Name: Methanocella paludicola SANAE
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17667

Type strain:

Species: Methanocella paludicola

Strain Designation: SANAE

Culture col. no.: DSM 17711, JCM 13418, NBRC 101707

Strain history: S. Sakai strain SANAE.

NCBI tax ID(s): 570267 (species)

SI-ID 343805

DSM 17711, JCM 13418, NBRC 101707

Section

Methanocella paludicola SANAE is an anaerobe, mesophilic, Gram-negative archaeon that was isolated from rice paddy soil.

Gram-negative
rod-shaped
anaerobe
mesophilic
16S sequence
Archaea
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Methanobacteriota*
	Class	"Methanomicrobia"
	Order	*Methanocellales*
	Family	*Methanocellaceae*
	Genus	*Methanocella*
	Species	**Methanocella paludicola**
	Full Scientific Name (LPSN)	Methanocella paludicola Sakai et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32488]	Gram stain	negative

[Ref.: #32488]	Cell shape	rod-shaped

[Ref.: #32488]	Motility	no

[Ref.: #7153]

Incubation period

8-14 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7153]

Culture medium

PELOTOMACULUM MEDIUM (DSMZ Medium 960)

[Ref.: #7153]

Culture medium growth

[Ref.: #7153]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7153]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7153]	growth	37 °C
[Ref.: #32488]	growth	25-40 °C
[Ref.: #32488]	optimum	36 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #7153]	Temperature range	mesophilic
[Ref.: #32488]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32488]			optimum	7
[Ref.: #32488]			growth	6.5-7.8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7153]

Oxygen tolerance

anaerobe

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32488]		acetate ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #32488]		methane ChEBI	yes

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

[Ref.: #7153]	Sample type/isolated from	rice paddy soil
[Ref.: #7153]	Geographic location (country and/or sea, region)	Niigata, Nakanoshima
[Ref.: #7153]	Country	Japan
[Ref.: #7153]	Country ISO 3 Code	JPN
[Ref.: #7153]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Rice paddy soil in Nagaoka
[Ref.: #67770]	Geographic location (country and/or sea, region)	Niigata
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB196288 (>99% sequence identity) for Methanocella paludicola subclade from Microbeatlas

Aquatic Samples	70
Soil Samples	165
Animal Samples	4
Plant Samples	54
Total Samples	293

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

[Ref.: #7153]

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.: #7153]	Methanocella paludicola SANAE gene for 16S rRNA, partial sequence	AB196288	1437	ENA	304371 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methanocella paludicola SANAE	GCA_000011005	complete	GenBank	304371 tax ID	*
[Ref.: #66792]	Methanocella paludicola SANAE	2505679075	complete	JGI IMG/M	304371 tax ID	*
[Ref.: #66792]	Methanocella paludicola SANAE	304371.9	complete	PATRIC	304371 tax ID	*

[Ref.: #7153]	GC-content	56.6 mol%
[Ref.: #67770]	GC-content	56.6 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methanocella paludicola SANAE SANAE NCBI: GCA_000011005.1
[Ref.: #69480]	motile	no	91.058	yes
[Ref.: #69480]	flagellated	no	97.417	yes
[Ref.: #69480]	gram-positive	no	93.894	no
[Ref.: #69480]	anaerobic	yes	96.351	yes
[Ref.: #69480]	halophile	no	88.138	no
[Ref.: #69480]	spore-forming	no	95.239	no
[Ref.: #69480]	thermophile	no	51.948	yes
[Ref.: #69480]	glucose-util	yes	71.527	no
[Ref.: #69480]	aerobic	no	95.203	yes
[Ref.: #69480]	glucose-ferment	no	67.004	no

Availability in culture collections External links

[Ref.: #7153]

Culture collection no.

DSM 17711, JCM 13418, NBRC 101707

[Ref.: #86658]

SI-ID 343805

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Robust Mercury Methylation across Diverse Methanogenic Archaea.	Gilmour CC, Bullock AL, McBurney A, Podar M, Elias DA	mBio	10.1128/mBio.02403-17	2018	*
Phylogeny	Methanocella conradii sp. nov., a thermophilic, obligate hydrogenotrophic methanogen, isolated from Chinese rice field soil.	Lu Z, Lu Y	PLoS One	10.1371/journal.pone.0035279	2012	*
Phylogeny	Methanocella arvoryzae sp. nov., a hydrogenotrophic methanogen isolated from rice field soil.	Sakai S, Conrad R, Liesack W, Imachi H	Int J Syst Evol Microbiol	10.1099/ijs.0.020883-0	2010	*
Phylogeny	Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov.	Sakai S, Imachi H, Hanada S, Ohashi A, Harada H, Kamagata Y	Int J Syst Evol Microbiol	10.1099/ijs.0.65571-0	2008	*

References

#7153

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17711

#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 )

#32488

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 #28708 (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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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) .

#86658

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-ID343805.1 )

#28708

IJSEM 929 2008 ( DOI 10.1099/ijs.0.65571-0 , PubMed 18398197 )

* These data were automatically processed and therefore are not curated

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Methanocella paludicola SANAE SANAE

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