Acidiferrobacter thiooxydans (DSM 2392, JCM 17358, m-1)

Name: Acidiferrobacter thiooxydans (DSM 2392, JCM 17358, m-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4303

Type strain

Strain Designation m-1

Culture col. no. DSM 2392 JCM 17358 m-1

NCBI tax ID(s) 163359

Special Collections DSMZ JCM

History <- A. P. HarrisonJr, University of Missouri, Columbia, USA; m-1 (Acidithiobacillus ferrooxidans) <- B. Jarvis; D. B. Johnson <-- DSM 2392 <-- A. P. Harrison, Jr. strain m-1 <-- B. Jarvis.

Links

Acidiferrobacter thiooxydans m-1 is a bacterium that was isolated from coal strip mine refuse.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 47609

DSM 2392,JCM 17358

@ref 20215

Last LPSN update 2026-02-09 11:18:41

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Acidiferrobacterales

Family Acidiferrobacteraceae

Genus Acidiferrobacter

Species Acidiferrobacter thiooxydans

Full scientific name Acidiferrobacter thiooxydans Hallberg et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	95.9
125438	negative	96.5

Colony morphology

1071

Incubation period3-7 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1071	ACIDIFERROBACTER (MS) MEDIUM (DSMZ Medium 670)		Medium recipe at MediaDive	Name: ACIDIFERROBACTER (MS) MEDIUM (DSMZ Medium 670) Composition: FeSO4 x 7 H2O 20.0 g/l (NH4)2SO4 2.0 g/l MgSO4 x 7 H2O 0.25 g/l K2HPO4 0.1 g/l KCl 0.1 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
1071	positive	growth	30
67770	positive	growth	37

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		91.199

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Other	#Mine
#Engineered	#Waste	#Solid waste
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
1071	coal strip mine refuse	Mississipi, Calloway county	USA	USA	North America
67770	Forty-year-old coal refuse, Bevier coal seam	Calloway county, MO	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1071	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
67770	ASM333331v1 assembly for Acidiferrobacter thiooxydans m-1	contig	GCA_003333315	163359.15	163359	66.52

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Acidiferrobacter thiooxydans partial 16S rRNA gene, type strain DSM 2392T	AJ459800	1329	163359
20218	Acidithiobacillus ferrooxidans 16S ribosomal RNA (16S rRNA), complete sequence	AH001796	736	920
1071	Acidiferrobacter thiooxydans strain m-1 16S ribosomal RNA gene, partial sequence	AF387301	1475	163359

GC content

@ref	GC-content (mol%)	Method
1071	63.1±0.4
1071	65.0
67770	63.1	thermal denaturation, midpoint method (Tm)
67770	65	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Acidiferrobacter thiooxydans m-1
NCBI: GCA_003333315

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	86.20	no
125439	motility	BacteriaNetⓘ	yes	79.10	no
125439	gram_stain	BacteriaNetⓘ	negative	95.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	72.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Acidiferrobacter thiooxydans strain m-1
PATRIC: 163359.15

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.50	no
125438	anaerobic	anaerobicⓘ	no	73.33	no
125438	spore-forming	spore-formingⓘ	no	91.20	no
125438	aerobic	aerobicⓘ	yes	51.78	no
125438	thermophilic	thermophileⓘ	no	89.62	yes
125438	flagellated	motile2+ⓘ	no	63.30	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Integrative Assessments on Molecular Taxonomy of Acidiferrobacter thiooxydans ZJ and Its Environmental Adaptation Based on Mobile Genetic Elements.	Ma L, Yang W, Huang S, Liu R, Li H, Huang X, Xiong J, Liu X.	Front Microbiol	10.3389/fmicb.2022.826829	2022
	A novel gene from the acidophilic bacterium Leptospirillum sp. CF-1 and its role in oxidative stress and chromate tolerance.	Javier RA, Matias R, Alonso F, Renato C, Gloria L.	Biol Res	10.1186/s40659-022-00388-0	2022
Phylogeny	Phylogenetic diversity of dominant bacterial and archaeal communities in plant-microbial fuel cells using rice plants.	Ahn JH, Jeong WS, Choi MY, Kim BY, Song J, Weon HY.	J Microbiol Biotechnol	10.4014/jmb.1408.08053	2014
	The complete genome sequences of sulfur-oxidizing Gammaproteobacteria Sulfurifustis variabilis skN76(T) and Sulfuricaulis limicola HA5(T).	Umezawa K, Watanabe T, Miura A, Kojima H, Fukui M.	Stand Genomic Sci	10.1186/s40793-016-0196-0	2016
Phylogeny	Genomic Comparison, Phylogeny and Taxonomic Reevaluation of the Ectothiorhodospiraceae and Description of Halorhodospiraceae fam. nov. and Halochlorospira gen. nov.	Imhoff JF, Kyndt JA, Meyer TE.	Microorganisms	10.3390/microorganisms10020295	2022
Metabolism	Ubiquitous Gammaproteobacteria dominate dark carbon fixation in coastal sediments.	Dyksma S, Bischof K, Fuchs BM, Hoffmann K, Meier D, Meyerdierks A, Pjevac P, Probandt D, Richter M, Stepanauskas R, Mussmann M.	ISME J	10.1038/ismej.2015.257	2016
Genetics	Genomic evolution of the class Acidithiobacillia: deep-branching Proteobacteria living in extreme acidic conditions.	Moya-Beltran A, Beard S, Rojas-Villalobos C, Issotta F, Gallardo Y, Ulloa R, Giaveno A, Degli Esposti M, Johnson DB, Quatrini R.	ISME J	10.1038/s41396-021-00995-x	2021
	Proteomics Reveal Enhanced Oxidative Stress Responses and Metabolic Adaptation in Acidithiobacillus ferrooxidans Biofilm Cells on Pyrite.	Bellenberg S, Huynh D, Poetsch A, Sand W, Vera M.	Front Microbiol	10.3389/fmicb.2019.00592	2019
Genetics	Comparative Genomic Analysis Reveals the Distribution, Organization, and Evolution of Metal Resistance Genes in the Genus Acidithiobacillus.	Li L, Liu Z, Meng D, Liu X, Li X, Zhang M, Tao J, Gu Y, Zhong S, Yin H.	Appl Environ Microbiol	10.1128/aem.02153-18	2019
Metabolism	Chemolithotrophic processes in the bacterial communities on the surface of mineral-enriched biochars.	Ye J, Joseph SD, Ji M, Nielsen S, Mitchell DRG, Donne S, Horvat J, Wang J, Munroe P, Thomas T.	ISME J	10.1038/ismej.2016.187	2017
Phylogeny	Acidiferrobacter thiooxydans, gen. nov. sp. nov.; an acidophilic, thermo-tolerant, facultatively anaerobic iron- and sulfur-oxidizer of the family Ectothiorhodospiraceae.	Hallberg KB, Hedrich S, Johnson DB	Extremophiles	10.1007/s00792-011-0359-2	2011

References

#1071	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2392
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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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Acidiferrobacter thiooxydans (DSM 2392, JCM 17358, m-1)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003333315

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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