Bdellovibrio bacteriovorus (DSM 50701, ATCC 15356, Bd. 100)

Name: Bdellovibrio bacteriovorus (DSM 50701, ATCC 15356, Bd. 100)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1647

Type strain

Strain Designation Bd. 100, HD 100

Culture col. no. DSM 50701 ATCC 15356 Bd. 100 ICPB 3268 NCIMB 9529 1 more

NCBI tax ID(s) 264462 959

Special Collections DSMZ

Links

Bdellovibrio bacteriovorus Bd. 100 is a mesophilic prokaryote that was isolated from soil.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 36348

ATCC 15356,NCIB 9529,DSM 50701,NCIMB 9529

@ref 20215

Last LPSN update 2025-12-16 09:47:09

Domain Pseudomonadati

Phylum Pseudomonadota

Class Oligoflexia

Order Bdellovibrionales

Family Pseudobdellovibrionaceae

Genus Bdellovibrio

Species Bdellovibrio bacteriovorus

Full scientific name Bdellovibrio bacteriovorus Stolp and Starr 1963 (Approved Lists 1980)

BacDive ID	Other strains from **Bdellovibrio bacteriovorus** (5)	Type strain
1646	B. bacteriovorus H-I 100, DSM 12732, ATCC 25622, CIP 107948, ...
1648	B. bacteriovorus Bd. 114, HD 114, DSM 50705, ATCC 15362, ICPB ...
1649	B. bacteriovorus Bd. 127, HD 127, DSM 50708, ICPB 3273
134789	B. bacteriovorus CIP 64.57
137530	B. bacteriovorus CIP 70.83

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	93.967
125439	negative	96.2

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
12720	PEREDIBACTER (DN) MEDIUM (DSMZ Medium 1012)		Medium recipe at MediaDive	Name: PEREDIBACTER (DN) MEDIUM (DSMZ Medium 1012) Composition: Nutrient broth 0.8 g/l MgCl2 x 6 H2O 0.6 g/l Casamino acids 0.5 g/l CaCl2 x 2 H2O 0.3 g/l Yeast extract 0.1 g/l Distilled water
12720	BDELLOVIBRIO BACTERIOVORUS MEDIUM (DSMZ Medium 1012a)		Medium recipe provided by DSMZ

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
12720	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	91.1

Spore formation

@ref	Spore formation	Confidence
125439		98.7

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	adipate degradation	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	vitamin K metabolism	100	5 of 5
66794	methylglyoxal degradation	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	aerobactin biosynthesis	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	cyanate degradation	100	3 of 3
66794	starch degradation	90	9 of 10
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	palmitate biosynthesis	81.82	18 of 22
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycine betaine biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	chorismate metabolism	77.78	7 of 9
66794	lipid A biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	butanoate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	purine metabolism	73.4	69 of 94
66794	NAD metabolism	72.22	13 of 18
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	propanol degradation	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	threonine metabolism	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	leucine metabolism	69.23	9 of 13
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	d-mannose degradation	66.67	6 of 9
66794	enterobactin biosynthesis	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	pyrimidine metabolism	64.44	29 of 45
66794	citric acid cycle	64.29	9 of 14
66794	metabolism of disaccharids	63.64	7 of 11
66794	gluconeogenesis	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	alanine metabolism	62.07	18 of 29
66794	lipoate biosynthesis	60	3 of 5
66794	Entner Doudoroff pathway	60	6 of 10
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	tetrahydrofolate metabolism	57.14	8 of 14
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	glutathione metabolism	57.14	8 of 14
66794	serine metabolism	55.56	5 of 9
66794	non-pathway related	55.26	21 of 38
66794	d-xylose degradation	54.55	6 of 11
66794	methionine metabolism	53.85	14 of 26
66794	acetate fermentation	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	isoleucine metabolism	50	4 of 8
66794	glycogen biosynthesis	50	2 of 4
66794	tyrosine metabolism	50	7 of 14
66794	tryptophan metabolism	50	19 of 38
66794	glycine metabolism	50	5 of 10
66794	lysine metabolism	50	21 of 42
66794	cyclohexanol degradation	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	lipid metabolism	48.39	15 of 31
66794	isoprenoid biosynthesis	46.15	12 of 26
66794	proline metabolism	45.45	5 of 11
66794	pentose phosphate pathway	45.45	5 of 11
66794	carotenoid biosynthesis	45.45	10 of 22
66794	histidine metabolism	44.83	13 of 29
66794	arachidonic acid metabolism	44.44	8 of 18
66794	molybdenum cofactor biosynthesis	44.44	4 of 9
66794	valine metabolism	44.44	4 of 9
66794	cysteine metabolism	44.44	8 of 18
66794	oxidative phosphorylation	43.96	40 of 91
66794	polyamine pathway	43.48	10 of 23
66794	heme metabolism	42.86	6 of 14
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	arachidonate biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	vitamin B1 metabolism	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	degradation of sugar alcohols	37.5	6 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	37.5	3 of 8
66794	ketogluconate metabolism	37.5	3 of 8
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	vitamin B6 metabolism	36.36	4 of 11
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	IAA biosynthesis	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	sphingosine metabolism	33.33	2 of 6
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	ascorbate metabolism	31.82	7 of 22
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	urea cycle	30.77	4 of 13
66794	phenol degradation	30	6 of 20
66794	degradation of pentoses	28.57	8 of 28
66794	mevalonate metabolism	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	alginate biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	bile acid biosynthesis, neutral pathway	23.53	4 of 17
66794	sulfate reduction	23.08	3 of 13
66794	nitrate assimilation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
12720	soil	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AJ292759 (>99% sequence identity) for Bdellovibrio bacteriovorus subclade from Microbeatlas

Aquatic Samples	1150
Soil Samples	402
Animal Samples	411
Plant Samples	226
Total Samples	2189

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
12720	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM19617v1 assembly for Bdellovibrio bacteriovorus HD100	complete	GCA_000196175	264462.9	637000030	264462	94.84

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Bdellovibrio bacteriovorus 16S rRNA gene, partial cds	M61241	716		959
12720	Bdellovibrio bacteriovorus partial 16S rRNA gene, strain HD 100, DSM 50701	AJ292759	1334		264462

GC content

@ref	GC-content (mol%)	Method
12720	50	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Bdellovibrio bacteriovorus HD100
PATRIC: 264462.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.70	no
125439	motility	BacteriaNetⓘ	yes	77.80	no
125439	gram_stain	BacteriaNetⓘ	negative	96.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	91.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bdellovibrio bacteriovorus HD100
PATRIC: 264462.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	93.97	no
125438	anaerobic	anaerobicⓘ	no	86.14	no
125438	spore-forming	spore-formingⓘ	no	79.58	no
125438	aerobic	aerobicⓘ	yes	63.28	no
125438	thermophilic	thermophileⓘ	no	90.44	yes
125438	flagellated	motile2+ⓘ	yes	52.19	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Bacterial histone HBb from Bdellovibrio bacteriovorus compacts DNA by bending.	Hu Y, Schwab S, Deiss S, Escudeiro P, van Heesch T, Joiner JD, Vreede J, Hartmann MD, Lupas AN, Alvarez BH, Alva V, Dame RT.	Nucleic Acids Res	10.1093/nar/gkae485	2024
Genetics	Distinct dynamics and proximity networks of hub proteins at the prey-invading cell pole in a predatory bacterium.	Remy O, Santin YG, Jonckheere V, Tesseur C, Kaljevic J, Van Damme P, Laloux G.	J Bacteriol	10.1128/jb.00014-24	2024
Metabolism	Bdellovibrio bacteriovorus inhibits Staphylococcus aureus biofilm formation and invasion into human epithelial cells.	Monnappa AK, Dwidar M, Seo JK, Hur JH, Mitchell RJ.	Sci Rep	10.1038/srep03811	2014
	Venatorbacter cucullus gen. nov sp. nov a novel bacterial predator.	Saeedi A, Cummings NJ, McLean D, Connerton IF, Connerton PL.	Sci Rep	10.1038/s41598-021-00865-8	2021
	Effect of primers hybridizing to different evolutionarily conserved regions of the small-subunit rRNA gene in PCR-based microbial community analyses and genetic profiling.	Schmalenberger A, Schwieger F, Tebbe CC.	Appl Environ Microbiol	10.1128/aem.67.8.3557-3563.2001	2001
	Predatory bacteria prevent the proliferation of intraocular Serratia marcescens and fluoroquinolone-resistant Pseudomonas aeruginosa.	Romanowski EG, Brothers KM, Calvario RC, Stella NA, Kim T, Elsayed M, Kadouri DE, Shanks RMQ.	Microbiology (Reading)	10.1099/mic.0.001433	2024
	Predatory bacteria can intensify lung-injury in a multidrug-resistant Acinetobacter baumannii pneumonia model in rat.	Mohsenipour Z, Kianian F, Jahanbin B, Abtahi HR, Ghazanfari T, Edalatifard M, Amanpour S, Skurnik M, Arazi P, Feizabadi MM.	Front Microbiol	10.3389/fmicb.2025.1512119	2025
	Inhaled predatory bacteria-loaded large porous microspheres to eradicate drug-resistant Pseudomonas aeruginosa from the lung.	Liu Y, Wang W, Li R, Zhang H, Guo W, Yuan B, Du L, Jin Y.	Mater Today Bio	10.1016/j.mtbio.2025.101562	2025
Pathogenicity	Predatory bacteria can reduce Pseudomonas aeruginosa induced corneal perforation and proliferation in a rabbit keratitis model.	Romanowski EG, Stella NA, Brazile BL, Lathrop KL, Franks JM, Sigal IA, Kim T, Elsayed M, Kadouri DE, Shanks RMQ.	Ocul Surf	10.1016/j.jtos.2023.05.002	2023
	Biological Control of Acinetobacter baumannii: In Vitro and In Vivo Activity, Limitations, and Combination Therapies.	Havenga B, Reyneke B, Waso-Reyneke M, Ndlovu T, Khan S, Khan W.	Microorganisms	10.3390/microorganisms10051052	2022
	Self-demise of soft rot bacteria by activation of microbial predators by pectin-based carriers.	Sason G, Yedidia I, Nussinovitch A, Chalegoua E, Pun M, Jurkevitch E.	Microb Biotechnol	10.1111/1751-7915.14271	2023
	Predatory bacterial hydrogels for topical treatment of infected wounds.	Liu Y, Zhuang B, Yuan B, Zhang H, Li J, Wang W, Li R, Du L, Ding P, Jin Y.	Acta Pharm Sin B	10.1016/j.apsb.2022.05.005	2023
	Evaluation of Predation Capability of Periodontopathogens Bacteria by Bdellovibrio Bacteriovorus HD100. An in Vitro Study.	Patini R, Cattani P, Marchetti S, Isola G, Quaranta G, Gallenzi P.	Materials (Basel)	10.3390/ma12122008	2019
	Clearance of Gram-Negative Bacterial Pathogens from the Ocular Surface by Predatory Bacteria.	Romanowski EG, Gupta S, Pericleous A, Kadouri DE, Shanks RMQ.	Antibiotics (Basel)	10.3390/antibiotics10070810	2021
Pathogenicity	Susceptibility of colistin-resistant pathogens to predatory bacteria.	Dharani S, Kim DH, Shanks RMQ, Doi Y, Kadouri DE.	Res Microbiol	10.1016/j.resmic.2017.09.001	2018
	Predatory Bacteria Attenuate Klebsiella pneumoniae Burden in Rat Lungs.	Shatzkes K, Singleton E, Tang C, Zuena M, Shukla S, Gupta S, Dharani S, Onyile O, Rinaggio J, Connell ND, Kadouri DE.	mBio	10.1128/mbio.01847-16	2016
	Examining the efficacy of intravenous administration of predatory bacteria in rats.	Shatzkes K, Singleton E, Tang C, Zuena M, Shukla S, Gupta S, Dharani S, Rinaggio J, Kadouri DE, Connell ND.	Sci Rep	10.1038/s41598-017-02041-3	2017
Metabolism	An Extended Cyclic Di-GMP Network in the Predatory Bacterium Bdellovibrio bacteriovorus.	Rotem O, Nesper J, Borovok I, Gorovits R, Kolot M, Pasternak Z, Shin I, Glatter T, Pietrokovski S, Jenal U, Jurkevitch E.	J Bacteriol	10.1128/jb.00422-15	2016
	Characterizing species interactions that contribute to biofilm formation in a multispecies model of a potable water bacterial community.	Thompson AF, English EL, Nock AM, Willsey GG, Eckstrom K, Cairns B, Bavelock M, Tighe SW, Foote A, Shulman H, Pericleous A, Gupta S, Kadouri DE, Wargo MJ.	Microbiology (Reading)	10.1099/mic.0.000849	2020
	Parasitic interaction of Bdellovibrio bacteriovorus with other bacteria.	Starr MP, Baigent NL.	J Bacteriol	10.1128/jb.91.5.2006-2017.1966	1966
Phylogeny	Molecular heterogeneity of the Bdellovibrios: evidence of two new species.	Seideler RJ, Mandel M, Baptist JN.	J Bacteriol	10.1128/jb.109.1.209-217.1972	1972
	Shedding light on microbial predator-prey population dynamics using a quantitative bioluminescence assay.	Im H, Kim D, Ghim CM, Mitchell RJ	Microb Ecol	10.1007/s00248-013-0323-z	2013
	Assessing the effects of bacterial predation on membrane biofouling.	Kim EH, Dwidar M, Mitchell RJ, Kwon YN	Water Res	10.1016/j.watres.2013.07.023	2013
Proteome	Bacterial predators possess unique membrane lipid structures.	Muller FD, Beck S, Strauch E, Linscheid MW	Lipids	10.1007/s11745-011-3614-5	2011
Genetics	Bdellovibrio bacteriovorus strains produce a novel major outer membrane protein during predacious growth in the periplasm of prey bacteria.	Beck S, Schwudke D, Strauch E, Appel B, Linscheid M	J Bacteriol	10.1128/JB.186.9.2766-2773.2004	2004

References

#12720	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 50701
#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 )
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Bdellovibrio bacteriovorus (DSM 50701, ATCC 15356, Bd. 100)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000196175

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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