Cite this strain

Methanoculleus chikugoensis (DSM 13459, JCM 10825, MG62)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7029

Type strain

Strain Designation MG62

Culture col. no. DSM 13459 JCM 10825 MG62 NBRC 101202

NCBI tax ID(s) 1293042 118126

Special Collections DSMZ JCM

Links

Name and taxonomic classification

Methanoculleus chikugoensis MG62 is an anaerobe, mesophilic archaeon that was isolated from paddy field soil.

anaerobe mesophilic genome sequence 16S sequence Archaea

SI-ID 311043

DSM 13459, JCM 10825, NBRC 101202

Last LPSN update 2024-12-09 10:43:54

Domain Archaea

Phylum Methanobacteriota

Class "Methanomicrobia"

Order Methanomicrobiales

Family Methanomicrobiaceae

Genus Methanoculleus

Species Methanoculleus chikugoensis

Full scientific name Methanoculleus chikugoensis Dianou et al. 2001

BacDive ID	Other strains from **Methanoculleus chikugoensis** (1)	Type strain
158019	M. chikugoensis L21-II-0, DSM 100195

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.3

Colony morphology

5051

Incubation period8-14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5051	METHANOCULLEUS SP. MEDIUM (DSMZ Medium 141b)		Medium recipe at MediaDive	Name: METHANOCULLEUS SP. MEDIUM (DSMZ Medium 141b) Composition: NaHCO3 4.89237 g/l MgCl2 x 6 H2O 3.91389 g/l Yeast extract 1.95695 g/l Trypticase peptone 1.95695 g/l Na-acetate 0.978474 g/l Na2S x 9 H2O 0.489237 g/l L-Cysteine HCl x H2O 0.489237 g/l KCl 0.332681 g/l NH4Cl 0.244618 g/l K2HPO4 0.136986 g/l MgSO4 x 7 H2O 0.0293542 g/l Nitrilotriacetic acid 0.0146771 g/l NaCl 0.00978474 g/l MnSO4 x H2O 0.00489237 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00195695 g/l CoSO4 x 7 H2O 0.00176125 g/l ZnSO4 x 7 H2O 0.00176125 g/l FeSO4 x 7 H2O 0.000978474 g/l CaCl2 x 2 H2O 0.000978474 g/l Sodium resazurin 0.000489237 g/l NiCl2 x 6 H2O 0.000293542 g/l AlK(SO4)2 x 12 H2O 0.000195695 g/l CuSO4 x 5 H2O 9.78474e-05 g/l Pyridoxine hydrochloride 9.78474e-05 g/l Na2MoO4 x 2 H2O 9.78474e-05 g/l H3BO3 9.78474e-05 g/l Nicotinic acid 4.89237e-05 g/l Riboflavin 4.89237e-05 g/l (DL)-alpha-Lipoic acid 4.89237e-05 g/l Thiamine HCl 4.89237e-05 g/l Calcium D-(+)-pantothenate 4.89237e-05 g/l p-Aminobenzoic acid 4.89237e-05 g/l Folic acid 1.95695e-05 g/l Biotin 1.95695e-05 g/l Na2WO4 x 2 H2O 3.91389e-06 g/l Na2SeO3 x 5 H2O 2.93542e-06 g/l Vitamin B12 9.78474e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5051	positive	growth	28	mesophilic
67770	positive	growth	30	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		96

Oxygen tolerance

@ref	Oxygen tolerance
5051	anaerobe
125438	anaerobe
125439	obligate anaerobe

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Condition	#Anoxic (anaerobic)	-
#Condition	#Humid	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5051	paddy field soil	Fukuoka prefecture, Chikugo city	Japan	JPN	Asia
67770	Paddy field soil	Chikugo, Fukuoka	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB038795 (>99% sequence identity) for Methanoculleus chikugoensis subclade from Microbeatlas

Aquatic Samples	46
Soil Samples	1
Animal Samples
Plant Samples	1
Total Samples	48

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
5051	1	Risk group (German classification) According to TRBA 466

Sequence information

GC content

@ref	GC-content (mol%)	Method
5051	62.2	high performance liquid chromatography (HPLC)

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5051	Methanoculleus chikugoensis gene for 16S rRNA, partial sequence, strain:MG62	AB038795	1430		118126

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Methanoculleus chikugoensis MG62	GCA_019669965	complete		118126
66792	Methanoculleus chikugoensis JCM 10825	GCA_001315965	contig		1293042
66792	Methanoculleus chikugoensis strain MG62	118126.5	complete	PATRIC	118126
66792	Methanoculleus chikugoensis JCM 10825	1293042.3	wgs	PATRIC	1293042

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Methanoculleus chikugoensis MG62
NCBI: GCA_019669965

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	99.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.30	no
125439	motility	BacteriaNetⓘ	no	55.20	no
125439	spore_formation	BacteriaNetⓘ	no	96.00	no

Predictions from Diaspora project based on:
Methanoculleus chikugoensis MG62
NCBI: GCA_019669965.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	70.37	no
125438	anaerobic	anaerobicⓘ	yes	90.13	no
125438	aerobic	aerobicⓘ	no	91.16	yes
125438	spore-forming	spore-formingⓘ	no	88.15	no
125438	thermophilic	thermophileⓘ	no	75.91	no
125438	flagellated	motile2+ⓘ	no	87.00	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methanoculleus chikugoensis sp. nov., a novel methanogenic archaeon isolated from paddy field soil in Japan, and DNA-DNA hybridization among Methanoculleus species.	Dianou D, Miyaki T, Asakawa S, Morii H, Nagaoka K, Oyaizu H, Matsumoto S	Int J Syst Evol Microbiol	10.1099/00207713-51-5-1663	2001

Straininfo Link

@ref	Straininfo	Culture collections
76489	311043	DSM 13459, JCM 10825, NBRC 101202

Culture collection no.

Culture collection no.
DSM 13459
JCM 10825
MG62
NBRC 101202

References

#5051	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13459
#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) .
#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 .
#76489	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-ID311043.1 )
#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 .

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