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Zubair Aslam,Muhammad Yasir,Hwan Sik Yoon,전체옥,정영륜 한국미생물학회 2013 The journal of microbiology Vol.51 No.6
Bacterial diversity in the rice rhizosphere at different rice growth stages, managed under conventional and no-tillage practices, was explored using a culture-based approach. Actinobacteria are among the bacterial phyla abundant in the rice rhizosphere. Their diversity was further examined by constructing metagenomic libraries based on the 16S rRNA gene, using actinobacterial- and streptomycete-specific polymerase chain reaction (PCR) primers. The study included 132 culturable strains and 125 clones from the 16S rRNA gene libraries. In conventional tillage, there were 38% Proteobacteria,22% Actinobacteria, 33% Firmicutes, 5% Bacteroidetes,and 2% Acidobacteria, whereas with no-tillage management there were 63% Proteobacteria, 24% Actinobacteria, 6% Firmicutes,and 8% Bacteroidetes as estimated using the culturedependent method during the four stages of rice cultivation. Principal coordinates analysis was used to cluster the bacterial communities along axes of maximal variance. The different growth stages of rice appeared to influence the rhizosphere bacterial profile for both cultivation practices. Novel clones with low similarities (89–97%) to Actinobacteria and Streptomyces were retrieved from both rice fields by screening the 16S rRNA gene libraries using actinobacterial- and streptomycete-specific primers. By comparing the actinobacterial community retrieved by culture-dependent and molecular methods, it was clear that a more comprehensive assessment of microbial diversity in the rice rhizosphere can be obtained using a combination of both techniques than by using either method alone. We also succeeded in culturing a number of bacteria that were previously described as unculturable. These were in a phylogenetically deep lineage when compared with related cultivable genera.
Lactobacillus siliginis sp. nov., isolated from wheat sourdough in South Korea.
Aslam, Zubair,Im, Wan-Taek,Ten, Leonid N,Lee, Myung-Jin,Kim, Kyoung-Ho,Lee, Sung-Taik Society for General Microbiology 2006 International journal of systematic and evolutiona Vol.56 No.9
<P>The taxonomic position of two lactic-acid-producing bacterial strains, isolated from wheat sourdough in South Korea, was studied using a polyphasic approach. Phylogenetic analysis on the basis of 16S rRNA gene sequences and biochemical and physiological characteristics indicated these two strains to be members of the genus Lactobacillus. They had high 16S rRNA gene sequence similarity (98.5 %) with Lactobacillus rossiae DSM 15814(T) and very low (<94.0 %) similarity with any other recognized species of the genus Lactobacillus. These two strains (designated M1-212(T) and M2-236) were heterofermentative, facultatively anaerobic, Gram-positive, non-spore-forming, non-motile, short rod-shaped bacteria. The optimum growth temperature for these strains was 30 degrees C (no growth at 15 or 45 degrees C) and they were able to tolerate 5 % (w/v) NaCl. The G+C content of the genomic DNA of the two strains was 45.5 mol%, within the range of values reported for the genus Lactobacillus (32-53 mol%). The peptidoglycan was of the A3alpha (l-lys-d-glu-l-Ala) type. Physiological, biochemical and genotypic data, as well as results of DNA-DNA hybridization of the genomic DNA with one of the closest phylogenetic relatives, L. rossiae DSM 15814(T), indicated that the strains represent a novel species of the genus Lactobacillus, for which the name Lactobacillus siliginis sp. nov. is proposed. The type strain is M1-212(T) (=KCTC 3985(T)=NBRC 101315(T)).</P>
Phenylobacterium koreense sp. nov., isolated from South Korea
Aslam, Zubair,Im, Wan-Taek,Ten, Leonid N.,Lee, Sung-Taik Microbiology Society 2005 International journal of systematic and evolutiona Vol.55 No.5
<P>A Gram-negative, aerobic, rod-shaped, non-spore-forming bacterium, Slu-01<SUP>T</SUP>, was isolated from activated sludge from a wastewater treatment plant in Daejeon, South Korea. After 3 days on R2A medium, strain Slu-01<SUP>T</SUP> developed colourless colonies (0·7-1·2 mm). The non-motile rods (0·7-1·0×1·0-2·0 μm) were slightly curved and occurred singly and in pairs. No filamentous cells were found. On the basis of 16S rRNA gene sequence similarity, strain Slu-01<SUP>T</SUP> was shown to belong to the family <I>Caulobacteraceae</I> and was most closely related to <I>Phenylobacterium immobile</I> (96·6 %) and <I>Phenylobacterium lituiforme</I> (96·5 %). The genomic DNA G+C content of strain Slu-01<SUP>T</SUP> was 68·1 mol%, within the range of 67·3-68·4 mol% for the genus <I>Phenylobacterium</I>. Chemotaxonomic data (major ubiquinone, Q-10; major fatty acids C18 : 1<I>ω</I>7<I>c</I>, C16 : 0, C15 : 0 and C17 : 0) and 16S rRNA gene sequence analysis supported the affiliation of strain Slu-01<SUP>T</SUP> to the genus <I>Phenylobacterium</I>. However, DNA-DNA hybridization data and phenotypic properties showed that strain Slu-01<SUP>T</SUP> could be distinguished from the two other <I>Phenylobacterium</I> species with validly published names. Thus, it is suggested that strain Slu-01<SUP>T</SUP> represents a novel species of the genus <I>Phenylobacterium</I>, for which the name <I>Phenylobacterium koreense</I> is proposed. The type strain is Slu-01<SUP>T</SUP> (=KCTC 12206<SUP>T</SUP>=IAM 15119<SUP>T</SUP>).</P>
Flavobacterium sasangense sp. nov., isolated from a wastewater stream polluted with heavy metals.
Yoon, Hwan Sik,Aslam, Zubair,Song, Geun Cheol,Won Kim, Seon,Jeon, Che Ok,Chon, Tae Soo,Chung, Young Ryun Society for General Microbiology 2010 International journal of systematic and evolutiona Vol.60 No.1
Chung, Bok-Sil,Aslam, Zubair,Kim, Seon-Won,Kim, Geun-Gon,Kang, Hye-Sook,Ahn, Jong-Woong,Chung, Young-Ryun The Korean Society of Plant Pathology 2008 Plant Pathology Journal Vol.24 No.4
An endophytic bacterial strain YC5480 producing antifungal and phytotoxic compounds simultaneously was isolated from the surface sterilized root of Artemisia sp. collected at Jinju area, Korea. The bacterial strain was identified as a species of Pseudomonas brassicacearum based on its 16S rRNA gene sequence analysis and physiological and biochemical characteristics. The seed germination and growth of monocot and dicot plants were inhibited by culture filtrate (1/10-strength Tryptic Soy Broth) of the strain. The germination rate of radish seeds in the culture filtrate differed in various culture media. Only 20% of radish seeds germinated in the culture media of 1/2 TSB for 5 days incubation. Mycelial growth of fungal pathogens, Colletotrichum gloeosporioides, Fusarium oxysporum and Phytophthora capsici was also inhibited by the culture filtrate of the strain YC5480. An antifungal compound, KS-1 with slight inhibitory activity of radish seed germination at 1,000 ppm and a seed germination inhibitory compound, KS-2 without suppression of fungal growth were produced simultaneously in TSB. The compounds KS-1 and KS-2 were identified to be 2,4-diacetylphloroglucinol (DAPG) and 2,4,6-trihydroxyacetophenone (THA), respectively.
Flavobacterium sasangense sp. nov., isolated from a wastewater stream polluted with heavy metals.
Yoon, Hwan Sik,Aslam, Zubair,Song, Geun Cheol,Kim, Seon Won,Jeon, Che Ok,Chon, Tae Soo,Chung, Young Ryun Society for General Microbiology 2009 International journal of systematic and evolutiona Vol.59 No.5
<P>A Gram-negative, rod-shaped bacterium, designated strain YC6274(T), was isolated from a stream (Sasang) carrying wastewater polluted with heavy metals in Busan, Korea. Growth was observed at 10-35 degrees C (optimum, 30 degrees C) and pH 6.0-9.5 (optimum, pH 7.5-8.0). Comparative 16S rRNA gene sequence analyses showed that the strain was most closely related to Flavobacterium cucumis R2A45-3(T) (96.6 % similarity), F. aquatile ATCC 11947(T) (93.7 %), F. croceum EMB47(T) (93.3 %), F. indicum GPTSA100-9(T) (93.3 %) and F. terrigena DS-20(T) (93.2 %). Sequence similarities with strains of other Flavobacterium species with validly published names were lower than 93.0 %. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain YC6274(T) formed a distinct phyletic lineage within the genus Flavobacterium. The predominant fatty acids of strain YC6274(T) were iso-C(15 : 0), iso-C(16 : 0), iso-C(15 : 1) G, iso-C(17 : 0) 3-OH, iso-C(16 : 0) 3-OH and iso-C(15 : 0) 3-OH. The G+C content of the genomic DNA was 32.5 mol% and the major quinone was MK-6. On the basis of phenotypic, chemotaxonomic and molecular data, it is clear that strain YC6274(T) represents a novel species within the genus Flavobacterium, for which the name Flavobacterium sasangense sp. nov. is proposed. The type strain is YC6274(T) (=KCTC 22246(T) =DSM 21067(T)).</P>
정영륜,정복실,김선원,김근곤,강혜숙,Zubair Aslam,안종웅 한국식물병리학회 2008 Plant Pathology Journal Vol.24 No.4
An endophytic bacterial strain YC5480 producing antifungal and phytotoxic compounds simultaneously was isolated from the surface sterilized root of Artemisia sp. collected at Jinju area, Korea. The bacterial strain was identified as a species of Pseudomonas brassicacearum based on its 16S rRNA gene sequence analysis and physiological and biochemical characteristics. The seed germination and growth of monocot and dicot plants were inhibited by culture filtrate (1/10-strength Tryptic Soy Broth) of the strain. The germination rate of radish seeds in the culture filtrate differed in various culture media. Only 20% of radish seeds germinated in the culture media of 1/2 TSB for 5 days incubation. Mycelial growth of fungal pathogens, Colletotrichum gloeosporioides, Fusarium oxysporum and Phytophthora capsici was also inhibited by the culture filtrate of the strain YC5480. An antifungal compound, KS-1 with slight inhibitory activity of radish seed germination at 1,000 ppm and a seed germination inhibitory compound, KS-2 without suppression of fungal growth were produced simultaneously in TSB. The compounds KS-1 and KS-2 were identified to be 2,4-diacetylphloroglucinol (DAPG) and 2,4,6-trihydroxyacetophenone (THA), respectively.
Park, Joo Hwang,Kim, Rumi,Aslam, Zubair,Jeon, Che Ok,Chung, Young Ryun Society for General Microbiology 2008 International journal of systematic and evolutiona Vol.58 No.2
<P>The taxonomic position of a novel bacterial strain, YC5194(T), with antimicrobial activity, isolated from the rhizosphere of pepper in Jinju, South Korea, was studied using a polyphasic approach. Cells of the strain were Gram-negative, rod-shaped, facultative anaerobes. It grew at a temperature of 15-37 degrees C (optimum 28 degrees C). Growth of the strain occurred between pH 5.5 and 8.5, with an optimum of pH 7.0-7.5. The strain inhibited mycelial growth of Pythium ultimum, Colletotrichum gloeosporioides, Fusarium oxysporum, Botrytis cinerea, Rhizoctonia solani and Botryosphaeria dothidea and growth of Bacillus subtilis. The G+C content of the total DNA was 65.4 mol%. The 16S rRNA gene sequence of the strain was most closely related to species of the genus Lysobacter (<94.0 to >99.0 % sequence similarity). Chemotaxonomic data (major quinone, Q-8; major polar lipids, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and phosphatidyl-N-methylethanolamine; major fatty acids, iso-C(15 : 0), summed feature 3, C(16 : 0), iso-C(17 : 1)omega9c and C(18 : 1)omega7c) supported the affiliation of strain YC5194(T) to the genus Lysobacter. Phylogenetic analysis based on 16S rRNA gene sequences, DNA-DNA hybridization data and biochemical and physiological characteristics strongly supported the genotypic and phenotypic differentiation of strain YC5194(T) from species of Lysobacter with validly published names. Strain YC5194(T) therefore represents a novel species, for which the name Lysobacter capsici sp. nov. is proposed. The type strain is YC5194(T) (=KCTC 22007(T) =DSM 19286(T)).</P>