Acidiphilium cryptum (DSM 2389, ATCC 33463, Lhet2)

Name: Acidiphilium cryptum (DSM 2389, ATCC 33463, Lhet2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 26

Type strain

Strain Designation Lhet2

Culture col. no. DSM 2389 ATCC 33463 Lhet2 NCIMB 11690 NBRC 14242 3 more

NCBI tax ID(s) 524

Special Collections DSMZ JCM Literature strains

History DSMZ <- A.P. Harrison, Jr., Lhet2 (Isolated from culture of Thiobacillus ferrooxidans) <- P.R. Dugan <- D.G. Lundgren <- W.W. Leathen JCM <-- IAM 14719 <-- IFO 14242 <-- A. P. Harrison, Jr. strain Lhet2.

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Acidiphilium cryptum Lhet2 is an aerobe, heterotroph, Gram-negative bacterium that was isolated from coal mine water.

Gram-negative motile rod-shaped aerobe heterotroph 16S sequence Bacteria

Name and taxonomic classification

SI-ID 47606

DSM 2389,ATCC 33463,NCIMB 11690,IFO14242,IAM 14719,LMD 82.2,NCCB 82002,NBRC 14242,JCM 21277

@ref 20215

Last LPSN update 2026-05-29 08:24:55

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Acetobacteraceae

Genus Acidiphilium

Species Acidiphilium cryptum

Full scientific name Acidiphilium cryptum Harrison 1981

BacDive ID	Other strains from **Acidiphilium cryptum** (3)	Type strain
27	A. cryptum KG-4, KG-4p, DSM 2390
28	A. cryptum 44het, AP-44, DSM 2613
29	A. cryptum N-Het2, DSM 9467

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Flagellum arrangement
23239	negative	0.6-0.8 µm	0.3-0.4 µm	rod-shaped		monotrichous, polar
23239	negative	0.6-0.8 µm	0.3-0.4 µm	rod-shaped		lophotrichous

Colony morphology

@ref	Colony color	Incubation period	Medium used	Colony size
23239	translucent	2-3 days	TS-glucose
23239		5-7 days	TS-glucose	0.2-0.5 mm
23239	opaque, white or pinkish white		TS-glucose

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23239	TS-glucose			per liter: (NH4)2SO4, 2 g; KCl, 0,1 g; K2HPO4, 0.5 g; MgSO4.7H20,0.5 g; dehydrated Trypticase soy broth (BBL Microbiology Systems, Cockeysville, Md.), 0.1 g; and glucose, 1 g. pH adjusted to 3 with 1 N H2S04
1068	ACIDIPHILIUM MEDIUM (DSMZ Medium 269)		Medium recipe at MediaDive	Name: ACIDIPHILIUM MEDIUM (DSMZ Medium 269) Composition: (NH4)2SO4 2.0 g/l D-Glucose 1.0 g/l MgSO4 x 7 H2O 0.5 g/l K2HPO4 0.5 g/l Yeast extract 0.3 g/l KCl 0.1 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
1068	positive	growth	28
23239	negative	growth	47
23239	positive	optimum	35-41
23239
67770	positive	growth	27

Culture pH

@ref	Ability	Type	PH	PH range
23239	positive	growth	1.9-5.9	acidophile
23239		growth	6.1

Physiology and metabolism

Oxygen tolerance

23239

Oxygen toleranceaerobe

Nutrition type

23239

Typeheterotroph

Spore formation

23239

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
23239	NaCl		growth	7 %
23239	NaCl	positive	growth	3 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23239	22599 ChEBI	arabinose	+	growth
23239	15356 ChEBI	cysteine	-	growth
23239	17234 ChEBI	glucose	+	growth
23239	17754 ChEBI	glycerol	+	growth
23239	15428 ChEBI	glycine	-	growth
23239	17196 ChEBI	L-asparagine	+	growth
23239	29985 ChEBI	L-glutamate	-	growth
23239	30924 ChEBI	L-tartrate	+	growth
23239	24996 ChEBI	lactate	-	growth
23239	17716 ChEBI	lactose	+	growth
23239	17306 ChEBI	maltose	+	growth
23239	29864 ChEBI	mannitol	+	growth
23239	16634 ChEBI	raffinose	+	growth
23239	33942 ChEBI	ribose	+	growth
23239	17992 ChEBI	sucrose	+	growth
23239	16094 ChEBI	thiosulfate	-	growth

Antibiotic resistance

@ref	ChEBI	Metabolite
23239	17698	chloramphenicol
23239	27644	chlortetracyclin
23239	48923	erythromycin
23239	7507	neomycin
23239	17334	penicillin
23239	17076	streptomycin

Enzymes

@ref	Value	Activity	Ec
23239	catalase	+/-	1.11.1.6
23239	cytochrome oxidase	+/-	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Other	#Mine
#Environmental	#Aquatic	-
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
1068	coal mine water		Pennsylvania	USA	USA	North America
67770	Culture of Thiobacillus ferrooxidans, originally grown by W. W. Leathen from coal mine water	Thiobacillus ferrooxidans	PA	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence D30773 (>99% sequence identity) for Acidiphilium from Microbeatlas

Aquatic Samples	1984
Soil Samples	1654
Animal Samples	607
Plant Samples	360
Total Samples	4605

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1068	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Acidiphilium cryptum 16S ribosomal RNA (16S rRNA), complete sequence	AH001558	315	524
20218	Acidiphilium cryptum 16S rRNA gene, partial, strain DSM 2389	Y18445	1337	524
1068	Acidiphilium cryptum gene for 16S ribosomal RNA	D30773	1413	524

GC content

@ref	GC-content (mol%)	Method
23239	69.80	thermal denaturation, midpoint method (Tm)
23239	69.40	Buoyant density centrifugation (BD)
1068	69.8

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	Transfer and expression of degradative and antibiotic resistance plasmids in acidophilic bacteria.	Quentmeier A, Friedrich CG.	Appl Environ Microbiol	10.1128/aem.60.3.973-978.1994	1994
Metabolism	Ecophysiology of Fe-cycling bacteria in acidic sediments.	Lu S, Gischkat S, Reiche M, Akob DM, Hallberg KB, Kusel K.	Appl Environ Microbiol	10.1128/aem.01931-10	2010
Enzymology	Evaluation of a fluorescent lectin-based staining technique for some acidophilic mining bacteria.	Fife DJ, Bruhn DF, Miller KS, Stoner DL.	Appl Environ Microbiol	10.1128/aem.66.5.2208-2210.2000	2000
Metabolism	pH gradient-induced heterogeneity of Fe(III)-reducing microorganisms in coal mining-associated lake sediments.	Blothe M, Akob DM, Kostka JE, Goschel K, Drake HL, Kusel K.	Appl Environ Microbiol	10.1128/aem.01194-07	2008
Genetics	A genomic investigation of ecological differentiation between free-living and Drosophila-associated bacteria.	Winans NJ, Walter A, Chouaia B, Chaston JM, Douglas AE, Newell PD.	Mol Ecol	10.1111/mec.14232	2017
Phylogeny	Development and application of small-subunit rRNA probes for assessment of selected Thiobacillus species and members of the genus Acidiphilium.	Peccia J, Marchand EA, Silverstein J, Hernandez M.	Appl Environ Microbiol	10.1128/aem.66.7.3065-3072.2000	2000
Phylogeny	Evolutionary relationships among sulfur- and iron-oxidizing eubacteria.	Lane DJ, Harrison AP, Stahl D, Pace B, Giovannoni SJ, Olsen GJ, Pace NR.	J Bacteriol	10.1128/jb.174.1.269-278.1992	1992
	Phylogenetic analysis of the genera Thiobacillus and Thiomicrospira by 5S rRNA sequences.	Lane DJ, Stahl DA, Olsen GJ, Heller DJ, Pace NR.	J Bacteriol	10.1128/jb.163.1.75-81.1985	1985
Phylogeny	Cultural and phylogenetic analysis of mixed microbial populations found in natural and commercial bioleaching environments.	Goebel BM, Stackebrandt E.	Appl Environ Microbiol	10.1128/aem.60.5.1614-1621.1994	1994
	Direct 5S rRNA Assay for Monitoring Mixed-Culture Bioprocesses.	Stoner DL, Browning CK, Bulmer DK, Ward TE, Macdonell MT.	Appl Environ Microbiol	10.1128/aem.62.6.1969-1976.1996	1996
Enzymology	Coffea arabica L., a new host plant for Acetobacter diazotrophicus, and isolation of other nitrogen-fixing acetobacteria.	Jimenez-Salgado T, Fuentes-Ramirez LE, Tapia-Hernandez A, Mascarua-Esparza MA, Martinez-Romero E, Caballero-Mellado J.	Appl Environ Microbiol	10.1128/aem.63.9.3676-3683.1997	1997
	Growth of Thiobacillus ferrooxidans on Formic Acid.	Pronk JT, Meijer WM, Hazeu W, van Dijken JP, Bos P, Kuenen JG.	Appl Environ Microbiol	10.1128/aem.57.7.2057-2062.1991	1991
	Compilation of 5S rRNA and 5S rRNA gene sequences.	Specht T, Wolters J, Erdmann VA.	Nucleic Acids Res	10.1093/nar/18.suppl.2215	1990
Metabolism	Boosting Escherichia coli's heterologous production rate of ectoines by exploiting the non-halophilic gene cluster from Acidiphilium cryptum.	Bethlehem L, Moritz KD	Extremophiles	10.1007/s00792-020-01188-8	2020
Metabolism	The hydroxyectoine gene cluster of the non-halophilic acidophile Acidiphilium cryptum.	Moritz KD, Amendt B, Witt EM, Galinski EA	Extremophiles	10.1007/s00792-014-0687-0	2014
Metabolism	Iron respiration by Acidiphilium cryptum at pH 5.	Bilgin AA, Silverstein J, Jenkins JD	FEMS Microbiol Ecol	10.1016/j.femsec.2003.08.018	2004
Metabolism	Glucose catabolism in strains of acidophilic, heterotrophic bacteria.	Shuttleworth KL, Unz RF, Wichlacz PL	Appl Environ Microbiol	10.1128/aem.50.3.573-579.1985	1985

References

#1068	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2389
#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 )
#23239	Arthur P., Harrison JR.: Acidiphilium cryptum gen. nov., sp. nov., Heterotrophic Bacterium From Acidic Mineral Environments. IJSEM 31: 327 - 332 1981 ( DOI 10.1099/00207713-31-3-327 )
#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 .
#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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Acidiphilium cryptum (DSM 2389, ATCC 33463, Lhet2)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

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