Name: Aggregatibacter segnis HK316
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11755

Type strain:

Species: Aggregatibacter segnis

Strain Designation: HK316

Culture col. no.: DSM 21418, ATCC 33393, CCUG 10787, CCUG 12838, CIP 103292, KCTC 5968, NCTC 10977, CCM 6052

Strain history: CIP <- 1989, NCTC <- 1975, M. Kilian, Arhus, Denmark: strain HK 316, Haemophilus segnis

NCBI tax ID(s): 888057 (strain), 739 (species)

SI-ID 47018

ATCC 33393, NCTC 10977, CCUG 10787, CCUG 12838, CIP 103292, CCM 6052, LMG 25822

Other strains from Aggregatibacter segnis

A. segnis ANA 45, CIP 102164
A. segnis 42-86, CIP 102120
A. segnis 342-86, CIP 102350
A. segnis 70-86, CIP 102141
A. segnis 371.84, CIP 100870
A. segnis 38.87, CIP 102796
A. segnis CCUG 14859
A. segnis CCUG 14860
A. segnis CCUG 14861
A. segnis CCUG 14862
A. segnis CCUG 18088, MCCM 03015
A. segnis CCUG 18888
A. segnis CCUG 22129
A. segnis CCUG 24524, MCCM 00313
A. segnis CCUG 26123
A. segnis CCUG 26210 A
A. segnis CCUG 28604
A. segnis CCUG 29771
A. segnis CCUG 33321
A. segnis CCUG 34757
A. segnis CCUG 35594
A. segnis CCUG 36144, MCCM 00286
A. segnis CCUG 38557
A. segnis CCUG 39605
A. segnis CCUG 41394
A. segnis CCUG 41855
A. segnis CCUG 45340
A. segnis CCUG 46700
A. segnis CCUG 47710
A. segnis CCUG 48771
A. segnis CCUG 49495
A. segnis CCUG 49706
A. segnis CCUG 51794
A. segnis CCUG 51795
A. segnis CCUG 51796
A. segnis CCUG 51797
A. segnis CCUG 51798
A. segnis CCUG 51799
A. segnis CCUG 53043 A
A. segnis CCUG 54525
A. segnis CCUG 57436
A. segnis CCUG 63997

Section

Aggregatibacter segnis HK316 is a microaerophile, mesophilic, rod-shaped bacterium that was isolated from dental plaque.

rod-shaped
mesophilic
microaerophile
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pasteurellales*
	Family	*Pasteurellaceae*
	Genus	*Aggregatibacter*
	Species	**Aggregatibacter segnis**
	Full Scientific Name (LPSN)	Aggregatibacter segnis (Kilian 1977) Nørskov-Lauritsen and Kilian 2006

Synonym

Haemophilus segnis

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.983

[Ref.: #67771]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	pleomorphic-shaped

[Ref.: #67771]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15694]

Culture medium

HAEMOPHILUS MEDIUM (DSMZ Medium 804)

[Ref.: #15694]

Culture medium growth

[Ref.: #15694]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15694]

Culture medium composition

expand / minimize

[Ref.: #40097]

Culture medium

MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and Neisseria

[Ref.: #40097]

Culture medium growth

[Ref.: #40097]

Culture medium composition

expand / minimize

[Ref.: #122549]

Culture medium

CIP Medium 10

[Ref.: #122549]

Culture medium growth

[Ref.: #122549]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #15694]	growth	37 °C
[Ref.: #40097]	growth	37 °C
[Ref.: #67771]	growth	37 °C

[Ref.: #15694]	Temperature range	mesophilic
[Ref.: #40097]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15694]	Oxygen tolerance	microaerophile
[Ref.: #67771]	Oxygen tolerance	microaerophile

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.982

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68377]	D-fructose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	D-glucose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	maltose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	ornithine ChEBI	-	degradation	* from API NH
[Ref.: #68377]	tryptophan ChEBI	-	energy source	* from API NH
[Ref.: #68377]	urea ChEBI	-	hydrolysis	* from API NH

	Metabolite production	Metabolite	Production
[Ref.: #68377]		indole ChEBI	no	* from API NH

	Physiological tests	Metabolite	Indole test
[Ref.: #68377]		indole ChEBI	-	* from API NH

	Enzyme	Enzyme activity	EC number
[Ref.: #68377]	beta-galactosidase	-	3.2.1.23	* from API NH
[Ref.: #68377]	gamma-glutamyltransferase	-	2.3.2.2	* from API NH
[Ref.: #68377]	ornithine decarboxylase	-	4.1.1.17	* from API NH
[Ref.: #68377]	proline-arylamidase	-	3.4.11.5	* from API NH
[Ref.: #68377]	tryptophan deaminase	-	4.1.99.1	* from API NH
[Ref.: #68377]	urease	-	3.5.1.5	* from API NH

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65595]

Fatty acid	Percentage	ECL
C16:1 ω7c	29.2	15.819
C14:0	27.4	14
C16:0	25.4	16
C14:0 3OH/C16:1 ISO I	9.4	15.485
C18:2 ω6,9c/C18:0 ANTE	3.5	17.724
C18:1 ω9c	3	17.769
C18:0	0.7	18
C13:0 ISO 2OH	0.5	13.814
unknown 14.503	0.4	14.503
C12:0	0.3	12

Metadata FA analysis

Reference

[Ref.: #65597]

Fatty acid	Percentage	ECL
C16:1 ω7c	28	15.819
C14:0	26.8	14
C16:0	26.3	16
C14:0 3OH/C16:1 ISO I	7.7	15.485
C18:1 ω9c	4.3	17.769
C18:2 ω6,9c/C18:0 ANTE	3.3	17.724
C18:0	0.9	18
C12:0 ALDE ?	0.7	10.915
C13:0 ISO 2OH	0.5	13.814
Unidentified	0.5	13.944
unknown 14.503	0.4	14.503
C12:0	0.3	12
C16:1 ω5c	0.2	15.908
Unidentified	0.2	15.171
Unidentified	0.1	13.767

API® NH:

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

	API ID	Penicillinase productionPEN	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from maltoseMAL	Acid from sucroseSAC	Ornithine decarboxylaseODC	Urease/urea hydrolysisURE	LipaseLIP	Alkaline phosphatasePAL	beta-Galactosidasebeta GAL	Proline arylamidaseProA	gamma-Glutamyl transferaseGGT	Indole productionIND
[Ref.: #15694]	6141	+	+	+	+	-	-	-	+	-	-	-	-	-
[Ref.: #15694]	5731	-	+	+	+	+	-	-	-	+	-	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	pyrimidine metabolism	68.89	31 of 45
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	NAD metabolism	61.11	11 of 18
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	alanine metabolism	58.62	17 of 29
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	non-pathway related	52.63	20 of 38
[Ref.: #66794]	methionine metabolism	50	13 of 26
[Ref.: #66794]	tyrosine metabolism	50	7 of 14
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	starch degradation	50	5 of 10
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	glutamate and glutamine metabolism	50	14 of 28
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	oxidative phosphorylation	49.45	45 of 91
[Ref.: #66794]	tryptophan metabolism	47.37	18 of 38
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	lysine metabolism	42.86	18 of 42
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	hydrogen production	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	citric acid cycle	35.71	5 of 14
[Ref.: #66794]	lipid metabolism	35.48	11 of 31
[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]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	urea cycle	30.77	4 of 13
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	propanol degradation	28.57	2 of 7
[Ref.: #66794]	histidine metabolism	27.59	8 of 29
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	phenol degradation	25	5 of 20
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
		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.: #15694]	Sample type/isolated from	dental plaque
[Ref.: #15694]	Country	Denmark
[Ref.: #15694]	Country ISO 3 Code	DNK
[Ref.: #15694]	Continent	Europe

[Ref.: #67771]	Sample type/isolated from	From dental plaque
[Ref.: #67771]	Country	Denmark
[Ref.: #67771]	Country ISO 3 Code	DNK
[Ref.: #67771]	Continent	Europe

[Ref.: #122549]	Sample type/isolated from	Other, Dental plate
[Ref.: #122549]	Country	Denmark
[Ref.: #122549]	Country ISO 3 Code	DNK
[Ref.: #122549]	Continent	Europe
[Ref.: #122549]	Isolation date	1973
* marker position based on {}

Isolation sources categories

#Host Body-Site

#Oral cavity and airways

#Plaque

What are isolation sources categories?

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

[Ref.: #15694]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #122549]	Biosafety level	2	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.: #15694]	Aggregatibacter segnis ATCC 33393 16S ribosomal RNA gene, partial sequence	M75043	1479	ENA	888057 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.: #66792]	Aggregatibacter segnis ATCC 33393 NCTC 10977	GCA_900476035	complete	GenBank	888057 tax ID	*
[Ref.: #66792]	Aggregatibacter segnis ATCC 33393	GCA_000185305	scaffold	GenBank	888057 tax ID	*
[Ref.: #66792]	Aggregatibacter segnis ATCC 33393	888057.3	wgs	PATRIC	888057 tax ID	*
[Ref.: #66792]	Aggregatibacter segnis ATCC 33393 strain NCTC10977 strain NCTC 10977	888057.20	complete	PATRIC	888057 tax ID	*
[Ref.: #66792]	Aggregatibacter segnis strain FDAARGOS_987	739.212	complete	PATRIC	739 tax ID	*
[Ref.: #66792]	Aggregatibacter segnis ATCC 33393	649989906	draft	JGI IMG/M	888057 tax ID	*

[Ref.: #67771]

GC-content

43.0-44.0 mol%

thermal denaturation, midpoint method (Tm)

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: Aggregatibacter segnis ATCC 33393 NCTC10977 NCBI: GCA_900476035.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Aggregatibacter segnis ATCC 33393 NCTC10977 NCBI: GCA_900476035.1
[Ref.: #69480]	flagellated	no	96.104	no
[Ref.: #69480]	gram-positive	no	98.276	yes
[Ref.: #69480]	anaerobic	no	95.178	yes
[Ref.: #69480]	aerobic	no	93.868	no
[Ref.: #69480]	halophile	yes	55.722	no
[Ref.: #69480]	spore-forming	no	98.839	no
[Ref.: #69480]	thermophile	no	98.341	no
[Ref.: #69480]	glucose-util	no	58.416	no
[Ref.: #69480]	motile	no	89.409	yes
[Ref.: #69480]	glucose-ferment	no	51.005	no

Availability in culture collections External links

[Ref.: #15694]

Culture collection no.

DSM 21418, ATCC 33393, CCUG 10787, CCUG 12838, CIP 103292, KCTC 5968, NCTC 10977, CCM 6052

[Ref.: #80973]

SI-ID 47018

Literature:

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	The antibacterial activity of various saturated and unsaturated fatty acids against several oral pathogens.	Choi JS, Park NH, Hwang SY, Sohn JH, Kwak I, Cho KK, Choi IS	J Environ Biol		2013	*
Phylogeny	Reclassification of Actinobacillus actinomycetemcomitans, Haemophilus aphrophilus, Haemophilus paraphrophilus and Haemophilus segnis as Aggregatibacter actinomycetemcomitans gen. nov., comb. nov., Aggregatibacter aphrophilus comb. nov. and Aggregatibacter segnis comb. nov., and emended description of Aggregatibacter aphrophilus to include V factor-dependent and V factor-independent isolates.	Norskov-Lauritsen N, Kilian M	Int J Syst Evol Microbiol	10.1099/ijs.0.64207-0	2006	*

References

#15694

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21418

#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 )

#40097 ; Curators of the CIP;
#65595 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 10787
#65597 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 12838

#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 )

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

#68377

Automatically annotated from API NH .

#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 )

#80973

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-ID47018.1 )

#122549 Collection of Institut Pasteur ; Curators of the CIP; CIP 103292
* These data were automatically processed and therefore are not curated

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Search for species Aggregatibacter segnis in external resources:
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Aggregatibacter segnis ATCC 33393 NCTC10977

Aggregatibacter segnis ATCC 33393 NCTC10977

Change proposal

Change proposal