Shun-Peng Li

Nanjing Agricultural University, Nan-ching, Jiangsu Sheng, China

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Publications (99)164.45 Total impact

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    ABSTRACT: A Gram-negative, aerobic, rod-shaped, non-spore-forming, non-motile bacterial strain, designated BUT-6T, was isolated from activated sludge of a wastewater-treatment facility. The strain grew at 15-35 °C (optimum 30 °C), pH 4.0-10.0 (optimum pH 7.0), and 0 %-3.0 % of NaCl (optimum 1.0 %). Phylogenetic analysis based on 16S rRNA sequences showed that strain BUT-6T was most closely related to Tahibacter aquaticus PYM5-11T (98.6 % similarity). However, the DNA-DNA relatedness between strain BUT-6T and T. aquaticus PYM5-11T was 47.1%. The major fatty acids (>10 % of total fatty acids) of strain BUT-6T were iso-C15 : 0, iso-C17 : 1 ω9c, and iso-C17 : 0. The major respiratory quinone was ubiquinone Q-8. The profile of polar lipids was diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylmethylethanolamine (PME), unidentified aminophospholipid (APL), three unknown aminolipids (AL1-3), and several unidentified phospholipids (PL1-4). The DNA G+C content of strain BUT-6T was 71.7 mol%. On the basis of the polyphasic taxonomic data presented, strain BUT-6T is considered to represent a novel species of the genus Tahibacter, for which the name Tahibacter caeni sp. nov. is proposed. The type strain is BUT-6T (= CCTCC AB 2013266T = KACC 17139T). Copyright © 2014, the Society for General Microbiology.
    International journal of systematic and evolutionary microbiology. 11/2014;
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    ABSTRACT: An aerobic, Gram-stain negative, pale, rod-shaped, nitrogen-fixing bacterial strain DDT-3T was isolated from a dichlorodiphenyltrichloroethane-contaminated soil in Liyang, China. Strain DDT-3T grew at temperatures ranging from 20-40°C (optimum at 30-37°C) and pH ranges from 5.0-10.0 (optimum at pH 7.0-8.0). The G+C content of the total DNA was 70.1 mol%. The 16S rRNA gene sequence of strain DDT-3T showed the highest similarity to that of Pseudoxanthobacter soli CC4T (99.6%), followed by Kaistia dalseonensis B6-8T (93.3%), Kaistia soli 5YN9-8T (93.0%) and Amorphous orientalis YIM D10 T (93.0%). Strain DDT-3T showed less than 92.6% similarities with other species of the family Xanthobacteraceae. The major cellular fatty acids of strain DDT-3T were C19:0 cyclo ω8c (42.6%), C16:0 (33.2%) and C18:1 ω7c (10.0%). The only respiratory quinone was ubiquinone Q-10. The characteristic diamino acid of the peptidoglycan was meso-diaminopimelic acid. The major polar lipids were glycolipid, lipid, phosphatidylcholin, aminolipid, phosphatidylmethylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The polyamine pattern consisted of major amount of putrescine (92.9%) and minor amounts of spermidine (5.0%) and spermine (2.1%). These chemotaxonomic data supported the affiliation of strain DDT-3T to the genus Pseudoxanthobacter. DNA-DNA hybridization value between strain DDT-3T and strain CC4T was 47.8% (reciprocal 44.3 %). The DNA-DNA hybridization data as well as biochemical and physiological characteristics strongly supported the genotypic and phenotypic differentiations between strain DDT-3T and strain CC4T. Strain DDT-3T, therefore, represents a novel member of the genus Pseudoxanthobacter, for which the name Pseudoxanthobacter liyangensis sp. nov. is proposed. The type strain is DDT-3T (=KACC 16601T = CCTCC AB 2013167T).
    International journal of systematic and evolutionary microbiology. 07/2014;
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    ABSTRACT: A Gram-negative, non-spore-forming, non-motile, oval-shaped, aerobic bacterial strain , designated BUT-3T, was isolated from activated sludge of one herbicides-manufacturing wastewater treatment facility in Kunshan city, Jiangsu province, China. Strain BUT-3T grew between 15 and 40 °C, with optimum growth at 30 °C. The pH range for growth was between 5.0 and 10.0 (optimum of approximately pH 7.0). The range of NaCl concentration allowing growth of strain BUT-3T was between 0 and 7.0 %, with an optimum of 1.5-3.0 %. A phylogenetic tree based on 16S rRNA gene sequence analysis showed that strain BUT-3T closely clustered with Rhodoligotrophos appendicifer 120-1T (98.32 % similarity), at a bootstrap confidence level of 100 %. The major fatty acids (>5 % of total fatty acids) were C19:0 cyclo ω8c, C18:1 ω7c, C16:0, anteiso-C15:0 and iso-C15:0. Strain BUT-3T contained ubiquinone Q-10 as the predominant respiratory quinone. The profile of polar lipids was diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylethanolamine (PE), phosphatidylcholine (PC), three unidentified aminolipids (AL1-3), two unknown phospholipids (PL1, 5), four unidentified glycolipids (GL1-4) and two unknown lipids (L1, 2). The G+C content of the genomic DNA was 67.7 mol%. The DNA-DNA relatedness between BUT-3T and R. appendicifer 120-1T was 44.1 ± 0.6 %. Based on the polyphasic taxonomic data, strain BUT-3T is classified as a novel species of the genus Rhodoligotrophos, for which the name Rhodoligotrophos jinshengii sp. nov. is proposed. The type strain is BUT-3T (=CCTCC AB2013083T = KACC 17220T).
    International journal of systematic and evolutionary microbiology 07/2014; · 2.11 Impact Factor
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    ABSTRACT: Sphingomonads DC-6 and DC-2 degrade chloroacetanilide herbicides alachlor, acetochlor and butachlor via N-dealkylation. In this study, we report a three- component Rieske non-heme iron oxygenase (RHO) system catalyzing the N-dealkylation of these herbicides. The oxygenase component gene cndA is located in a transposable element that is highly conserved in the two strains. CndA shares 24-42% identities with the oxygenase components of some RHOs that catalyze the N- or O-demethylation. Two putative [2Fe-2S] ferredoxins and one GR (glutathione reductase)-type reductase genes were retrieved from the genome of each strain, these genes were not located in the immediate vicinity of cndA. The four ferredoxins share 64-72% identities to the ferredoxin component of dicamba O-demethylase (DMO), and the two reductases share 62-65% identities to the reductase component of DMO. cndA, the four ferredoxins and two reductases genes were expressed in Escherichia coli and the recombinant proteins were purified using Ni-affinity chromatography. The individual components or in pairs displayed no activity; only when CndA-His6 plus one of the four ferredoxins and one of the two reductases did the enzyme mixture show N-dealkylase activities toward alachlor, acetochlor and butachlor, suggesting that the enzyme consists of three components: a homo-oligomer oxygenase, a [2Fe-2S] ferredoxin and a GR-type reductase, and CndA has a low specificity for electron transport component (ETC). The N-dealkylase utilizes NADH, but not NADPH, as electron donor.
    Applied and environmental microbiology. 06/2014;
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    ABSTRACT: A Gram-stain-positive, rod-shaped, non-motile, non-spore-forming, aerobic bacterial strain, designated BUT-2T, was isolated from activated sludge of one herbicides-manufacturing wastewater-treatment facility in Kunshan, Jiangsu province, China, and subjected to a polyphasic taxonomic study. Analysis of the 16S rRNA gene sequence indicated that strain BUT-2T shared the highest identity with Chryseomicrobium amylolyticum (98.98 %), followed by Chryseomicrobium imtechense (98.88 %), and less than 96 % identities to members of the genera Paenisporosarcina, Planococcus, Sporosarcina and Planomicrobium. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain BUT-2T clustered with C. amylolyticum JC16T and C. imtechense MW10T, occupying a distinct phylogenetic position. Major fatty acids (>10 % of total fatty acids) of strain BUT-2T was iso-C15:0. Quinone system comprised menaquinone MK-7 (77.8 %), MK-6 (11.9 %) and MK-8 (10.3 %). The polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylethanolamine (PE) and unidentified phospholipids (PL1-5). The cell-wall peptidoglycan type of strain BUT-2T was L-Orn-D-Glu. The genomic DNA G+C content of strain BUT-2T was 48.5 mol%. Furthermore, the value of DNA-DNA hybridization experiment against the reference strain was clearly lower than 70%, and consequently confirmed that this new strain does not belong to a previously described species of the genus Chryseomicrobium. On the basis of its morphological, physiological and chemotaxonomic characteristics as well as phylogenetic analysis, strain BUT-2T is considered to represent a novel species of the genus Chryseomicrobium, for which the name Chryseomicrobium aureum sp. nov. is proposed. The type strain is BUT-2T (=CCTCC AB2013082T = KACC 17219T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2014; · 2.11 Impact Factor
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    ABSTRACT: The taxonomic status of a carbendazim-degrading strain, mbc-2T, isolated from soil under the long-term application of carbendazim in China was determined. The cells were Gram-stain positive, motile and rod-shaped. Its taxonomic position was investigated by means of a polyphasic study. Strain mbc-2T grew optimally at pH 7.0, 30-35 and in the presence of 1 % (w/v) NaCl. A phylogenetic analysis based on 16S rRNA gene sequences showed that strain mbc-2T fell within the genus Nocardioides, forming a coherent cluster with the type strain of Nocardioides hankookensis, with which it exhibited 16S rRNA gene sequence similarity values of 97.9 %. The chemotaxonomic properties of strain mbc-2T were consistent with those of the genus Nocardioides: the cell-wall peptidoglycan type was based on LL-2,6-diaminopimelic acid, the predominant menaquinone was MK-8 (H4) and the major fatty acids was iso-C16 : 0. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, unknown phospholipids, and an unknown aminolipid. The DNA G + C content was 72 mol %. Strain mbc-2T exhibited DNA-DNA relatedness levels of 12.5 ± 1.5%, 23.7 ± 2.7 % and 26.3 ± 3.2 % with respect to N. hankookensis DS-30T, N. aquiterrae GW-9T and N. pyridinolyticus OS4T .On the basis of the data obtained, strain mbc-2T represents a novel species of the genus Nocardioides, for which the name Nocardioides soli sp. nov. is proposed. The type strain is mbc-2T (=KACC 17152T =CCTCC AB 2012934T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 03/2014; · 2.11 Impact Factor
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    ABSTRACT: A Gram-negative, non-motile, pale-yellow, rod-shaped bacterial strain, YW14T, was isolated from soil and its taxonomic position was investigated by a polyphasic study. Strain YW14T did not form nodules on three different legumes, and the nodD and nifH genes were also not detected by PCR. Strain YW14T contained Q-10 as the predominant ubiquinone. The major cellular fatty acid was C18:1ω7c. Phylogenetic analyses based on 16S rRNA, seven housekeeping gene sequences(recA, atpD, glnII, gyrB, rpoB, dnaK and thrC) showed that strain YW14T belonged to the genus Rhizobium. Strain YW14T showed 16S rRNA gene sequence similarity of 93.4-97.3% to the type strains of recognized Rhizobium species. DNA-DNA relatedness between strain YW14T and the type strains of R. sullae IS123T and R. yanglingense CCBAU71623T was 19.6-25.7 %, indicating that strain YW14T was distinct from them genetically. Strain YW14T can also be differentiated from these phylogenetically related Rhizobium species by various phenotypic properties. On the basis of phenotypic properties, phylogenetic distinctiveness and genetic data, strain YW14T is considered to represent a novel species of the genus Rhizobium, for which the name Rhizobium flavum sp. nov. is proposed. The type strain is YW14T (=KACC 17222T =CCTCC AB 2013042T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 03/2014; · 2.11 Impact Factor
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    ABSTRACT: A Gram-negative, aerobic, motile, rod-shaped, arsenite [As(III)]-resistant bacterium, designated as strain YW8T, was isolated from agricultural soil. The 16S rDNA sequence analysis showed over 97 % sequence similarity to strains of the environmental species Xenophilus azovorans, Xenophilus aerolatus, Simplicispira metamorpha, Variovorax soli, and Xylophilus ampelinus. However, the phylogenetic tree indicated that strain YW8T formed a separate clade from Xenophilus azovorans. DNA-DNA hybridization experiments showed that the DNA-DNA relatedness values between strain YW8T and its closest phylogenetic neighbours were below 24.2-35.5 %, which clearly separated the strain from these closely related species. The major cellular fatty acids were C16:0, C 17:0 cyclo, C18:1 ω7c, and Summed feature 3(C16:1 ω6c and/or C16:1 ω7c). The genomic DNA G+C content was 69.3 mol%, and the major respiratory quinone was ubiquinone-8. The predominant polar lipids were diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), phosphatidylethanolamine (PE), unknown phospholipid 1 (PL1), unknown phospholipid 2 (PL2), unknown phospholipid 3 (PL3), unknown polar Lipid (L) and phosphatidylserine (PS). The major polyamine were 2-hydroxyputrescine and putrescine. On the basis of morphological and physiological/biochemical characteristics, phylogenetic position, DNA-DNA hybridization, and chemotaxonomic data, this strain was considered to represent a novel species of the genus Xenophilus, for which the name Xenophilus arseniciresistens sp. nov. was proposed; the type strain is YW8T (=CCTCC AB 2012103T=KACC 16853T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 02/2014; · 2.11 Impact Factor
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    ABSTRACT: A Gram-negative, strictly aerobic, yellow-orange-pigmented, motile, short rod-shaped, catalase-positive, oxidase-negative bacterium, strain MYL-8T, was isolated from the waste water of the Jin Tai Chemical Factory in Hefei, China. Strain MYL-8T grew optimally at 30°C, in the absence of NaCl and at pH 7. Menaquinone-6 was the sole respiratory quinone and the major fatty acids were iso-C15:0 (36.96%), iso-C15:1 G (18.14%), iso-C17:0 3-OH (13.67%) and summed feature 3 (C16:1 ω7c/iso-C15:0 2-OH) (11.17%). The polar lipid profile was composed predominantly of polar lipids and aminolipids. Minor amounts of phosphatidylethanolamine and phospholipids were also detectable. The DNA G+C content of strain MYL-8T was 43.5 mol%. The 16S rRNA gene sequence of strain MYL-8T showed the highest similarity to that of Fluviicola taffensis RW262T (97.03%), followed by Wandonia haliotis Haldis-1-1T (92.05%), Lishizhenia caseinilytica UST040201-001T (91.43%) and Lishizhenia tianjinensis JCM 15141T (90.61%). DNA-DNA relatedness between strain MYL-8T and strain RW262T was 21.35 ± 0.90%. On the basis of phenotypic, chemotaxonomic, genomic and phylogenetic data, strain MYL-8T is considered to represent a novel species of the genus Fluviicola, for which the name Fluviicola hefeinensis sp. nov. is proposed. The type strain is MYL-8T (= KACC 16597T = CCTCC AB 2013168T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 10/2013; · 2.11 Impact Factor
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    ABSTRACT: Two bacterial strains Sphingobium quisquiliarum DC-2 and Sphingobium baderi DE-13 were isolated from activated sludge. Acetochlor was transformed by S. quisquiliarum DC-2 to a transitory intermediate 2-chloro-N-(2-methyl-6-ethylphenyl)acetamide (CMEPA), which was further transformed to 2-methyl-6-ethylaniline (MEA), and MEA could not be degraded by strain DC-2. S. baderi DE-13, incapable of degrading acetochlor, showed capability of degrading MEA to an intermediate 2-methyl-6-ethylaminophenol (MEAOH). MEAOH was further transformed to 2-methyl-6-ethylbenzoquinoneimine (MEBQI), which was mineralized by strain DE-13. A gene, cmeH, encoding an amidase that catalyzed the amide bond cleavage of CMEPA was cloned from strain DC-2. CmeH was expressed in Escherichia coli BL21 and homogenously purified using Ni-nitrilotriacetic acid affinity. CmeH efficiently hydrolyzed CMEPA and other important herbicide, such as propanil, fenoxaprop-p-ethyl and clodinafop-propargyl.
    Bioresource Technology 09/2013; · 5.04 Impact Factor
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    ABSTRACT: A bacterial strain, designated J6(T), was isolated from activated sludge, collected from a chemical wastewater treatment system in Zhejiang Province of China. The cells stained Gram-negative, were aerobic, pale-yellow, and non-motile short rods. Phylogenetic analysis of the 16S rRNA gene sequence indicated that the closest relative of this organism was Paracoccus aminophilus KACC 12262(T) = JCM 7686(T) (97.4 % sequence similarity). Strain J6(T) grew at 10-37 °C (optimum 30 °C), at pH 6.0-8.0 (optimum pH 7.0) and with 0-5 % NaCl (optimum 3 %, w/v). The predominant cellular fatty acid found was summed feature 8(C18:1 ω7c and/or C18:1 ω6c; 82.8 %). The major respiratory quinone-detected was Q-10 and the DNA G+C content was 61.9 mol %. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine and several unknown polar lipids. Strain J6(T) showed low DNA-DNA relatedness values with P. aminophilus KACC 12262(T) (28 ± 3 %). The phylogenetic analysis, DNA-DNA hybridization, whole-cell fatty acid composition as well as biochemical characteristics allowed clear differentiation of the isolate from the other type strains of already described Paracoccus species. It is evident from the genotypic, phenotypic and chemotaxonomic analyses that strain J6(T) should be classified as a novel species of the genus Paracoccus, for which the name P. zhejiangensis sp. nov. is proposed. The type strain is J6(T) (KACC 16703(T) = CCTCC AB 2012031(T)).
    Antonie van Leeuwenhoek 05/2013; · 2.07 Impact Factor
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    ABSTRACT: A Gram-negative, non-spore-forming, rod-shaped Flavobacterium-like bacterial strain, hgT, was isolated from soil, and subjected to a polyphasic taxonomic study. Strain hgT grew optimally at pH 7.0 and 30°C in the presence of 1 % (w/v) NaCl. It contained MK-6 as the predominant menaquinone and iso-C15:0 and iso-C17:0 3-OH as the major fatty acids. The DNA G+C content was 34 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain hgT belonged to the genus Flavobacterium. Levels of 16S rRNA gene sequence similarity between strain hgT and the type strains of Flavobacterium species were below 94.7 %. Strain hgT differed from phylogenetically related Flavobacterium species in several phenotypic characteristics. On the basis of phenotypic and phylogenetic distinctiveness, hgT (=CCTCC AB 2012099T = KACC 16855T) was classified in the genus of Flavobacterium as the type strain of a novel species, for which the name Flavobacterium yanchengense sp. nov. is proposed.
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 01/2013; · 2.11 Impact Factor
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    ABSTRACT: Bacterial strain GB-01 was isolated from abamectin-contaminated soils by continuous enrichment culture. The preliminary identification of strain GB-01 as a Burkholderia species was based mainly on simple biochemical and substrate utilization tests; however, these tests alone cannot accurately differentiate all the species within the genus Burkholderia. The strain GB-01 was subjected to taxonomic analysis through a polyphasic approach, in which phenotypic, genotypic, and phylogenetic information was gathered to conclude the classification of this microbe. Phenotypic information comes from basic bacteriological tests and substrate utilization patterns using the Biolog GN2 MicroPlating system and automated miniature biochemical test kits, i.e. API 20 NE, ID 32 GN and API 50 CH, as well as analyzing the whole cell fatty acid profile. Genotypic information was gathered from whole genome DNA base composition (G+C mol%), and DNA-DNA hybridization with its closest species, while phylogenetic information was collected from the comparative analysis of 16S rRNA and recA gene sequences. The results of polyphasic analysis concluded that strain GB-01 is an atypical strain of the Burkholderia diffusa species.
    The Journal of General and Applied Microbiology 01/2013; 59(3):215-25. · 0.74 Impact Factor
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    ABSTRACT: The taxonomic status of a bacterium strain DC-8T, isolated from activated sludge, was determined using a polyphasic taxonomic approach. The cells of strain DC-8T were Gram-negative, non-motile, non-spore-forming and rod-shaped. The isolate grew at temperature range of 10-40°C (optimum 30-35 °C), pH range of 5.0-10.0 (optimum 6.5-8.0) and NaCl 0-5 % (optimum 0-1 %). The predominant menaquinone of strain DC-8T was MK-7 and major fatty acids were summed features 3 (C16:1 ω6c and/or C16:1 ω7c; 39.7 %), iso-C15:0 (33.7 %) and C16:0 (5.2 %). The DNA G+C content was 39.8 mol %. Phylogenetic analysis based on 16S rRNA gene sequences comparison revealed that strain DC-8T was a member of the genus Sphingobacterium. Strain DC-8T shared the highest similarity with S. siyangense SY1T (98.4 %), S. multivorum IAM14316T (98.3 %), S. canadense CR11T (98.0 %) and S. detergens 6.2ST (97.9 %), and shared less than 97 % similarities with other Sphingobacterium species. DNA-DNA hybridization experiments showed that the DNA-DNA relatedness values between strain DC-8T and its closest phylogenetic neighbours were below 70 %. Based on the phylogenetic analysis, DNA-DNA hybridization, whole-cell fatty acid composition as well as biochemical characteristics, strain DC-8T was clearly distinguished from all recognized Sphingobacterium species and should be classified as a novel species of the genus Sphingobacterium, for which the name Sphingobacterium caeni sp. nov. is proposed. The type strain is DC-8T (=CCTCC AB 2012020T =KACC 16850T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 11/2012; · 2.11 Impact Factor
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    ABSTRACT: A novel biosurfactant-producing strain, designated as YW1T, was isolated from agricultural soil. Its taxonomic position was investigated using a polyphasic approach. The cells were short rods, Gram-negative, non-sporulating and motile. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YW1T was a member of the genus Comamonas, and showed highest sequence similarities to C. aquatica LMG 2370T (98.5 %), C. kerstersii LMG 3475T (97.7 %), and C. terrigena LMG 1253T (97.7 %). Furthermore, the results of DNA-DNA hybridization experiments against these three strains were clearly lower than 70% DNA-DNA relatedness, and consequently confirmed that this new strain does not belong to a previously described species of the genus Comamonas. The major respiratory quinone was ubiquinone-8. The major fatty acids (> 5 %) were C16:0 (30.1 %), summed feature 3 (C16:1ω6c and/or C16:1ω7c; 25.4 %), summed feature 8 (C18:1ω6c and/or C18:1ω7c; 15.3 %), C17:0 cyclo (7.4 %) and C14:0 (5.8 %). The major polar lipids are DPG (diphosphatidylglycerol); PG (phosphatidylglycerol); PE (phosphatidylethanolamine); PL (unknown phospholipids); L (unknown lipids). Based on the phylogenetic analysis, DNA-DNA hybridization, whole-cell fatty acid composition as well as biochemical characteristics, strain YW1T was clearly distinguished from all recognized Comamonas species and should be classified as a novel species of the genus Comamonas, for which the name Comamonas jiangduensis sp. nov. is proposed. The type strain is YW1T (=CCTCC AB 2012033T =KACC 16697T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 11/2012; · 2.11 Impact Factor
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    ABSTRACT: A Gram-negative, aerobic, rod-shaped, non-motile, non-spore-forming bacterial strain, designated DC-3T, was isolated from activated sludge of a wastewater treatment plant in China, and was characterized taxonomically by using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that strain DC-3T belongs to the family Xanthomonadaceae and formed a subclade with the genus Dokdonella. Strain DC-3T shared the highest similarity with Dokdonella soli KACC 12741T (97.1 %) and Dokdonella fugitiva KACC 13124T (97.1 %). The G + C content of the genomic DNA was 71.5 mol %. The major respiratory quinone was Q-8 and the major fatty acids were iso-C17 : 1ω9c (31.6 %), iso-C15 : 0 (12.6 %), iso-C16 : 0 (21.3 %), iso-C17 : 0 (13.1 %) and isoC11:0 3-OH (6.5 %) supporting the affiliation of strain DC-3T to the genus Dokdonella. DNA-DNA hybridization experiments showed that the DNA-DNA relatedness values between strain DC-3T and its closest phylogenetic neighbours were below 30 %. The results of physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain DC-3T from recognized species of the genus Dokdonella. On the basis of its phenotypic properties and phylogenetic distinctiveness, strain DC-3T represents a novel species of the genus Dokdonella, for which the name Dokdonella kunshanensis sp. nov. is proposed. The type strain is DC-3T (=CCTCC AB2011179T= KACC 16511T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 08/2012; · 2.11 Impact Factor
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    ABSTRACT: Fomesafen is a diphenyl ether herbicide used to control the growth of broadleaf weeds in bean fields. Although the degradation of fomesafen in soils was thought to occur primarily by microbial activity, little was known about the kinetic and metabolic behaviors of this herbicide. This paper reported the capability of the newly isolated strain Pseudomonas zeshuii BY-1 to use fomesafen as the sole source of carbon in pure culture for its growth. Up to 88.7% of 50 mg of L(-1) fomesafen was degraded by this bacterium in mineral medium within 3 days. Strain BY-1 could also degrade other diphenyl ethers, including lactofen, acifluorfen, and fluoroglycofen. During the fomesafen degradation, five metabolites were detected and identified by liquid chromatography-mass spectrometry and tandem mass spectrometry. The primary degradation pathway of fomesafen might be the reduction of the nitro group to an amino group, followed by the acetylation of the amino derivative, dechlorination, and cleavage of the S-N bond. The addition of the BY-1 stain into soils treated with fomesafen resulted in a higher degradation rate than that observed in uninoculated soils, and the bacteria community in contaminated soil recovered after inoculation of the BY-1 stain. On the basis of these results, strain P. zeshuii BY-1 has the potential to be used in the bioremediation of fomesafen-contaminated soils.
    Journal of Agricultural and Food Chemistry 07/2012; 60(29):7104-10. · 3.11 Impact Factor
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    ABSTRACT: A novel facultatively anaerobic, non-spore-forming, non-motile, catalase-and oxidase-positive, Gram-negative and coccoid to short rods bacterial strain, designated FLN-7T, was isolated from activated sludge of a wastewater bio-treatment facility. The strain was able to hydrolyze amide pesticides (diflubenzuron, propanil, chlorpropham, and dimethoate) through amide bond cleavage. Strain FLN-7T grew at 4-42 ° (optimum at 28 °), at pH 5.0-8.0 (optimum at pH 7.0), and with 0-5.0% (w/v) NaCl (optimum at 1.0 %). The major respiratory quinone was ubiquinone-10 and the major cellular fatty acid was C18 : 1 ¦Ø7c. The genomic DNA G + C content of strain FLN-7T was 66.4 ± 0.5 mol%. The major polar lipids were phosphatidylglycerol (PG), diphosphatidylglycerol (DPG), phosphatidylcholine (PC), and an unidentified glycolipid (GL). Phylogenetic analysis based on 16S rRNA gene sequences comparison revealed that strain FLN-7T was a member of the genus Paracoccus, it showed highest sequence similarities to Paracoccus aminovorans KACC 12261T (99.2 %), Paracoccus denitrificans KACC 12251T (97.8 %), and then to Paracoccus yeei CCUG 46822T (97.3 %), and Paracoccus thiocyanatus KACC 13901T (97.1 %). Strain FLN-7T showed low DNA-DNA relatedness values with Paracoccus aminovorans KACC 12261T (36.5 ± 3.4%), Paracoccus denitrificans KACC 12251T(30.5 ± 2.6), Paracoccus yeei CCUG 46822T(26.2 ± 2.4) and Paracoccus thiocyanatus KACC 13901T(15.5 ± 0.9). Based on the phylogenetic analysis, DNA-DNA hybridization, whole-cell fatty acid composition as well as biochemical characteristics, strain FLN-7T was clearly distinguished from all recognized Paracoccus species and should be classified as a novel species of the genus Paracoccus, for which the name Paracoccus huijuniae sp. nov. is proposed. The type strain is FLN-7T (=KACC 16242T= ACCC 05690T).
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 06/2012; · 2.11 Impact Factor
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    ABSTRACT: Bacterial strain 14-2AT, isolated from a long-term DDT-contaminated soil in China, was characterized by using a polyphasic approach to clarify its taxonomic position. Strain 14-2AT was found to be Gram-negative, aerobic, non-spore-forming, non-motile, non-flagellated, and rod-shaped. The new isolate was able to grow at 4-42°C, pH 6.0-9.0, and with 0-5% NaCl. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belongs to the family of Sphingobacteriaceae. The 16S rRNA gene sequence of strain 14-2AT showed the highest similarity with Olivibacter oleidegradans TBF2/20.2T (99.4%), followed by Pseudosphingobacterium domesticum DC-186T (93.8%), O. ginsengisoli Gsoil 060T (93.6%), O. terrae Jip13T (93.1%), O. soli Gsoil 034T (92.8%), and O. sitiensis AW-6T (89.6%). The DNA-DNA hybridization value between strains 14-2AT and TBF2/20.2T was 34.45±2.11%. Strain 14-2AT contained phosphatidylethanolamine (PE), phosphomonoester (PME), aminophospholipid (APL), and phosphatidylinositol mannoside (PIM) as the major polar lipids. The DNA G+C content was 41.2 mol%. Phenotypic and chemotaxonomic data (MK-7 as the major isoprenoid quinine; C16:1ω7c and/or C16:1ω6c, iso-C15:0, and iso-C17:0 3-OH as the major fatty acids) confirmed the affiliation of strain 14-2AT to the genus Olivibacter. On the basis of the phylogenetic, phenotypic characteristics, and chemotaxonomic data, strain 14-2AT is considered as a novel species of the genus Olivibacter, for which the name Olivibacter jilunii sp. nov. (type strain 14-2AT = KCTC 23098T = CCTCC AB 2010105T) is proposed.
    INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 06/2012; · 2.11 Impact Factor
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    ABSTRACT: The bacterial isolate Paracoccus sp. strain FLN-7 hydrolyzes amide pesticides such as diflubenzuron, propanil, chlorpropham, and dimethoate through amide bond cleavage. A gene, ampA, encoding a novel arylamidase that catalyzes the amide bond cleavage in the amide pesticides was cloned from the strain. ampA contains a 1,395-bp open reading frame that encodes a 465-amino-acid protein. AmpA was expressed in Escherichia coli BL21 and homogenously purified using Ni-nitrilotriacetic acid affinity chromatography. AmpA is a homodimer with an isoelectric point of 5.4. AmpA displays maximum enzymatic activity at 40°C and a pH of between 7.5 and 8.0, and it is very stable at pHs ranging from 5.5 to 10.0 and at temperatures up to 50°C. AmpA efficiently hydrolyzes a variety of secondary amine compounds such as propanil, 4-acetaminophenol, propham, chlorpropham, dimethoate, and omethoate. The most suitable substrate is propanil, with K(m) and k(cat) values of 29.5 μM and 49.2 s(-1), respectively. The benzoylurea insecticides (diflubenzuron and hexaflumuron) are also hydrolyzed but at low efficiencies. No cofactor is needed for the hydrolysis activity. AmpA shares low identities with reported arylamidases (less than 23%), forms a distinct lineage from closely related arylamidases in the phylogenetic tree, and has different biochemical characteristics and catalytic kinetics with related arylamidases. The results in the present study suggest that AmpA is a good candidate for the study of the mechanism for amide pesticide hydrolysis, genetic engineering of amide herbicide-resistant crops, and bioremediation of amide pesticide-contaminated environments.
    Applied and Environmental Microbiology 04/2012; 78(14):4848-55. · 3.95 Impact Factor

Publication Stats

432 Citations
164.45 Total Impact Points

Institutions

  • 2004–2014
    • Nanjing Agricultural University
      • • College of Life Sciences
      • • Department of Microbiology
      Nan-ching, Jiangsu Sheng, China
  • 2012
    • Guangdong Institute of Eco-environmental and Soil Sciences
      Shengcheng, Guangdong, China
  • 2007
    • Northeast Institute of Geography and Agroecology
      • State Key Laboratory of Soil and Sustainable Agriculture
      Beijing, Beijing Shi, China