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Burkholderia humi sp. nov., Isolated from Peat Soil
Srinivasan, Sathiyaraj,Kim, Jinsoo,Kang, Sang-Rim,Jheong, Weon-Hwa,Lee, Sang-Seob Springer-Verlag 2013 Current microbiology Vol.66 No.3
<P>A Gram-negative, aerobic, short-rod-shaped, non-motile bacterium designated Rs7(T), was isolated from peat soil collected from Russia and was characterized to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that the strain Rs7(T) belongs to the class Betaproteobacteria. The highest degree of sequence similarities were determined to be with Burkholderia tropica Ppe8(T) (98.4 %), Burkholderia unamae MTI-641(T) (97.8 %), Burkholderia bannensis E25(T) (97.7 %), Burkholderia heleia SA41(T) (97.0 %), and Burkholderia sacchari IPT101(T) (97.0 %). Chemotaxonomic data revealed that the strain Rs7(T) possesses ubiquinone Q-8. The polar lipid profile of strain Rs7(T) contained phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, and an unknown amino phospholipid. The predominant fatty acids were C(16:0), C(19:0) cyclo ω8c, and C(17:0) cyclo, all of which corroborated the assignment of the strain to the genus Burkholderia. The DNA G+C content was 63.2 mol%. DNA-DNA hybridization experiments showed less than 37.8 % DNA relatedness with closely related type strains, thus confirming separate species status. The results of physiological and biochemical tests allowed phenotypic differentiation of strain Rs7(T) from the members of the genus Burkholderia. Based on these data, Rs7(T) (=KEMC 7302-068(T) = JCM 18069(T)) should be classified as the type strain for a novel Burkholderia species, for which the name Burkholderia humi sp. nov. is proposed.</P>
Srinivasan, Sathiyaraj,Lee, Jae-Jin,Lim, Sang-Yong,Joe, Min-Ho,Im, Seong-Hun,Kim, Myung Kyum N.V. Swets en Zeitlinger 2015 Antonie van Leeuwenhoek Vol.107 No.2
<P>Two Gram-negative, non-motile, short rod-shaped bacterial strains, designated as 8A(T) and 28A, were isolated from Mount Deogyusan, Jeonbuk Province, South Korea. The isolates were analyzed by a polyphasic approach, revealing variations in their phenotypic characters but high DNA-DNA hybridisation values reciprocally, confirming that they belong to the same species. Both the isolates also showed a high resistance to UV compared with Deinococcus radiodurans, and a gamma-radiation resistance similar to other members of the genus Deinococcus. Phylogenetic analysis with the 16S rRNA gene sequences of closely related species indicated their similarities were below 97 %. Chemotaxonomic data showed the most abundant fatty acids to be C16:1??7c and C16:0. The strains can be distinguished from closely related species by the production of esterase (C4) and 관-galactosidase, and by their ability to assimilate L-alanine, L-histidine and N-acetyl-D-glucosamine. Based on the phenotypic, phylogenetic, and chemotaxonomic data, the isolates represent a novel species of the genus Deinococcus, for which the name Deinococcus radioresistens sp. nov. is proposed. The type strain is 8A(T) (KEMB 9004-109(T) = JCM 19777(T)), and a second strain is 28A (KEMB 9004-113 = JCM 19778).</P>
Deinococcus humi sp. nov., isolated from soil
Srinivasan, Sathiyaraj,Lee, Jae-Jin,Lim, Sangyong,Joe, Minho,Kim, Myung Kyum Microbiology Society 2012 International journal of systematic and evolutiona Vol.62 No.12
<P>A Gram-staining-positive, strictly aerobic, spherical, non-motile, red-pigmented bacterium, designated strain MK03<SUP>T</SUP>, was isolated from a soil sample collected in South Korea. The taxonomic position of the novel strain was investigated using a polyphasic approach. In phylogenetic analyses based on 16S rRNA gene sequences, strain MK03<SUP>T</SUP> was placed in a clade formed by members of the genus <I>Deinococcus</I> in the family <I>Deinococcaceae</I> and appeared to be most closely related to <I>Deinococcus aerolatus</I> 5516T-9<SUP>T</SUP> (97.4 % sequence similarity), <I>Deinococcus marmoris</I><I/> AA-63<SUP>T</SUP> (97.2 %), <I>Deinococcus radiopugnans</I> ATCC 19172<SUP>T</SUP> (97.2 %) and <I>Deinococcus saxicola</I> AA-1444<SUP>T</SUP> (96.9 %). The genomic DNA G+C content of the novel strain was 64.5 mol%. The chemotaxonomic characteristics of strain MK03<SUP>T</SUP> were typical of members of the genus <I>Deinococcus</I>: MK-8 was identified as the predominant respiratory quinine, the major fatty acids were C16 : 1ω7<I>c</I>, C15 : 1ω6<I>c</I>, C16 : 0 and C15 : 0, ornithine was found to be the diamino acid in the cell-wall peptidoglycan and the novel strain 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 9 kGy. In hybridization experiments, only low DNA-DNA relatedness values (11.6-34.5 %) were recorded between the novel strain and its closest relatives in the genus <I>Deinococcus</I>. Based on the phylogenetic, chemotaxonomic, phenotypic and DNA-DNA relatedness data, strain MK03<SUP>T</SUP> represents a novel species of the genus <I>Deinococcus</I>, for which the name <I>Deinococcus humi</I> sp. nov. is proposed. The type strain is MK03<SUP>T</SUP> ( = KCTC 13619<SUP>T</SUP> = JCM 17915<SUP>T</SUP>).</P>
Sathiyaraj Srinivasan,이승열,Myung Kyum Kim,Hee-Young Jung,H.-Y. Jung,M. K. Kim 대한독성 유전단백체 학회 2017 Molecular & cellular toxicology Vol.13 No.1
A gram-negative, rod-shaped, non-motile, gamma and UV-tolerant bacterium, Hymenobacter sp. DG25A, was isolated from a soil sample collected in South Korea. The isolated strain demonstrated high level of resistance against gamma irradiation, with a D10 value of 6 kGy. The complete genome of Hymenobacter sp. DG25A was found to consist of a single chromosome (3,777,136 bp). The bacterium was isolated from a gamma ray-irradiated soil sample and was found to contain enzymes involved in the accumulation of manganese, which protects proteins from oxidation by reactive oxygen species. The genome also encodes enzymes for the nucleotide excision repair pathway, which leads to the efficient removal of double-strand breaks caused by ionizing radiation such as gamma and UV rays. An understanding of these genomic features can potentially be used in several biotechnological applications such as for the degradation of harmful contaminants or radioactive waste.
Sathiyaraj Srinivasan,Myung Kyum Kim,Eun Sun Joo,Seung-Yeol Lee,Dae Sung Lee,Hee-Young Jung,H.-Y. Jung 대한독성 유전단백체 학회 2015 Molecular & cellular toxicology Vol.11 No.4
The ionizing radiation toxicity becomes a major concern for the modern world, recent years, several special interest has been given to the research for the radiation resistant and the mechanisms of which the radiation resistant bacteria survive after the irradiation. In the current study, we have isolated strain DG31D was isolated from gamma ray-irradiated soil sample and showed resistant to gamma and UV radiation. The aim of this study is to understanding the radiation resistant mechanisms and their genomic features of the strain DG31D, which can be potentially used for the biotechnological application to degrade harmful soil contamination near the nuclear power stations and other radiation-affected areas. Strain DG31D showed resistant to UV and gamma radiation with D10 value of 10 kGy. The genome comprised of 4,820,793 bp with the G+C content of 51.4%. It contains the genomic features of enzymes involved in the nucleotide excision repair (NER) pathway that protect the damaged DNA.
Sathiyaraj, Gayathri,Srinivasan, Sathiyaraj,Kim, Ho-Bin,Subramaniyam, Sathiyamoorthy,Lee, Ok Ran,Kim, Yeon-Ju,Yang, Deok Chun Sociedade Brasileira de Microbiologia 2011 Brazilian journal of microbiology Vol.42 No.2
<P><I>Cylindrocarpon destructans</I> isolated from ginseng field was found to produce pectinolytic enzymes. A Taguchi’s orthogonal array experimental design was applied to optimize the preliminary production of polygalacturonase (PG) and pectin lyase (PL) using submerged culture condition. This method was applied to evaluate the significant parameters for the production of enzymes. The process variables were pH, pectin concentration, incubation time and temperature. Optimization of process parameters resulted in high levels of enzyme (PG and PL) production after ten days of incubation at a pH of 5.0 at 25°C in the presence of 1.5% pectin. Among different nitrogen sources, urea and peptone showed high production of PG and PL, respectively. The enzyme production and mycelial growth seems to have direct influence on the culture conditions; therefore, at stationary state high enzyme production and mycelial growth were obtained than agitation state. Along with this, optimization of enzyme activity was also determined using various physiological parameters like, temperature, incubation time and pH. Taguchi’s data was also analyzed using one step ANOVA statistical method.</P>
Lysobacter soli sp. nov., isolated from soil of a ginseng field
Srinivasan, Sathiyaraj,Kim, Myung Kyum,Sathiyaraj, Gayathri,Kim, Ho-Bin,Kim, Yeon-Ju,Yang, Deok-Chun Microbiology Society 2010 International journal of systematic and evolutiona Vol.60 No.7
<P>Strain DCY21<SUP>T</SUP>, a Gram-negative, gliding and rod-shaped aerobic bacterium was isolated from soil of a ginseng field in the Republic of Korea and characterized using a polyphasic approach in order to determine its taxonomic position. Comparative 16S rRNA gene sequence analysis revealed that strain DCY21<SUP>T</SUP> clustered with the species of the genus <I>Lysobacter</I>. It was closely related to <I>Lysobacter gummosus</I> LMG 8763<SUP>T</SUP> (97.9 %), <I>Lysobacter capsici</I> YC5194<SUP>T</SUP> (97.6 %), <I>Lysobacter antibioticus</I> DSM 2044<SUP>T</SUP> (97.5 %), <I>Lysobacter niastensis</I> DSM 18481<SUP>T</SUP> (97.2 %) and <I>Lysobacter enzymogenes</I> DSM 2043<SUP>T</SUP> (96.9 %). The major cellular fatty acids of strain DCY21<SUP>T</SUP> were iso-C15 : 0 (34.3 %), iso-C17 : 1<I>ω</I>9<I>c</I> (19.5 %) and iso-C17 : 0 (17.2 %) and the major isoprenoid quinone was Q-8. The major polar lipids of strain DCY21<SUP>T</SUP> were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and phosphatidyl-<I>N</I>-methylethanolamine. The G+C content of the total DNA was 65.4 mol%. The DNA-DNA relatedness values, and biochemical and physiological characteristics strongly supported the genotypic and phenotypic differentiation of strain DCY21<SUP>T</SUP> from species of the genus <I>Lysobacter</I>. Strain DCY21<SUP>T</SUP> therefore represents a novel species, for which the name <I>Lysobacter soli</I> sp. nov. is proposed. The type strain is DCY21<SUP>T</SUP> (=KCTC 22011<SUP>T</SUP> =LMG 24126<SUP>T</SUP>).</P>