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Fang Peng - One of the best experts on this subject based on the ideXlab platform.
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Deinococcus psychrotolerans sp. nov., isolated from soil on the South Shetland Islands, Antarctica.
International journal of systematic and evolutionary microbiology, 2019Co-Authors: Jin Tian, Liqiu Wang, Ping Liu, Yingchao Geng, Guoxin Zhu, Ruichen Zheng, Zuobing Liu, Yiming Zhao, Jian Yang, Fang PengAbstract:A Gram-stain-negative, non-motile, strictly aerobic, coccus-shaped bacterium, designated S14-83T, was isolated from a soil sample collected from the South Shetland Islands of Antarctica. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain is a novel member of the genus Deinococcus , with Deinococcus alpinitundrae as its closest relative (96.1 % similarity). The DNA G+C content of the strain was 61.1 mol% and the major respiratory quinone was MK-8. Major cellular fatty acids were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c) and C16 : 0. As well as containing glycophospholipid, aminophospholipids and glycolipid as major polar lipids, there were also some unknown polar lipids. The diagnostic diamino acid in the cell-wall peptidoglycan was ornithine, corroborating the assignment of the strain to the genus Deinococcus . Strain S14-83T was shown to be extremely resistant to gamma radiation (>10 kGy) and UV light (460 Jm−2). On the basis of phylogenetic, chemotaxonomic and phenotypic data presented here, strain S14-83T represents a novel species of the genus Deinococcus , for which the name Deinococcus psychrotolerans sp. nov. is proposed. The type strain is S14-83T (=CCTCC AB 2015449T= DSM 105285 T).
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Deinococcus taklimakanensis sp. nov., isolated from desert soil.
International journal of systematic and evolutionary microbiology, 2017Co-Authors: Zuobing Liu, Liqiu Wang, Guoxin Zhu, Myong Chol Kim, Yumin Zhang, Yao Huang, Ziyan Wei, Wangmu Danzeng, Fang PengAbstract:A gamma- and UV radiation-tolerant, Gram-negative, short-rod-shaped bacterial strain, designated X-121T, was isolated from soil samples collected from the Taklimakan desert in Xinjiang, China. Strain X-121T showed the highest 16S rRNA gene sequence similarity with Deinococcus depolymerans TDMA-24T (94.7 %). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain X-121T is a member of a novel species belonging to the clade formed by members of the genus Deinococcus in the family Deinococcaceae . The DNA G+C content of strain X-121T was 63.6 mol%. The chemotaxonomic charateristics of strain X-121T were typical of members of the genus Deinococcus , with MK-8 being the predominant respiratory quinone, summed feature 3 (16 : 1ω7c,16 : 1ω6c), 16 : 0 and 17 : 1ω8c as major cellular fatty acid, several unidentified phosphoglycolipids and glycolipids as the dominant polar lipids, galactose as the predominant cell-wall sugar and the presence of peptidoglycan with l-ornithine. Strain X-121T is therefore identified as representing a novel species, for which the name Deinococcus taklimakanensis sp. nov. is proposed, with the type strain X-121T(=CCTCC AB 207228T=KCTC 33842T).
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Deinococcus xinjiangensis sp. nov., isolated from desert soil
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2009Co-Authors: Fang Peng, Lei Zhang, Xuesong Luo, Jun Dai, Yali Tang, Chengxiang FangAbstract:A Gram-positive-staining, spherical-shaped and faintly pink-pigmented bacterial strain, X-82T, was isolated from soil samples collected from a desert in Xinjiang, China. The organism was found to be resistant to UV radiation but sensitive to gamma radiation and desiccation. The optimum growth pH, NaCl concentration and temperature were pH 7.0, 0–1 % NaCl and 30 °C. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain X-82T is member of a novel species belonging to the genus Deinococcus, with Deinococcus hopiensis KR-140T as its closest relative (93.5 % similarity). The DNA G+C content (60 mol%), quinone type (MK-8), major cellular fatty acids (16 : 1ω7c, 16 : 0 and 17 : 1 iso ω9c), the presence of peptidoglycan with l-ornithine and the dominant polar lipid (phosphoglycolipids and glycolipids) support the affiliation of strain X-82T with the genus Deinococcus. A novel species is proposed, for which the name Deinococcus xinjiangensis sp. nov. is proposed, with the type strain X-82T (=CCTCC AB 207226T =NRRL B-51287T).
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Deinococcus xinjiangensis sp. nov., isolated from desert soil.
International journal of systematic and evolutionary microbiology, 2009Co-Authors: Fang Peng, Lei Zhang, Xuesong Luo, Jun Dai, Yali Tang, Chengxiang FangAbstract:A Gram-positive-staining, spherical-shaped and faintly pink-pigmented bacterial strain, X-82(T), was isolated from soil samples collected from a desert in Xinjiang, China. The organism was found to be resistant to UV radiation but sensitive to gamma radiation and desiccation. The optimum growth pH, NaCl concentration and temperature were pH 7.0, 0-1 % NaCl and 30 degrees C. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain X-82(T) is member of a novel species belonging to the genus Deinococcus, with Deinococcus hopiensis KR-140(T) as its closest relative (93.5 % similarity). The DNA G+C content (60 mol%), quinone type (MK-8), major cellular fatty acids (16 : 1omega7c, 16 : 0 and 17 : 1 iso omega9c), the presence of peptidoglycan with l-ornithine and the dominant polar lipid (phosphoglycolipids and glycolipids) support the affiliation of strain X-82(T) with the genus Deinococcus. A novel species is proposed, for which the name Deinococcus xinjiangensis sp. nov. is proposed, with the type strain X-82(T) (=CCTCC AB 207226(T) =NRRL B-51287(T)).
Arjan De Groot - One of the best experts on this subject based on the ideXlab platform.
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Conservation and diversity of radiation and oxidative stress resistance mechanisms in Deinococcus species
FEMS microbiology reviews, 2018Co-Authors: Sangyong Lim, Laurence Blanchard, Jong-hyun Jung, Arjan De GrootAbstract:Deinococcus bacteria are famous for their extreme resistance to ionising radiation and other DNA damage- and oxidative stress-generating agents. More than a hundred genes have been reported to contribute to resistance to radiation, desiccation and/or oxidative stress in Deinococcus radiodurans. These encode proteins involved in DNA repair, oxidative stress defence, regulation and proteins of yet unknown function or with an extracytoplasmic location. Here, we analysed the conservation of radiation resistance-associated proteins in other radiation-resistant Deinococcus species. Strikingly, homologues of dozens of these proteins are absent in one or more Deinococcus species. For example, only a few Deinococcus-specific proteins and radiation resistance-associated regulatory proteins are present in each Deinococcus, notably the metallopeptidase/repressor pair IrrE/DdrO that controls the radiation/desiccation response regulon. Inversely, some Deinococcus species possess proteins that D. radiodurans lacks, including DNA repair proteins consisting of novel domain combinations, translesion polymerases, additional metalloregulators, redox-sensitive regulator SoxR and manganese-containing catalase. Moreover, the comparisons improved the characterisation of several proteins regarding important conserved residues, cellular location and possible protein-protein interactions. This comprehensive analysis indicates not only conservation but also large diversity in the molecular mechanisms involved in radiation resistance even within the Deinococcus genus.
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Conservation and diversity of the IrrE/DdrO-controlled radiation response in radiation-resistant Deinococcus bacteria
MicrobiologyOpen, 2017Co-Authors: Laurence Blanchard, David Pignol, Philippe Guérin, David Roche, Stéphane Cruveiller, David Vallenet, Jean Armengaud, Arjan De GrootAbstract:The extreme radiation resistance of Deinococcus bacteria requires the radiation-stimulated cleavage of protein DdrO by a specific metalloprotease called IrrE. DdrO is the repressor of a predicted radiation/desiccation response (RDR) regulon, composed of radiation-induced genes having a conserved DNA motif (RDRM) in their promoter regions. Here, we showed that addition of zinc ions to purified apo-IrrE, and short exposure of Deinococcus cells to zinc ions, resulted in cleavage of DdrO in vitro and in vivo, respectively. Binding of IrrE to RDRM-containing DNA or interaction of IrrE with DNA-bound DdrO was not observed. The data are in line with IrrE being a zinc pepti-dase, and indicate that increased zinc availability, caused by oxidative stress, triggers the in vivo cleavage of DdrO unbound to DNA. Transcriptomics and proteomics of Deinococcus deserti confirmed the IrrE-dependent regulation of predicted RDR regu-lon genes and also revealed additional members of this regulon. Comparative analysis showed that the RDR regulon is largely well conserved in Deinococcus species, but also showed diversity in the regulon composition. Notably, several RDR genes with an important role in radiation resistance in Deinococcus radiodurans, for example pprA, are not conserved in some other radiation-resistant Deinococcus species.
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conservation and diversity of the irre ddro controlled radiation response in radiation resistant Deinococcus bacteria
MicrobiologyOpen, 2017Co-Authors: Laurence Blanchard, David Pignol, David Roche, Stéphane Cruveiller, David Vallenet, Jean Armengaud, Philippe J Guerin, Arjan De GrootAbstract:The extreme radiation resistance of Deinococcus bacteria requires the radiation-stimulated cleavage of protein DdrO by a specific metalloprotease called IrrE. DdrO is the repressor of a predicted radiation/desiccation response (RDR) regulon, composed of radiation-induced genes having a conserved DNA motif (RDRM) in their promoter regions. Here, we showed that addition of zinc ions to purified apo-IrrE, and short exposure of Deinococcus cells to zinc ions, resulted in cleavage of DdrO in vitro and in vivo, respectively. Binding of IrrE to RDRM-containing DNA or interaction of IrrE with DNA-bound DdrO was not observed. The data are in line with IrrE being a zinc pepti-dase, and indicate that increased zinc availability, caused by oxidative stress, triggers the in vivo cleavage of DdrO unbound to DNA. Transcriptomics and proteomics of Deinococcus deserti confirmed the IrrE-dependent regulation of predicted RDR regu-lon genes and also revealed additional members of this regulon. Comparative analysis showed that the RDR regulon is largely well conserved in Deinococcus species, but also showed diversity in the regulon composition. Notably, several RDR genes with an important role in radiation resistance in Deinococcus radiodurans, for example pprA, are not conserved in some other radiation-resistant Deinococcus species.
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The abundant and essential HU proteins in Deinococcus deserti and Deinococcus radiodurans are translated from leaderless mRNA.
Microbiology, 2015Co-Authors: Claire Bouthier De La Tour, Monika Ludanyi, Laurence Blanchard, Rémi Dulermo, Suzanne Sommer, Jean Armengaud, Alice Devigne, Arjan De GrootAbstract:HU proteins have an important architectural role in nucleoid organization in bacteria. Compared with HU of many bacteria, HU proteins from Deinococcus species possess an N-terminal lysine-rich extension similar to the eukaryotic histone H1 C-terminal domain involved in DNA compaction. The single HU gene in Deinococcus radiodurans, encoding DrHU, is required for nucleoid compaction and cell viability. Deinococcus deserti contains three expressed HU genes, encoding DdHU1, DdHU2 and DdHU3. Here, we show that either DdHU1 or DdHU2 is essential in D. deserti. DdHU1 and DdHU2, but not DdHU3, can substitute for DrHU in D. radiodurans, indicating that DdHU3 may have a non-essential function different from DdHU1, DdHU2 and DrHU. Interestingly, the highly abundant DrHU and DdHU1 proteins, and also the less expressed DdHU2, are translated in Deinococcus from leaderless mRNAs, which lack a 5'-untranslated region and, hence, the Shine-Dalgarno sequence. Unexpectedly, cloning the DrHU or DdHU1 gene under control of a strong promoter in an expression plasmid, which results in leadered transcripts, strongly reduced the DrHU and DdHU1 protein level in D. radiodurans compared with that obtained from the natural leaderless gene. We also show that the start codon position for DrHU and DdHU1 should be reannotated, resulting in proteins that are 15 and 4 aa residues shorter than initially reported. The expression level and start codon correction were crucial for functional characterization of HU in Deinococcus.
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Radiation response in Deinococcus deserti: IrrE is a metalloprotease that cleaves repressor protein DdrO
Molecular Microbiology, 2014Co-Authors: Monika Ludanyi, Laurence Blanchard, Rémi Dulermo, Géraldine Brandelet, Laurent Bellanger, David Pignol, David Lemaire, Arjan De GrootAbstract:Summary Deinococcus bacteria are famous for their extreme radiation tolerance. The IrrE protein was shown to be essential for radiation tolerance and, in an unelucidated manner, for induction of a number of genes in response to radiation, including recA and other DNA repair genes. Earlier studies indicated that IrrE could be a zinc peptidase, but proteolytic activity was not demonstrated. Here, using several in vivo and in vitro experiments, IrrE from Deinococcus deserti was found to interact with DdrO, a predicted regulator encoded by a radiation-induced gene that is, like irrE, highly conserved in Deinococcus. Moreover, IrrE was found to cleave DdrO in vitro and when the proteins were coexpressed in Escherichia coli. This cleavage was not observed in the presence of metal chelator EDTA or when IrrE contains a mutation in the conserved active-site motif of metallopeptidases. In D. deserti, IrrE-dependent cleavage of DdrO was observed after exposure to radiation. Furthermore, DdrO-dependent repression of the promoter of a radiation-induced gene was shown. These results demonstrate that IrrE is a metalloprotease and we propose that IrrE-mediated cleavage inactivates repressor protein DdrO, leading to transcriptional induction of various genes required for repair and survival after exposure of Deinococcus to radiation.
Chengxiang Fang - One of the best experts on this subject based on the ideXlab platform.
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Deinococcus xinjiangensis sp. nov., isolated from desert soil
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2009Co-Authors: Fang Peng, Lei Zhang, Xuesong Luo, Jun Dai, Yali Tang, Chengxiang FangAbstract:A Gram-positive-staining, spherical-shaped and faintly pink-pigmented bacterial strain, X-82T, was isolated from soil samples collected from a desert in Xinjiang, China. The organism was found to be resistant to UV radiation but sensitive to gamma radiation and desiccation. The optimum growth pH, NaCl concentration and temperature were pH 7.0, 0–1 % NaCl and 30 °C. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain X-82T is member of a novel species belonging to the genus Deinococcus, with Deinococcus hopiensis KR-140T as its closest relative (93.5 % similarity). The DNA G+C content (60 mol%), quinone type (MK-8), major cellular fatty acids (16 : 1ω7c, 16 : 0 and 17 : 1 iso ω9c), the presence of peptidoglycan with l-ornithine and the dominant polar lipid (phosphoglycolipids and glycolipids) support the affiliation of strain X-82T with the genus Deinococcus. A novel species is proposed, for which the name Deinococcus xinjiangensis sp. nov. is proposed, with the type strain X-82T (=CCTCC AB 207226T =NRRL B-51287T).
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Deinococcus xinjiangensis sp. nov., isolated from desert soil.
International journal of systematic and evolutionary microbiology, 2009Co-Authors: Fang Peng, Lei Zhang, Xuesong Luo, Jun Dai, Yali Tang, Chengxiang FangAbstract:A Gram-positive-staining, spherical-shaped and faintly pink-pigmented bacterial strain, X-82(T), was isolated from soil samples collected from a desert in Xinjiang, China. The organism was found to be resistant to UV radiation but sensitive to gamma radiation and desiccation. The optimum growth pH, NaCl concentration and temperature were pH 7.0, 0-1 % NaCl and 30 degrees C. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain X-82(T) is member of a novel species belonging to the genus Deinococcus, with Deinococcus hopiensis KR-140(T) as its closest relative (93.5 % similarity). The DNA G+C content (60 mol%), quinone type (MK-8), major cellular fatty acids (16 : 1omega7c, 16 : 0 and 17 : 1 iso omega9c), the presence of peptidoglycan with l-ornithine and the dominant polar lipid (phosphoglycolipids and glycolipids) support the affiliation of strain X-82(T) with the genus Deinococcus. A novel species is proposed, for which the name Deinococcus xinjiangensis sp. nov. is proposed, with the type strain X-82(T) (=CCTCC AB 207226(T) =NRRL B-51287(T)).
Elizabeth Anne Wood - One of the best experts on this subject based on the ideXlab platform.
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The single-stranded DNA-binding protein of Deinococcus radiodurans
BMC Microbiology, 2004Co-Authors: Julie Malia Eggington, Nami Haruta, Elizabeth Anne WoodAbstract:Background Deinococcus radiodurans R1 is one of the most radiation-resistant organisms known and is able to repair an unusually large amount of DNA damage without induced mutation. Single-stranded DNA-binding (SSB) protein is an essential protein in all organisms and is involved in DNA replication, recombination and repair. The published genomic sequence from Deinococcus radiodurans includes a putative single-stranded DNA-binding protein gene ( ssb; DR0100) requiring a translational frameshift for synthesis of a complete SSB protein. The apparently tripartite gene has inspired considerable speculation in the literature about potentially novel frameshifting or RNA editing mechanisms. Immediately upstream of the ssb gene is another gene (DR0099) given an ssb -like annotation, but left unexplored. Results A segment of the Deinococcus radiodurans strain R1 genome encompassing the ssb gene has been re-sequenced, and two errors involving omitted guanine nucleotides have been documented. The corrected sequence incorporates both of the open reading frames designated DR0099 and DR0100 into one contiguous ssb open reading frame (ORF). The corrected gene requires no translational frameshifts and contains two predicted oligonucleotide/oligosaccharide-binding (OB) folds. The protein has been purified and its sequence is closely related to the Thermus thermophilus and Thermus aquaticus SSB proteins. Like the Thermus SSB proteins, the SSB_Dr functions as a homodimer. The Deinococcus radiodurans SSB homodimer stimulates Deinococcus radiodurans RecA protein and Escherichia coli RecA protein-promoted DNA three-strand exchange reactions with at least the same efficiency as the Escherichia coli SSB homotetramer. Conclusions The correct Deinococcus radiodurans ssb gene is a contiguous open reading frame that codes for the largest bacterial SSB monomer identified to date. The Deinococcus radiodurans SSB protein includes two OB folds per monomer and functions as a homodimer. The Deinococcus radiodurans SSB protein efficiently stimulates Deinococcus radiodurans RecA and also Escherichia coli RecA protein-promoted DNA strand exchange reactions. The identification and purification of Deinococcus radiodurans SSB protein not only allows for greater understanding of the SSB protein family but provides an essential yet previously missing player in the current efforts to understand the extraordinary DNA repair capacity of Deinococcus radiodurans .
Myung Kyum Kim - One of the best experts on this subject based on the ideXlab platform.
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Deinococcus rubrus sp. nov., a Bacterium Isolated from Antarctic Coastal Sea Water.
Journal of microbiology and biotechnology, 2017Co-Authors: Sathiyaraj Srinivasan, Sangyong Lim, Hee-young Jung, Jae-hyun Lim, Myung Kyum KimAbstract:Two Gram-staining-negative, red-pinkish, coccus-shaped, non-motile, and aerobic bacterial strains, designated Ant21T and Ant22, were isolated from the Antarctic coastal sea water. Strains Ant21T and Ant22 showed UVC and gamma radiation resistance. Phylogenetic analyses based on 16S rRNA gene sequences determined that these strains belong to the genus Deinococcus. Through the analyses of the 16S rRNA gene sequences, strains Ant21T and Ant22 were found to have 97.7% and 97.8% similarity to Deinococcus marmoris DSM 12784T and 97.0% and 97.2% similarity to Deinococcus saxicola AA-1444T, respectively. The sequence similarity with the type strains of other Deinococcus species was less than 96.9% for both strains. Strains Ant21T and Ant22 shared relatively high 16S rRNA gene sequence similarity (99.3%) and had a closely related DNA reassociation value of 84 ± 0.5%. Meanwhile, they showed a low level of DNA-DNA hybridization (
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Deinococcus sedimenti sp. nov. isolated from river sediment.
Journal of microbiology (Seoul Korea), 2016Co-Authors: Jae-jin Lee, Sangyong Lim, Myung Kyum Kim, Su-jin Park, Sun-wook Jeong, Seung-yeol Lee, Yeon-hee Lee, Sangkyu Park, Hyo-won Choi, Hee-young JungAbstract:A novel Gram-positive, oval-shaped, non-motile bacterium designated strain 16F1LT was isolated from sediment collected from the Han River in Seoul, Republic of Korea. Based on the 16S rRNA gene sequence (1,448 bp), this strain was identified as a member of the genus Deinococcus that belongs to the class Deinococci. Similarities in the 16S rRNA gene sequence were shown with Deinococcus daejeonensis MJ27T (99.0%), D. grandis DSM 3963T (98.1%), D. radiotolerans C1T (97.5%), and D. caeni Ho-08T (97.2%). Strain 16F1LT was classified as a different genomic species from closely related Deinococcus members, based on less than 70% DNA-DNA relatedness. Genomic DNA G+C content of strain 16F1LT was 67.2 mol%. Strain 16F1LT was found to grow at temperatures of 10-37°C (optimum 25°C) and pH 7-8 (optimum pH 7) on R2A medium, and was catalase-positive and oxidase-negative. Strain 16F1LT showed resistance to gamma radiation (D10 > 2 kGy). In addition, this strain had the following chemotaxonomic characteristics: the major fatty acids were C15:1 ω6c and C16:1 ω7c; the polar lipid profile contained phosphoglycolipids, unknown aminophospholipids, an unknown aminoglycolipid, unknown aminolipids, an unknown glycolipid, an unknown phospholipid, and an unknown polar lipid; the major quinone was MK-8. Phylogenetic, genotypic, phenotypic, and chemotaxonomic characteristics indicated that strain 16F1LT represents a novel species within the genus Deinococcus, for which the name Deinococcus sedimenti sp. nov. is proposed. The type strain is 16F1LT (=KCTC 33796T =JCM 31405T).
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Deinococcus persicinus sp. nov., a radiation-resistant bacterium from soil.
International journal of systematic and evolutionary microbiology, 2016Co-Authors: Seon Hwa Jeon, Sangyong Lim, Sathiyaraj Srinivasan, Myung-suk Kang, Eun Sun Joo, Sun-wook Jeong, Hee-young Jung, Eun Bit Kim, Myung Kyum KimAbstract:Two Gram-stain-negative, oxidase-negative, catalase-positive, aerobic and coccus-shaped bacterial strains, KSY3-6T and JSH6-18, were isolated from soil in South Korea. Strains KSY3-6T and JSH6-18 showed high resistance to gamma-ray and UVC irradiation. The 16S rRNA gene sequences of strains KSY3-6T and JSH6-18 showed a novel subline within the genus Deinococcus in the family Deinococcaceae. They shared 94.8-86.4 % nucleotide similarities with other species of the genus Deinococcus. Strain KSY3-6T exhibited high DNA-DNA hybridization values with JSH6-18 (77±0.8 %). The two strains showed typical chemotaxonomic characteristics of the genus Deinococcus, including the presence of menaquinone 8 (MK-8) as predominant respiratory quinone and C16 : 0, C17 : 0cyclo and summed feature 3 (C16 : 1ω7c/C16: 1ω6c) as major fatty acids. The G+C content of the DNA of strains KSY3-6T and JSH6-18 was 62.0 and 62.4 mol%, respectively. Polar lipids in strains KSY3-6T and JSH6-18 were mainly phosphoglycolipids. Based on their phenotypic and genotypic properties, strains KSY3-6T and JSH6-18 should be classified as representatives of a novel species in the genus Deinococcus, for which the name Deinococcus persicinus sp. nov. is proposed. The type strain is KSY3-6T (=KCTC 33787T=JCM 31313T). The reference strain is JSH6-18 (=KCTC 33788=JCM 31312).
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A report of 5 unrecorded bacterial species of the Deinococcus genus in Korea
Journal of Species Research, 2016Co-Authors: Jae-jin Lee, Myung-suk Kang, Eun Sun Joo, Myung Kyum KimAbstract:The genus Deinococcus was first proposed by Brooks & Murray (1981) when the type species Deinococcus radiodurans was isolated from gamma-ray-irradiated food. At the time of writing, the genus Deinococcus comprises 53 species with validly names isolated from diverse environments such as air, a hot spring, continental Antarctica, desert soil, fish, and water (http://www.bacterio. cict.fr/d/Deinococcus.html). Members of the genus Deinococcus are Gram-positive (Brooks & Murray, 1981; Srinivasan et al., 2012a; 2012b) or Gram-negative (Suresh et al., 2004; Zhang et al., 2007; Im et al., 2008; Chen et al., 2012), have L-ornithine as the di-amino acid in the cell-wall peptidoglycan, and have cell colors ranging from yellow to red. They are characterized by their extreme resistant to UV light, gamma radiation and desiccation (Mattimore et al., 1996; Hirsch et al., 2004; de Groot et al., 2005; Rainey et al., 2005; Callegan et al., 2008; Srinivasan et al., 2012a, 2012b). The ionizing radiation and deciccation induced DNA damage and it has been reported that the members of the genus Deinococcus showed resistance and had ability to repair the damaged DNA (Mattimore & Battista, 1996). In 2014, we collected diverse local forest soil samples and isolated novel bacterial species and unrecorded bacterial species in Korea. The identified bacterial species belonged to the (class/phylum) Deinococci/ Deinococcus-Thermus. As a subset of this study, the present report focuses on the description of unrecorded radiation-resistant species belonging to the genus Deinococcus. Here we report 5 unrecorded bacterial species in Korea belonging to familiy Deinococcaceae of order Deinococcales in the Deinococcus-Thermus.
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Complete genome sequence of Deinococcus swuensis, a bacterium resistant to radiation toxicity
Molecular & Cellular Toxicology, 2015Co-Authors: Myung Kyum Kim, Sathiyaraj Srinivasan, Eun Sun Joo, Chang-gi Back, Seung-yeol Lee, Hee-young JungAbstract:Deinococcus swuensis DY59T is a Grampositive, coccus-shaped bacterium. Most members of the genus Deinococcus are able to grow in the presence of high levels of chronic radiation toxicity and desiccation because they can protect enzymes from reactive oxygen species generated during ionizing radiation. The mechanisms behind the resistance to radiation toxicity and the genomic features of resistance could be useful to exploit Deinococcus swuensis in the biotechnological applications such as detoxification of xenobiotic contaminated with radioactive wastes. Strain DY59T showed resistance to gamma radiation with a D10 value (i.e. the dose required to reduce the bacterial population by 10-fold) in excess of 5 kGy. However, the genus Deinococcus is slightly characterized at the genome level, despite its potential importance. Thus, the present study determined the features of Deinococcus swuensis DY59T, as well as its genome sequence and annotation. The genome comprised of 3,531,443 bp with a G + C content of 67.4%, which included 3,305 protein-coding genes and 58 RNA genes. Based on the genome annotation, the strain DY59T undergoes prokaryotic type nucleotide excision repair pathway, restores the damaged gene, and resists the ionizing radiation toxicity.