Deinococcus radiopugnans (DSM 12027, ATCC 19172, JCM 16872)

Name: Deinococcus radiopugnans (DSM 12027, ATCC 19172, JCM 16872)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3861

Type strain

Culture col. no. DSM 12027 ATCC 19172 JCM 16872 UWO 293 MIT 248 5 more

NCBI tax ID(s) 585398 57497

Special Collections DSMZ JCM

History <- ATCC <- S.H. Hutner, MIT 248 (Micrococcus roseus) <- R. Murray <- N. Davis et al. DSM 12027 <-- ATCC 19172 <-- S. H. Hutner MIT 248 (Micrococcus roseus) <-- R. G. E. Murray <-- N. Davis et al. UWO 293.

Links

Deinococcus radiopugnans DSM 12027 is a bacterium that was isolated from irradiated haddock.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 46559

ATCC 19172,DSM 12027,NCIMB 13155,CCM2785,IFO 15348,NBRC 15348,BCRC 12856,CCRC 12856,IAM 14780,JCM 21312,JCM 16872,LMG 28569

@ref 20215

Last LPSN update 2026-02-09 11:18:35

Domain Bacteria

Phylum Deinococcota

Class Deinococci

Order Deinococcales

Family Deinococcaceae

Genus Deinococcus

Species Deinococcus radiopugnans

Full scientific name Deinococcus radiopugnans Brooks and Murray 1981

Synonyms (1)

Deinococcus swuensis

BacDive ID	Other strains from **Deinococcus radiopugnans** (1)	Type strain
100116	D. radiopugnans STI07175(IMET), Hirsch604, IMET 7175

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	96.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
4580	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
4580	positive	growth	30
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	95.7

Spore formation

@ref	Spore formation	Confidence
125439		93.7

Murein

@ref	Murein short key	Type
4580	A21.01	A3ß L-Orn-Gly₂_-₃

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Host	#Fishes

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
4580	irradiated haddock	USA	USA	North America
67770	Irradiated haddock

Taxonmaps

69479

Global distribution of 16S sequence Y11334 (>99% sequence identity) for Deinococcus from Microbeatlas

Aquatic Samples	350
Soil Samples	115
Animal Samples	941
Plant Samples	153
Total Samples	1559

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4580	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1420162v1 assembly for Deinococcus radiopugnans ATCC 19172 DSM 12027	contig	GCA_014201625	585398.8	2861237949	585398	65.43
67770	ASM633512v1 assembly for Deinococcus radiopugnans ATCC 19172	contig	GCA_006335125	585398.6	8118278017	585398	60.32
124043	ASM4266134v1 assembly for Deinococcus radiopugnans NBRC 15348	contig	GCA_042661345			57497	46.99

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
4580	D.radiopugnans 16S rRNA gene	Y11334	1469		585398

GC content

@ref	GC-content (mol%)	Method
67770	68	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: Deinococcus radiopugnans ATCC 19172 DSM 12027
NCBI: GCA_014201625

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	93.70	no
125439	motility	BacteriaNetⓘ	yes	65.80	no
125439	gram_stain	BacteriaNetⓘ	negative	96.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Deinococcus radiopugnans ATCC 19172
PATRIC: 585398.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	50.07	no
125438	anaerobic	anaerobicⓘ	no	92.94	no
125438	spore-forming	spore-formingⓘ	no	73.63	no
125438	aerobic	aerobicⓘ	yes	81.14	no
125438	thermophilic	thermophileⓘ	no	87.14	yes
125438	flagellated	motile2+ⓘ	no	76.91	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Exploration of Deinococcus-Thermus molecular diversity by novel group-specific PCR primers.	Theodorakopoulos N, Bachar D, Christen R, Alain K, Chapon V.	Microbiologyopen	10.1002/mbo3.119	2013
	Versatile biotechnological applications of amylosucrase, a novel glucosyltransferase.	Seo DH, Yoo SH, Choi SJ, Kim YR, Park CS.	Food Sci Biotechnol	10.1007/s10068-019-00686-6	2020
	A ring-like nucleoid is not necessary for radioresistance in the Deinococcaceae.	Zimmerman JM, Battista JR.	BMC Microbiol	10.1186/1471-2180-5-17	2005
	PCR primers and probes for the 16S rRNA gene of most species of pathogenic bacteria, including bacteria found in cerebrospinal fluid.	Greisen K, Loeffelholz M, Purohit A, Leong D.	J Clin Microbiol	10.1128/jcm.32.2.335-351.1994	1994
Enzymology	Two new restriction endonucleases DraII and DraIII from Deinococcus radiophilus.	Grosskopf R, Wolf W, Kessler C.	Nucleic Acids Res	10.1093/nar/13.5.1517	1985
	Enhancement of Lycopene Biosynthesis Using Self-Assembled Multi-Enzymic Protein Cages.	Zhou Y, Yao Y, Zhang F, Yu N, Wang B, Tian B.	Microorganisms	10.3390/microorganisms13040747	2025
	Transposition of insertion sequences by dielectric barrier discharge plasma and gamma irradiation in the radiation-resistant bacterium Deinococcus geothermalis.	Ye Q, Shin E, Lee C, Choi N, Kim Y, Yoon KS, Lee SJ.	J Microbiol Methods	10.1016/j.mimet.2022.106473	2022
Genetics	Hydrogen peroxide treatment induces the transposition of an insertion sequence in Deinococcus radiopugnans DY59.	Shin E, Noh HS, Ye Q, Lee SJ.	Front Microbiol	10.3389/fmicb.2023.1110084	2023
Metabolism	Acceptor Specificity of Amylosucrase from Deinococcus radiopugnans and Its Application for Synthesis of Rutin Derivatives.	Kim MD, Jung DH, Seo DH, Jung JH, Seo EJ, Baek NI, Yoo SH, Park CS.	J Microbiol Biotechnol	10.4014/jmb.1606.06036	2016
	Radio-protective and antioxidative activities of astaxanthin from newly isolated radio-resistant bacterium Deinococcus sp. strain WMA-LM9	Sajjad W, Ahmad M, Khan S, Ilyas S, Hasan F, Celik C, McPhail K, Shah AA.	Ann Microbiol		2017
Metabolism	Sec pathway influences the growth of Deinococcus radiodurans.	Wang L, Tan H, Cheng K, Li M, Xu X, Wang J, Hua Y.	Curr Microbiol	10.1007/s00284-014-0767-5	2015
	Development of a qualitative dose indicator for gamma radiation using lyophilized Deinococcus.	Lim S, Song D, Joe M, Kim D.	J Microbiol Biotechnol	10.4014/jmb.1202.02039	2012
	Sensitivity of Deinococcus grandis rodZ deletion mutant to calcium ions results in enhanced spheroplast size.	Morita Y, Okumura M, Narumi I, Nishida H.	AIMS Microbiol	10.3934/microbiol.2019.2.176	2019
	Variation in Bat Guano Bacterial Community Composition With Depth.	Newman MM, Kloepper LN, Duncan M, McInroy JA, Kloepper JW.	Front Microbiol	10.3389/fmicb.2018.00914	2018
Metabolism	[Construction of Deinococcal bacteria-Escherichia coli shuttle vector and expression of Luciferase gene].	Tu Z, Zhong R, Wang J.	Wei Sheng Wu Xue Bao		2009
Metabolism	A highly thermostable, homodimeric single-stranded DNA-binding protein from Deinococcus radiopugnans.	Filipkowski P, Koziatek M, Kur J.	Extremophiles	10.1007/s00792-006-0011-8	2006
Phylogeny	Phylogenetic diversity of the deinococci as determined by 16S ribosomal DNA sequence comparison.	Rainey FA, Nobre MF, Schumann P, Stackebrandt E, da Costa MS.	Int J Syst Bacteriol	10.1099/00207713-47-2-510	1997
	DNA polymorphisms in new isolates of 'Deinococcus radiopugnans'.	Masters CI, Murray RG, Moseley BE, Minton KW.	J Gen Microbiol	10.1099/00221287-137-7-1459	1991
Metabolism	Single molecule analysis of Thermus thermophilus SSB protein dynamics on single-stranded DNA.	Zhang J, Zhou R, Inoue J, Mikawa T, Ha T.	Nucleic Acids Res	10.1093/nar/gkt1316	2014
	Microbial diversity of cryptoendolithic communities from the McMurdo Dry Valleys, Antarctica.	de la Torre JR, Goebel BM, Friedmann EI, Pace NR.	Appl Environ Microbiol	10.1128/aem.69.7.3858-3867.2003	2003
Phylogeny	Genome based reclassification of Deinococcus swuensis as a heterotypic synonym of Deinococcus radiopugnans.	Lakra P, Verma H, Talwar C, Singh DN, Singhvi N, Lal R, Gupta V	Int J Syst Evol Microbiol	10.1099/ijsem.0.004879	2021
Genetics	Development of versatile shuttle vectors for Deinococcus grandis.	Satoh K, Tu Z, Ohba H, Narumi I	Plasmid	10.1016/j.plasmid.2009.01.005	2009
Metabolism	Deinococcus swuensis sp. nov., a gamma-radiation-resistant bacterium isolated from soil.	Lee JJ, Lee HJ, Jang GS, Yu JM, Cha JY, Kim SJ, Lee EB, Kim MK.	J Microbiol	10.1007/s12275-013-3023-y	2013
Phylogeny	Deinococcus ficus sp. nov., isolated from the rhizosphere of Ficus religiosa L.	Lai WA, Kampfer P, Arun AB, Shen FT, Huber B, Rekha PD, Young CC.	Int J Syst Evol Microbiol	10.1099/ijs.0.64007-0	2006
Phylogeny	Deinococcus humi sp. nov., isolated from soil.	Srinivasan S, Lee JJ, Lim S, Joe M, Kim MK	Int J Syst Evol Microbiol	10.1099/ijs.0.037234-0	2012

References

#4580	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12027
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Deinococcus radiopugnans (DSM 12027, ATCC 19172, JCM 16872)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Murein

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014201625

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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