Cite this strain

(DSM 3646, MC1)

BacDive ID 24105

Type strain

Strain Designation MC1

Culture col. no. DSM 3646 MC1

NCBI tax ID(s) 82

Special Collections DSMZ

Links

MC1 is a bacterium that was isolated from Industrial sewage plant.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 401798

DSM 3646

@ref 20215

Last LPSN update 2026-05-29 08:30:33

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Hyphomicrobiaceae

Genus Hyphomicrobium

Full scientific name Hyphomicrobium Stutzer and Hartleb 1899 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.4
125439	negative	97

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
20609	HYPHOMICROBIUM MEDIUM (DSMZ Medium 162)		Medium recipe at MediaDive	Name: HYPHOMICROBIUM MEDIUM (DSMZ Medium 162) Composition: Methylamine hydrochloride 3.38 g/l Na2HPO4 2.13 g/l KH2PO4 1.36 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Yeast extract 0.1 g/l CaCl2 x 2 H2O 0.006 g/l FeSO4 x 7 H2O 0.003 g/l Na2MoO4 x 2 H2O 0.0015 g/l MnSO4 x H2O 0.001 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
20609	positive	growth	25-30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.081

Spore formation

@ref	Spore formation	Confidence
125439		98.979

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Industrial wastewater
#Engineered	#Waste	#Water treatment plant

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
20609	Industrial sewage plant	Basel	Switzerland	CHE	Europe

Taxonmaps

69479

Global distribution of 16S sequence FN667863 (>99% sequence identity) for Hyphomicrobium sp. from Microbeatlas

Aquatic Samples	360
Soil Samples	509
Animal Samples	102
Plant Samples	281
Total Samples	1252

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM25329v1 assembly for Hyphomicrobium sp. MC1	complete	GCA_000253295	82.3	650716042	717785	97.79

Genome browser: GCA_000253295

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20609	Hyphomicrobium sp. MC1 partial 16S rRNA gene, strain MC1	FN667863	1421		717785

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
ASM25329v1 assembly for Hyphomicrobium sp. MC1
PATRIC: 82.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.08	no
125439	gram_stain	BacteriaNetⓘ	negative	97.00	no
125439	spore_formation	BacteriaNetⓘ	no	98.98	no
125439	motility	BacteriaNetⓘ	yes	60.14	no

Predictions from Diaspora project based on:
Hyphomicrobium sp. MC1 MC1
NCBI: GCA_000253295.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.40	no
125438	anaerobic	anaerobicⓘ	no	92.76	no
125438	aerobic	aerobicⓘ	yes	81.06	no
125438	spore-forming	spore-formingⓘ	no	86.37	no
125438	thermophilic	thermophileⓘ	no	96.31	no
125438	flagellated	motile2+ⓘ	yes	71.40	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Methylotrophic bacteria with cobalamin-dependent mutases in primary metabolism as potential strains for vitamin B(12) production.	Dudko D, Holtmann D, Buchhaupt M	Antonie Van Leeuwenhoek	10.1007/s10482-022-01795-9	2022

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 )
#20609	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3646
#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) .
#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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(DSM 3646, MC1)

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

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000253295

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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