Name: Apibacter adventoris wkB301
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140874

Type strain:

Species: Apibacter adventoris

Strain Designation: wkB301

Culture col. no.: NRRL B-65307, NCIMB 14986

NCBI tax ID(s): 1679466 (species)

Section

Apibacter adventoris wkB301 is a microaerophile, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from The gut of an adult worker Apis dorsata.

colony-forming
Gram-negative
rod-shaped
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Weeksellaceae*
	Genus	*Apibacter*
	Species	**Apibacter adventoris**
	Full Scientific Name (LPSN)	Apibacter adventoris Kwong and Moran 2016

Information on morphological and physiological properties Morphology

[Ref.: #43701]	Gram stain	negative

[Ref.: #43701]	Cell length	2 µm

[Ref.: #43701]	Cell width	0.3 µm

[Ref.: #43701]	Cell shape	rod-shaped

[Ref.: #43701]	Motility	no

[Ref.: #43701]	Colony size	0.5 mm
[Ref.: #43701]	Colony color	White
[Ref.: #43701]	Colony shape	circular
[Ref.: #43701]	Incubation period	2-3 days
[Ref.: #43701]	Cultivation medium used	Heart Infusion Agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43701]

Culture medium

Brain Heart Infusion Agar

[Ref.: #43701]

Culture medium growth

[Ref.: #43701]

Culture medium

Columbia Agar

[Ref.: #43701]

Culture medium growth

[Ref.: #43701]

Culture medium

Heart Infusion Agar

[Ref.: #43701]

Culture medium growth

[Ref.: #43701]

Culture medium

Heart Infusion Agar

[Ref.: #43701]

Culture medium growth

[Ref.: #43701]

Culture medium composition

expand / minimize

[Ref.: #43701]

Culture medium

Trypticase Soy Agar (TSA)

[Ref.: #43701]

Culture medium growth

[Ref.: #43701]

Culture medium

MacConkey Agar

[Ref.: #43701]

Culture medium growth

[Ref.: #43701]

Culture medium

Nutrient agar (NA)

[Ref.: #43701]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43701]			growth	20-40 °C
[Ref.: #43701]			optimum	30-35 °C

[Ref.: #43701]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43701]			growth	6-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43701]

Oxygen tolerance

microaerophile

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43701]		NaCl		growth	0-1	%
[Ref.: #43701]		NaCl		optimum	0-0.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43701]	amygdalin ChEBI	-	builds acid from
[Ref.: #43701]	arabinitol ChEBI	+	builds acid from
[Ref.: #43701]	arbutin ChEBI	-	builds acid from
[Ref.: #43701]	cellobiose ChEBI	-	builds acid from
[Ref.: #43701]	D-arabinose ChEBI	-	builds acid from
[Ref.: #43701]	D-fructose ChEBI	+	builds acid from
[Ref.: #43701]	D-fucose ChEBI	-	builds acid from
[Ref.: #43701]	D-galactose ChEBI	-	builds acid from
[Ref.: #43701]	D-glucose ChEBI	+	builds acid from
[Ref.: #43701]	D-lyxose ChEBI	-	builds acid from
[Ref.: #43701]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43701]	D-mannose ChEBI	+	builds acid from
[Ref.: #43701]	D-ribose ChEBI	-	builds acid from
[Ref.: #43701]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43701]	D-tagatose ChEBI	-	builds acid from
[Ref.: #43701]	D-xylose ChEBI	-	builds acid from
[Ref.: #43701]	erythritol ChEBI	-	builds acid from
[Ref.: #43701]	galactitol ChEBI	-	builds acid from
[Ref.: #43701]	gentiobiose ChEBI	-	builds acid from
[Ref.: #43701]	glycerol ChEBI	+	builds acid from
[Ref.: #43701]	glycogen ChEBI	-	builds acid from
[Ref.: #43701]	inulin ChEBI	-	builds acid from
[Ref.: #43701]	L-arabinose ChEBI	-	builds acid from
[Ref.: #43701]	L-fucose ChEBI	-	builds acid from
[Ref.: #43701]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43701]	L-sorbose ChEBI	-	builds acid from
[Ref.: #43701]	L-xylose ChEBI	-	builds acid from
[Ref.: #43701]	lactose ChEBI	-	builds acid from
[Ref.: #43701]	maltose ChEBI	-	builds acid from
[Ref.: #43701]	melezitose ChEBI	-	builds acid from
[Ref.: #43701]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #43701]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #43701]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #43701]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43701]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #43701]	nitrate ChEBI	+	reduction
[Ref.: #43701]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #43701]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #43701]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #43701]	raffinose ChEBI	-	builds acid from
[Ref.: #43701]	ribitol ChEBI	+	builds acid from
[Ref.: #43701]	salicin ChEBI	-	builds acid from
[Ref.: #43701]	starch ChEBI	-	builds acid from
[Ref.: #43701]	sucrose ChEBI	-	builds acid from
[Ref.: #43701]	trehalose ChEBI	-	builds acid from
[Ref.: #43701]	turanose ChEBI	-	builds acid from
[Ref.: #43701]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic resistance
[Ref.: #43701]		gentamicin ChEBI	yes
[Ref.: #43701]		kanamycin ChEBI	yes

	Metabolite production	Metabolite	Production
[Ref.: #43701]		acetoin ChEBI	yes
[Ref.: #43701]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #43701]		acetoin ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #43701]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43701]	beta-galactosidase	-	3.2.1.23
[Ref.: #43701]	beta-glucosidase	+	3.2.1.21
[Ref.: #43701]	catalase	+	1.11.1.6
[Ref.: #43701]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43701]	gelatinase	-
[Ref.: #43701]	urease	-	3.5.1.5

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	CMP-KDO biosynthesis	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	heme metabolism	92.86	13 of 14
[Ref.: #66794]	threonine metabolism	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]	gluconeogenesis	87.5	7 of 8
[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]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	purine metabolism	68.09	64 of 94
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	57.14	16 of 28
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	methionine metabolism	53.85	14 of 26
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	lipid metabolism	51.61	16 of 31
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	propionate fermentation	50	5 of 10
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	vitamin B1 metabolism	46.15	6 of 13
[Ref.: #66794]	arginine metabolism	45.83	11 of 24
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	tryptophan metabolism	44.74	17 of 38
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	isoprenoid biosynthesis	42.31	11 of 26
[Ref.: #66794]	lysine metabolism	40.48	17 of 42
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	Entner Doudoroff pathway	40	4 of 10
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	degradation of pentoses	39.29	11 of 28
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	degradation of sugar alcohols	37.5	6 of 16
[Ref.: #66794]	oxidative phosphorylation	36.26	33 of 91
[Ref.: #66794]	glutathione metabolism	35.71	5 of 14
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	cholesterol biosynthesis	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]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
		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.: #43701]	Sample type/isolated from	The gut of an adult worker Apis dorsata
[Ref.: #43701]	Geographic location (country and/or sea, region)	Kuala Lumpur
[Ref.: #43701]	Country	Malaysia
[Ref.: #43701]	Country ISO 3 Code	MYS
[Ref.: #43701]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Arthropoda	#Insecta
#Host Body-Site	#Gastrointestinal tract	#Stomach

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT149221 (>99% sequence identity) for Apibacter adventoris subclade from Microbeatlas

Aquatic Samples	64
Soil Samples	19
Animal Samples	325
Plant Samples	20
Total Samples	428

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.: #43701]	16S rRNA gene sequence	KT149221		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Apibacter adventoris wkB301	GCA_002964975	contig	GenBank	1679466 tax ID	*
[Ref.: #66792]	Apibacter adventoris wkB301	2832372155	draft	JGI IMG/M	1679466 tax ID	*

[Ref.: #43701]

GC-content

29 mol%

Availability in culture collections External links

[Ref.: #43701]

Culture collection no.

NRRL B-65307, NCIMB 14986

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Apibacter raozihei sp. nov. isolated from bat feces of Hipposideros and Taphozous spp.	Huang Y, Wang X, Yang J, Lu S, Lai XH, Jin D, Pu J, Huang Y, Ren Z, Zhu W, Liang H, Zhou P, Shi Z, Xu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003801	2020	*
Phylogeny	Apibacter mensalis sp. nov.: a rare member of the bumblebee gut microbiota.	Praet J, Aerts M, Brandt E, Meeus I, Smagghe G, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijsem.0.000921	2016	*
Phylogeny	Apibacter adventoris gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from honey bees.	Kwong WK, Moran NA	Int J Syst Evol Microbiol	10.1099/ijsem.0.000882	2016	*

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 )

#43701

Waldan K. Kwong, Nancy A. Moran: Apibacter adventoris gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from honey bees. IJSEM 66: 1323 - 1329 2016 ( DOI 10.1099/ijsem.0.000882 , PubMed 26743158 )

#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 )

#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 .

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Apibacter adventoris in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF