Haematospirillum jordaniae (DSM 28903, CCUG 66838, H5569)

Name: Haematospirillum jordaniae (DSM 28903, CCUG 66838, H5569)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132371

Type strain

Strain Designation H5569

Culture col. no. DSM 28903 CCUG 66838 H5569

NCBI tax ID(s) 1549855

Special Collections DSMZ CCUG

Links

Haematospirillum jordaniae H5569 is a microaerophile, mesophilic prokaryote that was isolated from human blood, 59-year-old male.

microaerophile mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 406791

DSM 28903,CCUG 66838

@ref 20215

Last LPSN update 2025-12-16 10:01:30

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Rhodospirillaceae

Genus Haematospirillum

Species Haematospirillum jordaniae

Full scientific name Haematospirillum jordaniae Humrighouse et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.9
125438	negative	97.949

Colony morphology

63361

Incubation period2 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24160	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)		Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
24160	positive	growth	37	mesophilic
63361	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

63361

Oxygen tolerancemicroaerophile

Spore formation

@ref	Spore formation	Confidence
125439		99.8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68373	30089 ChEBI	acetate	-	assimilation	from API CAM
68373	16947 ChEBI	citrate	-	assimilation	from API CAM
68373	17634 ChEBI	D-glucose	-	assimilation	from API CAM
68373	606565 ChEBI	hippurate	-	hydrolysis	from API CAM
68373	25115 ChEBI	malate	-	assimilation	from API CAM
68373	17632 ChEBI	nitrate	-	reduction	from API CAM
68373	17272 ChEBI	propionate	-	assimilation	from API CAM
68373	30031 ChEBI	succinate	-	assimilation	from API CAM
68373	78019 ChEBI	triphenyltetrazolium chloride	-	reduction	from API CAM
68373	16199 ChEBI	urea	-	hydrolysis	from API CAM

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.
68373	474053	cefazolin	224 µg	from API CAM
68373	48923	erythromycin	14 µg	from API CAM
68373	100147	nalidixic acid	84 µg	from API CAM

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68373	16136 ChEBI	hydrogen sulfide		from API CAM

Enzymes

@ref	Value	Activity	Ec
68373	alkaline phosphatase	+	3.1.3.1	from API CAM
68373	esterase	-		from API CAM
68373	gamma-glutamyltransferase	-	2.3.2.2	from API CAM
68373	L-arginine arylamidase	-		from API CAM
68373	L-aspartate arylamidase	-	3.4.11.21	from API CAM
68373	pyrrolidonyl arylamidase	-	3.4.19.3	from API CAM
68373	urease	-	3.5.1.5	from API CAM

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ppGpp biosynthesis	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	adipate degradation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	cardiolipin biosynthesis	100	7 of 7
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	vitamin B1 metabolism	92.31	12 of 13
66794	threonine metabolism	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	NAD metabolism	83.33	15 of 18
66794	peptidoglycan biosynthesis	80	12 of 15
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	vitamin B6 metabolism	72.73	8 of 11
66794	Entner Doudoroff pathway	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	phenylalanine metabolism	69.23	9 of 13
66794	glutamate and glutamine metabolism	67.86	19 of 28
66794	purine metabolism	67.02	63 of 94
66794	serine metabolism	66.67	6 of 9
66794	formaldehyde oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	d-mannose degradation	66.67	6 of 9
66794	alanine metabolism	65.52	19 of 29
66794	glycolysis	64.71	11 of 17
66794	glutathione metabolism	64.29	9 of 14
66794	heme metabolism	64.29	9 of 14
66794	proline metabolism	63.64	7 of 11
66794	pentose phosphate pathway	63.64	7 of 11
66794	gluconeogenesis	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	lipoate biosynthesis	60	3 of 5
66794	pyrimidine metabolism	60	27 of 45
66794	propionate fermentation	60	6 of 10
66794	citric acid cycle	57.14	8 of 14
66794	valine metabolism	55.56	5 of 9
66794	non-pathway related	55.26	21 of 38
66794	lysine metabolism	54.76	23 of 42
66794	urea cycle	53.85	7 of 13
66794	ethanol fermentation	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	alginate biosynthesis	50	2 of 4
66794	glycogen biosynthesis	50	2 of 4
66794	isoleucine metabolism	50	4 of 8
66794	oxidative phosphorylation	49.45	45 of 91
66794	arachidonic acid metabolism	44.44	8 of 18
66794	cysteine metabolism	44.44	8 of 18
66794	molybdenum cofactor biosynthesis	44.44	4 of 9
66794	propanol degradation	42.86	3 of 7
66794	tyrosine metabolism	42.86	6 of 14
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	tryptophan metabolism	42.11	16 of 38
66794	arginine metabolism	41.67	10 of 24
66794	glycine betaine biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	glycogen metabolism	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	lipid metabolism	38.71	12 of 31
66794	leucine metabolism	38.46	5 of 13
66794	ketogluconate metabolism	37.5	3 of 8
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	cyanate degradation	33.33	1 of 3
66794	octane oxidation	33.33	1 of 3
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	enterobactin biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	polyamine pathway	30.43	7 of 23
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	degradation of sugar acids	28	7 of 25
66794	degradation of hexoses	27.78	5 of 18
66794	histidine metabolism	27.59	8 of 29
66794	metabolism of disaccharids	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	ascorbate metabolism	27.27	6 of 22
66794	degradation of pentoses	25	7 of 28
66794	toluene degradation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	degradation of sugar alcohols	25	4 of 16
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	carotenoid biosynthesis	22.73	5 of 22

API CAM

@ref	URE	Reduction of nitrateNIT	EsteraseEST	HIP	GGT	TTC	PYRA	L-arginine arylamidaseArgA	L-aspartic acid arylamidaseAspA	PAL	H2S productionH2S	GLU	SUT	NAL	CFZ	ACE	PROP	MLT	CIT	Erythromycin resistance (+) sensitivity (-)ERO	CAT
24160	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	#Male
#Host Body Product	#Fluids	#Blood

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
24160	human blood, 59-year-old male		Virginia	USA	USA	North America
63361	Human blood	2000	Virginia	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence KM083603 (>99% sequence identity) for Haematospirillum jordaniae subclade from Microbeatlas

Aquatic Samples	4504
Soil Samples	1366
Animal Samples	753
Plant Samples	249
Total Samples	6872

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
24160	yes, in single cases	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM161197v1 assembly for Haematospirillum jordaniae H5569	complete	GCA_001611975	1549855.20	2718217839	1549855	96.56
66792	ASM1210261v1 assembly for Haematospirillum jordaniae H5569	contig	GCA_012102615	1549855.10	8118683281	1549855	71.63

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24160	Haematospirillum jordaniae strain H5569 16S ribosomal RNA gene, partial sequence	KM083603	1408		1549855

GC content

@ref	GC-content (mol%)	Method
24160	49.9	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Haematospirillum jordaniae H5569
NCBI: GCA_001611975

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.80	no
125439	motility	BacteriaNetⓘ	yes	86.20	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	80.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Haematospirillum jordaniae H5569
NCBI: GCA_001611975.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.95	no
125438	anaerobic	anaerobicⓘ	no	83.65	yes
125438	aerobic	aerobicⓘ	yes	55.33	no
125438	spore-forming	spore-formingⓘ	no	89.32	no
125438	thermophilic	thermophileⓘ	no	93.04	yes
125438	flagellated	motile2+ⓘ	yes	69.49	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Haematospirillum jordaniae gen. nov., sp. nov., isolated from human blood samples.	Humrighouse BW, Emery BD, Kelly AJ, Metcalfe MG, Mbizo J, McQuiston JR	Antonie Van Leeuwenhoek	10.1007/s10482-016-0654-0	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 )
#24160	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28903
#63361	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 66838
#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 )
#68373	Automatically annotated from API CAM .
#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 .
#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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Haematospirillum jordaniae (DSM 28903, CCUG 66838, H5569)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

Pathway annotation

API CAM

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001611975

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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