Name: Hoylesella marshii E 934
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12542

Type strain:

Species: Hoylesella marshii

Strain Designation: E 934

Culture col. no.: JCM 13450, DSM 16973, CCUG 50419

Strain history: CCUG 50419 <-- J. Downes <-- W. G. Wade E9.34.

NCBI tax ID(s): 862515 (strain), 189722 (species)

Section

Hoylesella marshii E 934 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from Human oral cavity, exodontic infection.

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	*Hoylesella*
	Species	**Hoylesella marshii**
	Full Scientific Name (LPSN)	Hoylesella marshii (Downes et al. 2005) Hitch et al. 2023

Synonym

Prevotella marshii

Information on morphological and physiological properties Morphology

[Ref.: #31472]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #31472]	Cell length	1.95 µm

[Ref.: #31472]	Cell width	0.4 µm

[Ref.: #31472]	Cell shape	rod-shaped

[Ref.: #31472]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.692

[Ref.: #58860]

Incubation period

3 days

[Ref.: #31472]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6588]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #6588]

Culture medium growth

[Ref.: #6588]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6588]

Culture medium composition

expand / minimize

[Ref.: #6588]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #6588]

Culture medium growth

[Ref.: #6588]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6588]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6588]	growth	37 °C
[Ref.: #58860]	growth	37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #6588]	Temperature range	mesophilic
[Ref.: #58860]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6588]	Oxygen tolerance	anaerobe
[Ref.: #31472]	Oxygen tolerance	anaerobe
[Ref.: #58860]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.648

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

[Ref.: #31472]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #31472]	fructose ChEBI	+	carbon source
[Ref.: #31472]	gelatin ChEBI	+	carbon source
[Ref.: #31472]	glucose ChEBI	+	carbon source
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #31472]	maltose ChEBI	+	carbon source
[Ref.: #31472]	mannose ChEBI	+	carbon source
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
	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-galactosidase	-	3.2.1.22	* 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-Galactosidase 6-phosphate	-		* 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.: #31472]	gelatinase	+
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* 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]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* 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.: #6588]	12186	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+/-	-	+	-	-	-	-
[Ref.: #6588]	12185	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	-	+	-	-	-	-
[Ref.: #6588]	12184	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+/-	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	d-mannose degradation	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	lipoate biosynthesis	80	4 of 5
[Ref.: #66794]	vitamin K metabolism	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	purine metabolism	67.02	63 of 94
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	phenylacetate degradation (aerobic)	60	3 of 5
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	alanine metabolism	58.62	17 of 29
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	tetrahydrofolate metabolism	57.14	8 of 14
[Ref.: #66794]	aspartate and asparagine metabolism	55.56	5 of 9
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	citric acid cycle	50	7 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	myo-inositol biosynthesis	50	5 of 10
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	methionine metabolism	46.15	12 of 26
[Ref.: #66794]	phenylalanine metabolism	46.15	6 of 13
[Ref.: #66794]	lipid metabolism	45.16	14 of 31
[Ref.: #66794]	degradation of sugar alcohols	43.75	7 of 16
[Ref.: #66794]	lysine metabolism	42.86	18 of 42
[Ref.: #66794]	ubiquinone biosynthesis	42.86	3 of 7
[Ref.: #66794]	oxidative phosphorylation	41.76	38 of 91
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	polyamine pathway	39.13	9 of 23
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	38.46	5 of 13
[Ref.: #66794]	histidine metabolism	37.93	11 of 29
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	tryptophan metabolism	36.84	14 of 38
[Ref.: #66794]	non-pathway related	36.84	14 of 38
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	formaldehyde oxidation	33.33	1 of 3
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	cysteine metabolism	33.33	6 of 18
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	Entner Doudoroff pathway	30	3 of 10
[Ref.: #66794]	glycine metabolism	30	3 of 10
[Ref.: #66794]	vitamin B12 metabolism	29.41	10 of 34
[Ref.: #66794]	tyrosine metabolism	28.57	4 of 14
[Ref.: #66794]	propanol degradation	28.57	2 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	28.57	2 of 7
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	urea cycle	23.08	3 of 13
[Ref.: #66794]	valine metabolism	22.22	2 of 9
[Ref.: #66794]	degradation of pentoses	21.43	6 of 28
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
[Ref.: #66794]	arginine metabolism	20.83	5 of 24
		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.: #6588]	Sample type/isolated from	Human oral cavity, exodontic infection
[Ref.: #6588]	Geographic location (country and/or sea, region)	London
[Ref.: #6588]	Country	United Kingdom
[Ref.: #6588]	Country ISO 3 Code	GBR
[Ref.: #6588]	Continent	Europe

[Ref.: #58860]	Sample type/isolated from	Human oral cavity,endodontic infection
[Ref.: #58860]	Sampling date	2000-03-01
[Ref.: #58860]	Geographic location (country and/or sea, region)	London
[Ref.: #58860]	Country	United Kingdom
[Ref.: #58860]	Country ISO 3 Code	GBR
[Ref.: #58860]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Human oral cavity
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Tooth

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF481227 (>99% sequence identity) for Prevotella marshii subclade from Microbeatlas

Aquatic Samples	210
Soil Samples	112
Animal Samples	17277
Plant Samples	102
Total Samples	17701

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

[Ref.: #6588]

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.: #6588]	Prevotella marshii strain E9.34 16S ribosomal RNA gene, partial sequence	AF481227	1485	ENA	862515 tax ID
[Ref.: #67770]	Prevotella marshii gene for 16S ribosomal RNA, partial sequence, strain: JCM 13450	AB547691	1491	ENA	189722 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]	Hoylesella marshii DSM 16973 = JCM 13450	GCA_000613625	contig	GenBank	862515 tax ID
[Ref.: #66792]	Prevotella marshii DSM 16973	862515.4	wgs	PATRIC	862515 tax ID	*
[Ref.: #66792]	Prevotella marshii JCM 13450	1236489.4	wgs	PATRIC	862515 tax ID	*
[Ref.: #66792]	Prevotella marshii JCM 13450	2585427902	draft	JGI IMG/M	862515 tax ID	*
[Ref.: #66792]	Prevotella marshii DSM 16973	648276716	draft	JGI IMG/M	862515 tax ID	*
[Ref.: #66792]	Hoylesella marshii DSM 16973 = JCM 13450	GCA_000146675	scaffold	GenBank	862515 tax ID	*

[Ref.: #6588]	GC-content	51 mol%
[Ref.: #6588]	GC-content	47.5 mol%	sequence analysis
[Ref.: #67770]	GC-content	51 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 marshii DSM 16973 = JCM 13450 DSM 16973 NCBI: GCA_000146675.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Prevotella marshii DSM 16973 PATRIC: 862515.4
[Ref.: #69480]	motile	no	90.982	no
[Ref.: #69480]	flagellated	no	97.076	no
[Ref.: #69480]	gram-positive	no	98.072	no
[Ref.: #69480]	anaerobic	yes	98.896	yes
[Ref.: #69480]	halophile	no	79.226	no
[Ref.: #69480]	spore-forming	no	96.342	no
[Ref.: #69480]	glucose-util	yes	83.249	yes
[Ref.: #69480]	aerobic	no	98.073	no
[Ref.: #69480]	thermophile	no	88.994	no
[Ref.: #69480]	glucose-ferment	no	52.06	no

Availability in culture collections External links

[Ref.: #6588]

Culture collection no.

JCM 13450, DSM 16973, CCUG 50419

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Prevotella marshii sp. nov. and Prevotella baroniae sp. nov., isolated from the human oral cavity.	Downes J, Sutcliffe I, Tanner ACR, Wade WG	Int J Syst Evol Microbiol	10.1099/ijs.0.63634-0	2005	*

References

#6588

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16973

#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 )

#31472

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 #27772 (see below)

#58860 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50419

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 )

#27772

IJSEM 1551 2005 ( DOI 10.1099/ijs.0.63634-0 , PubMed 16014480 )

* These data were automatically processed and therefore are not curated

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Prevotella marshii DSM 16973 = JCM 13450 DSM 16973

Prevotella marshii DSM 16973

Change proposal

Change proposal