-	-	-	-	+	-	-	+	-
[Ref.: #7300]	12217	-	-	-	+	-	+	+	+	-	+/-	-	-	+	-	-	-	+	-	-	+	-	-	-	-	+	-	-	+	-

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

[Ref.: #7300]	Sample type/isolated from	soil, flooded rice field
[Ref.: #7300]	Geographic location (country and/or sea, region)	Yamagata
[Ref.: #7300]	Country	Japan
[Ref.: #7300]	Country ISO 3 Code	JPN
[Ref.: #7300]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Rice plant residue in flooded rice-field soil
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Field
#Environmental	#Aquatic	-
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB547704 (>99% sequence identity) for Prevotella paludivivens subclade from Microbeatlas

Aquatic Samples	2106
Soil Samples	284
Animal Samples	18111
Plant Samples	120
Total Samples	20621

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #7300]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #7300]	Prevotella paludivivens gene for 16S ribosomal RNA, partial sequence, strain: KB7	AB078827	1418	ENA	185294 tax ID
[Ref.: #20218]	Prevotella paludivivens gene for 16S ribosomal RNA, partial sequence, strain: JCM 13650	AB547704	1491	ENA	185294 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Prevotella paludivivens DSM 17968 = JCM 13650	GCA_000373185	scaffold	GenBank	1122990 tax ID
[Ref.: #67770]	Prevotella paludivivens DSM 17968 = JCM 13650	GCA_000613605	contig	GenBank	1122990 tax ID
[Ref.: #66792]	Prevotella paludivivens DSM 17968	1122990.3	wgs	PATRIC	1122990 tax ID	*
[Ref.: #66792]	Prevotella paludivivens JCM 13650	1236488.3	wgs	PATRIC	1122990 tax ID	*
[Ref.: #66792]	Prevotella paludivivens JCM 13650	2585427906	draft	JGI IMG/M	1122990 tax ID	*
[Ref.: #66792]	Prevotella paludivivens DSM 17968	2515154072	draft	JGI IMG/M	1122990 tax ID	*

[Ref.: #7300]	GC-content	39.2 mol%
[Ref.: #7300]	GC-content	37.3 mol%	sequence analysis
[Ref.: #67770]	GC-content	39.2 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: Prevotella paludivivens DSM 17968 = JCM 13650 DSM 17968 NCBI: GCA_000373185.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Prevotella paludivivens DSM 17968 PATRIC: 1122990.3
[Ref.: #69480]	motile	no	91.175	yes
[Ref.: #69480]	flagellated	no	96.971	yes
[Ref.: #69480]	gram-positive	no	97.476	yes
[Ref.: #69480]	anaerobic	yes	99.365	yes
[Ref.: #69480]	aerobic	no	97.589	yes
[Ref.: #69480]	halophile	no	92.798	yes
[Ref.: #69480]	spore-forming	no	94.802	no
[Ref.: #69480]	thermophile	no	97.904	yes
[Ref.: #69480]	glucose-util	yes	88.009	yes
[Ref.: #69480]	glucose-ferment	yes	72.695	no

Availability in culture collections External links

[Ref.: #7300]

Culture collection no.

DSM 17968, JCM 13650, KCTC 15702

[Ref.: #81772]

SI-ID 309478

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Prevotella herbatica sp. nov., a plant polysaccharide-decomposing anaerobic bacterium isolated from a methanogenic reactor.	Ueki A, Tonouchi A, Kaku N, Ueki K	Int J Syst Evol Microbiol	10.1099/ijsem.0.005221	2022	*
Phylogeny	Prevotella paludivivens sp. nov., a novel strictly anaerobic, Gram-negative, hemicellulose-decomposing bacterium isolated from plant residue and rice roots in irrigated rice-field soil.	Ueki A, Akasaka H, Satoh A, Suzuki D, Ueki K	Int J Syst Evol Microbiol	10.1099/ijs.0.64914-0	2007	*

References

#7300

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17968

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#32071

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 #28318 (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;

#68380

Automatically annotated from API rID32A .

#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 )

#81772

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-ID309478.1 )

#28318

IJSEM 1803 2007 ( DOI 10.1099/ijs.0.64914-0 , PubMed 17684261 )

* These data were automatically processed and therefore are not curated

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Prevotella paludivivens DSM 17968 = JCM 13650 DSM 17968

Prevotella paludivivens DSM 17968

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