Name: Methylocystis hirsuta DSM 18500
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7218

Type strain:

Species: Methylocystis hirsuta

Culture col. no.: DSM 18500, ATCC BAA-1344, CSC 1

Strain history: <- A. S. Lindner, Dept. Environmental Engineering Sci., Univ. Florida, USA; CSC1 <- S. M. Henry and D. Grbic-Galic, Dept. Civil Engineering, Stanford Univ., USA

NCBI tax ID(s): 369798 (species)

SI-ID 298315

ATCC BAA-1344, DSM 18500, LMG 27832

Section

Methylocystis hirsuta DSM 18500 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from uncontaminated groundwater aquifer in the mid-1980s from Moffett Naval Air Station.

Gram-negative
aerobe
mesophilic
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Methylocystaceae*
	Genus	*Methylocystis*
	Species	**Methylocystis hirsuta**
	Full Scientific Name (LPSN)	Methylocystis hirsuta Lindner et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #31857]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #31857]	Cell length	0.85 µm

[Ref.: #31857]	Cell width	0.45 µm

[Ref.: #31857]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7564]

Culture medium

METHYLOSARCINA QUISQUILLARUM AND M. FIBRATA MEDIUM (DSMZ Medium 921)

[Ref.: #7564]

Culture medium growth

[Ref.: #7564]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7564]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7564]			growth	28 °C
[Ref.: #31857]			optimum	30 °C

[Ref.: #7564]	Temperature range	mesophilic
[Ref.: #31857]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31857]			optimum	7
[Ref.: #31857]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31857]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.908

[Ref.: #31857]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31857]	asparagine ChEBI	+	carbon source
[Ref.: #31857]	aspartate ChEBI	+	carbon source
[Ref.: #31857]	ornithine ChEBI	+	carbon source
[Ref.: #31857]	putrescine ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31857]		catalase	+	1.11.1.6
[Ref.: #31857]		cytochrome oxidase	+	1.9.3.1

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #7564]	Sample type/isolated from	uncontaminated groundwater aquifer in the mid-1980s from Moffett Naval Air Station
[Ref.: #7564]	Geographic location (country and/or sea, region)	California, Mountain View
[Ref.: #7564]	Country	USA
[Ref.: #7564]	Country ISO 3 Code	USA
[Ref.: #7564]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Groundwater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ364433 (>99% sequence identity) for Methylocystis from Microbeatlas

Aquatic Samples	940
Soil Samples	493
Animal Samples	169
Plant Samples	43
Total Samples	1645

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #7564]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #7564]	Methylocystis hirsuta strain CSC1 16S ribosomal RNA gene, partial sequence	DQ364433	1450	ENA	369798 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methylocystis hirsuta strain CSC1	369798.5	wgs	PATRIC	369798 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Methylocystis hirsuta strain CSC1 PATRIC: 369798.5
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methylocystis hirsuta strain CSC1 PATRIC: 369798.5
[Ref.: #69480]	gram-positive	no	98.088	yes
[Ref.: #69480]	anaerobic	no	96.462	yes
[Ref.: #69480]	halophile	no	95.924	no
[Ref.: #69480]	spore-forming	no	94.781	no
[Ref.: #69480]	glucose-util	yes	71.193	no
[Ref.: #69480]	aerobic	yes	75.881	yes
[Ref.: #69480]	motile	no	87.868	no
[Ref.: #69480]	flagellated	no	96.386	yes
[Ref.: #69480]	thermophile	no	97.596	yes
[Ref.: #69480]	glucose-ferment	no	93.726	no

Availability in culture collections External links

[Ref.: #7564]

Culture collection no.

DSM 18500, ATCC BAA-1344, CSC 1

[Ref.: #76670]

SI-ID 298315

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methylocystis silviterrae sp.nov., a high-affinity methanotrophic bacterium isolated from the boreal forest soil.	Tikhonova EN, Grouzdev DS, Avtukh AN, Kravchenko IK	Int J Syst Evol Microbiol	10.1099/ijsem.0.005166	2021	*
Biotechnology	Elucidating the influence of environmental factors on biogas-based polyhydroxybutyrate production by Methylocystis hirsuta CSC1.	Rodriguez Y, Firmino PIM, Arnaiz E, Lebrero R, Munoz R	Sci Total Environ	10.1016/j.scitotenv.2019.135136	2019	*
Metabolism	Genome sequence of Methylocystis hirsuta CSC1, a polyhydroxyalkanoate producing methanotroph.	Bordel S, Rodriguez E, Munoz R	Microbiologyopen	10.1002/mbo3.771	2018	*
Phylogeny	Methylocystis hirsuta sp. nov., a novel methanotroph isolated from a groundwater aquifer.	Lindner AS, Pacheco A, Aldrich HC, Costello Staniec A, Uz I, Hodson DJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64541-0	2007	*

References

#7564

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18500

#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 )

#31857

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28120 (see below)

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#76670

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID298315.1 )

#28120

IJSEM 1891 2007 ( DOI 10.1099/ijs.0.64541-0 , PubMed 17684277 )

* These data were automatically processed and therefore are not curated

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Methylocystis hirsuta strain CSC1

Methylocystis hirsuta strain CSC1

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