Archive BacDiveID:10.13145/bacdive6989.20250331.9.3

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BacDive ID 6989

Type strain

Strain Designation JJ

Culture col. no. DSM 2067 ATCC 43000 JCM 10722 JJ NBRC 101831

NCBI tax ID(s) 39152

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For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 701

BacDive-ID: 6989

DSM-Number: 2067

keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic

description: Methanococcus maripaludis JJ is an anaerobe, mesophilic archaeon that was isolated from marine marsh sediment.

NCBI tax id

NCBI tax id: 39152
Matching level: species

strain history

@ref	history
701	<- W. J. Jones, University of Illinois, Urbana, USA; JJ <- W. J. Jones {1974}
67770	DSM 2067 <-- W. J. Jones JJ.

doi: 10.13145/bacdive6989.20250331.9.3

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/archaea
keyword: phylum/methanobacteriota
domain: Archaea
phylum: Methanobacteriota
class: Methanococci
order: Methanococcales
family: Methanococcaceae
genus: Methanococcus
species: Methanococcus maripaludis
full scientific name: Methanococcus maripaludis Jones et al. 1984
synonyms
- @ref: 20215
- synonym: Methanococcus deltae

@ref: 701

domain: Archaea

phylum: Euryarchaeota

class: Methanococci

order: Methanococcales

family: Methanococcaceae

genus: Methanococcus

species: Methanococcus maripaludis

full scientific name: Methanococcus maripaludis Jones et al. 1984

strain designation: JJ

type strain: yes

Morphology

cell morphology

@ref: 125439
gram stain: negative
confidence: 94.3

Culture and growth conditions

culture medium

@ref: 701
name: METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141)
growth: yes
link: https://mediadive.dsmz.de/medium/141
composition: Name: METHANOGENIUM MEDIUM (H2/CO2) (DSMZ Medium 141) 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
701	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
701	anaerobe
125439	facultative anaerobe	97.8

spore formation

@ref: 125439
spore formation: no
confidence: 96

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
701	marine marsh sediment	South Carolina, Pawley's island	USA	USA	North America
67770	Salt marsh sediment near Pawley's Island	SC	USA	USA	North America

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

taxonmaps

@ref: 69479
File name: preview.99_191917.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17939;96_69441;97_90195;98_122596;99_191917&stattab=map
Last taxonomy: Methanococcus
16S sequence: KC139247
Sequence Identity:
Total samples: 220
soil counts: 9
aquatic counts: 93
animal counts: 118

Safety information

risk assessment

@ref: 701
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	Methanococcus maripaludis culture DSM:2067 16S ribosomal RNA gene, partial sequence	JQ346753	1262	nuccore	39152
701	Methanococcus maripaludis 16S ribosomal RNA, complete sequence	U38484	1413	nuccore	39152
67770	Methanococcus maripaludis strain NBRC 101831 16S ribosomal RNA gene, partial sequence	KC139247	1400	nuccore	39152

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Methanococcus maripaludis DSM 2067	GCA_002945325	complete	ncbi	39152
66792	Methanococcus maripaludis DSM 2067	2814123256	complete	img	39152
66792	Methanococcus maripaludis strain DSM 2067	39152.8	complete	patric	39152

GC content

@ref	GC-content	method
701	33	sequence analysis
67770	33.4	high performance liquid chromatography (HPLC)
67770	33	Buoyant density centrifugation (BD)

Genome-based predictions

predictions

@ref	model	trait	description	prediction	confidence	training_data
125438	gram-positive	gram-positive	Positive reaction to Gram-staining	no	62.739	no
125438	anaerobic	anaerobic	Ability to grow under anoxygenic conditions (including facultative anaerobes)	yes	89.353	yes
125438	aerobic	aerobic	Ability to grow under oxygenic conditions (including facultative aerobes)	no	87.401	no
125438	spore-forming	spore-forming	Ability to form endo- or exospores	no	89.571	no
125438	thermophile	thermophilic	Ability to grow at temperatures above or equal to 45°C	no	69.401	no
125438	motile2+	flagellated	Ability to perform flagellated movement	no	85.375	no
125439	BacteriaNet	spore_formation	Ability to form endo- or exospores	no	96
125439	BacteriaNet	motility	Ability to perform movement	yes	67
125439	BacteriaNet	gram_stain	Reaction to gram-staining	negative	94.3
125439	BacteriaNet	oxygen_tolerance	Oxygenic conditions needed for growth	facultative anaerobe	97.8

External links

@ref: 701

culture collection no.: DSM 2067, ATCC 43000, JCM 10722, NBRC 101831

straininfo link

@ref: 76450
straininfo: 41586

literature

topic: Genetics
Pubmed-ID: 29622618
title: Complete Genome Sequence of the Methanococcus maripaludis Type Strain JJ (DSM 2067), a Model for Selenoprotein Synthesis in Archaea.
authors: Poehlein A, Heym D, Quitzke V, Fersch J, Daniel R, Rother M
journal: Genome Announc
DOI: 10.1128/genomeA.00237-18
year: 2018

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
701	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2067)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-2067
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
76450	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID41586.1	StrainInfo: A central database for resolving microbial strain identifiers
125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann		10.1101/2024.08.12.607695	Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy		https://github.com/GenomeNet/deepG	deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1

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Archive

General

NCBI tax id

strain history

Name and taxonomic classification

LPSN

synonyms

Morphology

cell morphology

Culture and growth conditions

culture medium

culture temp

Physiology and metabolism

oxygen tolerance

spore formation

Isolation, sampling and environmental information

isolation

isolation source categories

taxonmaps

Safety information

risk assessment

Sequence information

16S sequences

Genome sequences

GC content

Genome-based predictions

predictions

External links

straininfo link

literature

Reference

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