Hydrogenophaga pseudoflava (DSM 1084, Z-1107)

Name: Hydrogenophaga pseudoflava (DSM 1084, Z-1107)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2967

Type strain

Strain Designation Z-1107

Culture col. no. DSM 1084 Z-1107

NCBI tax ID(s) 47421

Special Collections DSMZ

History DSMZ <- G. A. Zavarzin; Z-1107 ("Pseudomonas carboxydoflava", proposed type strain)

Links

Hydrogenophaga pseudoflava Z-1107 is a bacterium that was isolated from mud and soil.

genome sequence Bacteria

Name and taxonomic classification

SI-ID 3019

LMG 7584,CCUG 22764,DSM 1084,LMG 8355,CCUG 20741 A,CCUG 20741,VKM B-1330

@ref 20215

Last LPSN update 2026-05-29 08:25:35

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Comamonadaceae

Genus Hydrogenophaga

Species Hydrogenophaga pseudoflava

Full scientific name Hydrogenophaga pseudoflava (Auling et al. 1978) Willems et al. 1989

Synonyms (1)

Pseudomonas pseudoflava

BacDive ID	Other strains from **Hydrogenophaga pseudoflava** (2)	Type strain
2966	H. pseudoflava GA3, GA 3, DSM 1034, ATCC 33668, CCUG 13799, ... (type strain)
144074	H. pseudoflava CCUG 22765, LMG 8356t1, LMG 8356 1

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
538	CARBON MONOXIDE OXIDIZER MEDIUM (DSMZ Medium 133)		Medium recipe at MediaDive	Name: CARBON MONOXIDE OXIDIZER MEDIUM (DSMZ Medium 133) Composition: Agar 12.0 g/l Na2HPO4 x 12 H2O 4.5 g/l NH4Cl 1.5 g/l KH2PO4 0.75 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.03 g/l Ferric ammonium citrate 0.018 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
538	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.622

Spore formation

@ref	Spore formation	Confidence
125439		99.096
125438		90.113

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Mud (Sludge)
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
538	mud and soil	Moscwa river	Russia	RUS	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
538	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
66792	ASM435386v1 assembly for Hydrogenophaga pseudoflava DSM 1084	complete	GCA_004353865	47421.14	2841100635	47421	98.66

GC content

538

GC-content (mol%)63.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM435386v1 assembly for Hydrogenophaga pseudoflava DSM 1084
BV-BRC: 47421.14

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.62	no
125439	gram_stain	BacteriaNetⓘ	negative	89.97	no
125439	motility	BacteriaNetⓘ	yes	77.87	no
125439	spore_formation	BacteriaNetⓘ	no	99.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Hydrogenophaga pseudoflava DSM 1084
NCBI: GCA_004353865.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	92.10	no
125438	aerobic	aerobicⓘ	yes	82.16	no
125438	spore-forming	spore-formingⓘ	no	90.11	no
125438	thermophilic	thermophileⓘ	no	99.97	no
125438	flagellated	motile2+ⓘ	yes	88.52	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	PromA Plasmids Are Instrumental in the Dissemination of Linuron Catabolic Genes Between Different Genera.	Werner J, Nour E, Bunk B, Sproer C, Smalla K, Springael D, Ozturk B.	Front Microbiol	10.3389/fmicb.2020.00149	2020
Metabolism	Cloning and molecular characterization of the genes for carbon monoxide dehydrogenase and localization of molybdopterin, flavin adenine dinucleotide, and iron-sulfur centers in the enzyme of Hydrogenophaga pseudoflava.	Kang BS, Kim YM.	J Bacteriol	10.1128/jb.181.18.5581-5590.1999	1999
Metabolism	Exploiting Hydrogenophaga pseudoflava for aerobic syngas-based production of chemicals.	Grenz S, Baumann PT, Ruckert C, Nebel BA, Siebert D, Schwentner A, Eikmanns BJ, Hauer B, Kalinowski J, Takors R, Blombach B	Metab Eng	10.1016/j.ymben.2019.07.006	2019
Enzymology	Cloning and characterization of ribulose bisphosphate carboxylase gene of a carboxydobacterium, hydrogenophagea pseudoflava DSM 1084.	Lee SN, Kim YM	Mol Cells		1998

References

#538	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1084
#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 )
#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) .
#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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Hydrogenophaga pseudoflava (DSM 1084, Z-1107)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_004353865

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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