Name: Niabella drilacis E90
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24735

Type strain:

Species: Niabella drilacis

Strain Designation: E90, E96

Culture col. no.: CCUG 62505, DSM 25811, CCM 8410, LMG 26954, CIP 110418

Strain history: CIP <- 2012, P. Kämpfer, Giessen Univ., Giessen, Germany: strain E96 <- 2009, L. Kaiser

NCBI tax ID(s): 1285928 (species)

SI-ID 379684

LMG 26954, DSM 25811, CCM 8410, CCUG 62505, CIP 110418

Section

Niabella drilacis E90 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from skin or bladder juvenile medicinal leech .

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	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Niabella*
	Species	**Niabella drilacis**
	Full Scientific Name (LPSN)	Niabella drilacis Glaeser et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31052]	Gram stain	negative
[Ref.: #118972]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #31052]	Cell length	1.25 µm

[Ref.: #31052]	Cell width	0.85 µm

[Ref.: #31052]	Cell shape	rod-shaped
[Ref.: #118972]	Cell shape	rod-shaped

[Ref.: #118972]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.452

[Ref.: #21160]	Incubation period	2-3 days

[Ref.: #62853]	Incubation period	2 days

[Ref.: #31052]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21160]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #21160]

Culture medium growth

[Ref.: #21160]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21160]

Culture medium composition

expand / minimize

[Ref.: #118972]

Culture medium

CIP Medium 72

[Ref.: #118972]

Culture medium growth

[Ref.: #118972]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #21160]	growth	25 °C
[Ref.: #31052]	growth	15-30 °C
[Ref.: #62853]	growth	30 °C

[Ref.: #21160]	Temperature range	mesophilic
[Ref.: #62853]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31052]			growth	4.5-10.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31052]	Oxygen tolerance	aerobe
[Ref.: #62853]	Oxygen tolerance	aerobe

[Ref.: #31052]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31052]		NaCl		growth	0-4	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31052]	arabinose ChEBI	+	carbon source
[Ref.: #31052]	cellobiose ChEBI	+	carbon source
[Ref.: #31052]	fructose ChEBI	+	carbon source
[Ref.: #31052]	galactose ChEBI	+	carbon source
[Ref.: #31052]	lactate ChEBI	+	carbon source
[Ref.: #31052]	maltose ChEBI	+	carbon source
[Ref.: #31052]	mannose ChEBI	+	carbon source
[Ref.: #31052]	melibiose ChEBI	+	carbon source
[Ref.: #31052]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #31052]	pyruvate ChEBI	+	carbon source
[Ref.: #31052]	rhamnose ChEBI	+	carbon source
[Ref.: #31052]	ribitol ChEBI	+	carbon source
[Ref.: #31052]	ribose ChEBI	+	carbon source
[Ref.: #31052]	salicin ChEBI	+	carbon source
[Ref.: #31052]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31052]		cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	heme metabolism	85.71	12 of 14
[Ref.: #66794]	leucine metabolism	84.62	11 of 13
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	gallate degradation	80	4 of 5
[Ref.: #66794]	degradation of pentoses	78.57	22 of 28
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	degradation of hexoses	77.78	14 of 18
[Ref.: #66794]	lipid metabolism	77.42	24 of 31
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	purine metabolism	73.4	69 of 94
[Ref.: #66794]	pyrimidine metabolism	73.33	33 of 45
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	alanine metabolism	68.97	20 of 29
[Ref.: #66794]	degradation of sugar acids	68	17 of 25
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	lysine metabolism	64.29	27 of 42
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	tryptophan metabolism	63.16	24 of 38
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	non-pathway related	60.53	23 of 38
[Ref.: #66794]	vitamin K metabolism	60	3 of 5
[Ref.: #66794]	coenzyme M biosynthesis	60	6 of 10
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	proline metabolism	54.55	6 of 11
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	arginine metabolism	45.83	11 of 24
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	phenol degradation	45	9 of 20
[Ref.: #66794]	daunorubicin biosynthesis	44.44	4 of 9
[Ref.: #66794]	androgen and estrogen metabolism	43.75	7 of 16
[Ref.: #66794]	oxidative phosphorylation	42.86	39 of 91
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	ascorbate metabolism	40.91	9 of 22
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	polyamine pathway	39.13	9 of 23
[Ref.: #66794]	vitamin B1 metabolism	38.46	5 of 13
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	allantoin degradation	22.22	2 of 9
[Ref.: #66794]	vitamin B12 metabolism	20.59	7 of 34
		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.: #21160]	Sample type/isolated from	skin or bladder juvenile medicinal leech (Hirudo verbana)
[Ref.: #21160]	Host species	Hirudo verbana
[Ref.: #21160]	Geographic location (country and/or sea, region)	Hessen, Biebertal
[Ref.: #21160]	Country	Germany
[Ref.: #21160]	Country ISO 3 Code	DEU
[Ref.: #21160]	Continent	Europe

[Ref.: #62853]	Sample type/isolated from	Surface,juvenile leech
[Ref.: #62853]	Geographic location (country and/or sea, region)	Biebertal (Hessen)
[Ref.: #62853]	Country	Germany
[Ref.: #62853]	Country ISO 3 Code	DEU
[Ref.: #62853]	Continent	Europe

[Ref.: #118972]	Sample type/isolated from	Animal, Surface of a juvenile leech
[Ref.: #118972]	Geographic location (country and/or sea, region)	Biebertal, Hessen
[Ref.: #118972]	Country	Germany
[Ref.: #118972]	Country ISO 3 Code	DEU
[Ref.: #118972]	Continent	Europe
[Ref.: #118972]	Isolation date	2009
* marker position based on {}

Isolation sources categories

#Host	#Invertebrates (Other)	#Annelida
#Host Body-Site	#Urogenital tract	#Bladder
#Host Body-Site	#Organ	#Skin, Nail, Hair

What are isolation sources categories?

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

[Ref.: #21160]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118972]	Biosafety level	1	Risk group (French classification)

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.: #21160]	Niabella drilacis strain E90 16S ribosomal RNA gene, partial sequence	KC307772	1366	ENA	1285928 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Niabella drilacis DSM 25811	GCA_900101395	scaffold	GenBank	1285928 tax ID	*
[Ref.: #66792]	Niabella drilacis strain DSM 25811	1285928.3	wgs	PATRIC	1285928 tax ID	*
[Ref.: #66792]	Niabella drilacis DSM 25811	2619619035	draft	JGI IMG/M	1285928 tax ID	*

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: Niabella drilacis DSM 25811 NCBI: GCA_900101395.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Niabella drilacis DSM 25811 NCBI: GCA_900101395.1
[Ref.: #69480]	motile	no	94.327	no
[Ref.: #69480]	flagellated	no	98.198	no
[Ref.: #69480]	gram-positive	no	97.314	yes
[Ref.: #69480]	anaerobic	no	99.466	yes
[Ref.: #69480]	aerobic	yes	85.603	yes
[Ref.: #69480]	halophile	no	96.816	no
[Ref.: #69480]	spore-forming	no	93.862	yes
[Ref.: #69480]	glucose-ferment	no	87.041	no
[Ref.: #69480]	thermophile	no	95.36	yes
[Ref.: #69480]	glucose-util	yes	85.345	no

Availability in culture collections External links

[Ref.: #21160]

Culture collection no.

CCUG 62505, DSM 25811, CCM 8410, LMG 26954, CIP 110418

[Ref.: #88563]

SI-ID 379684

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Niabella aquatica sp. nov., isolated from lake water.	Siddiqi MZ, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.001053	2016	*
Phylogeny	Niabella hirudinis and Niabella drilacis sp. nov., isolated from the medicinal leech Hirudo verbana.	Glaeser SP, Galatis H, Martin K, Kampfer P	Int J Syst Evol Microbiol	10.1099/ijs.0.050823-0	2013	*

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 )

#21160

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25811

#31052

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 #27382 (see below)

#62853 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 62505

#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 )

#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 )

#88563

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-ID379684.1 )

#118972 Collection of Institut Pasteur ; Curators of the CIP; CIP 110418

#27382

IJSEM 3487 2013 ( DOI 10.1099/ijs.0.050823-0 , PubMed 23543503 )

* These data were automatically processed and therefore are not curated

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Niabella drilacis DSM 25811

Niabella drilacis DSM 25811

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