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Zongze Shao - One of the best experts on this subject based on the ideXlab platform.
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pseudooceanicola pacificus sp nov isolated from deep sea Sediment of the pacific ocean
International Journal of Systematic and Evolutionary Microbiology, 2020Co-Authors: Lina Lyu, Qiliang Lai, Zongze ShaoAbstract:A Gram-strain-negative, rod-shaped, aerobic bacterium, designated 216_PA32_1T, was isolated from Deep-Sea Sediment of the Pacific Ocean. Cells of strain 216_PA32_1T were non-motile, oxidase-positive and catalase-negative. The strain could grow at temperatures of 10-45 °C (optimum, 32-35 °C), at pH 5.0-10.0 (optimum, 6.0-7.0) and at salinities of 0-10% (optimum, 2-8%). The principal fatty acid (>10 %) was summed feature 8 (C18:1 ω6c/ω7c). The sole respiratory quinone was Q10 (100 %). The polar lipids included phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol, phosphatidylmonomethylethanolamine, two unidentified phospholipids and five unidentified aminolipids. The G+C content of the chromosomal DNA was 66.3 mol%. According to the 16S rRNA gene similarity, strain 216_PA32_1T showed the highest sequence similarity to Pseudooceanicola nitratireducens JLT 1210T (97.3 %), followed by Pseudooceanicola nanhaiensis SS011B1-20T (97.1 %). Phylogenetic trees indicated that strain 216_PA32_1T clustered with strain P. nanhaiensis SS011B1-20T. The average nucleotide identity and the DNA-DNA hybridization values between strain 216_PA32_1T and all species of the genus Pseudooceanicola were below 79.5 and 20.6%, respectively. A combination of the phylogenetic, phenotypic, chemotaxonomic and genomic evidence demonstrated that strain 216_PA32_1T represents a novel species of the genus Pseudooceanicola, for which the name Pseudooceanicola pacificus sp. nov. is proposed. The type strain is 216_PA32_1T (=MCCC 1A14128T=KCTC 72688T).
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celeribacter indicus sp nov a polycyclic aromatic hydrocarbon degrading bacterium from deep sea Sediment and reclassification of huaishuia halophila as celeribacter halophilus comb nov
International Journal of Systematic and Evolutionary Microbiology, 2014Co-Authors: Qiliang Lai, Zongze Shao, Junwei Cao, Jun YuanAbstract:A taxonomic study was carried out on strain P73T, which was isolated from Deep-Sea Sediment of the Indian Ocean by enrichment of polycyclic aromatic hydrocarbons. The strain was able to degrade biphenyl, naphthalene, 2-methylnaphthalene, 2,6-dimethylnaphthalene, acenaphthene, anthracene, phenanthrene, dibenzothiophene, dibenzofuran, fluorene, 4-methyldibenzothiophene and fluoranthene, but not pyrene or chrysene. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain P73T formed a clade with the genera Celeribacter and Huaishuia within the family Rhodobacteraceae , with highest sequence similarity of 96.98 % to Celeribacter neptunius H 14T, followed by Huaishuia halophila ZXM137T (96.42 %). The bacterium was Gram-stain-negative, oxidase- and catalase-positive, rod-shaped and non-motile. Growth was observed at salinities from 0.5 to 12 % and at temperatures from 10 to 41 °C. The principal fatty acids (>10 %) of strain P73T were summed feature 8 (C18 : 1ω7c/ω6c) and C19 : 0ω8c cyclo. The sole respiratory quinone was Q-10. The major lipids were phosphatidylglycerol, one unknown aminolipid, one unknown phospholipid and one unknown lipid; a second unknown phospholipid and one unknown glycolipid were present as minor components. The G+C content of the chromosomal DNA was 66.0 mol%. The combined genotypic and phenotypic data show that strain P73T represents a novel species of the genus Celeribacter , for which the name Celeribacter indicus sp. nov. is proposed. The type strain is P73T ( = MCCC 1A01112T = LMG 27600T = DSM 27257T). Phylogenetic study and existing phenotypic information also show that Huaishuia halophila should be transferred to the genus Celeribacter as Celeribacter halophilus comb. nov. (type strain ZXM137T = MCCC 1A06432T = CGMCC 1.8891T = LMG 24854T).
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draft genome sequence of marinomonas sp strain d104 a polycyclic aromatic hydrocarbon degrading bacterium from the deep sea Sediment of the arctic ocean
Genome Announcements, 2014Co-Authors: Chunming Dong, Xiuhua Bai, Qiliang Lai, Yanrong Xie, Xin Chen, Zongze ShaoAbstract:ABSTRACT Sphingobium sp. strain C100 was isolated from a polycyclic aromatic hydrocarbon (PAH)-degrading consortium from the Deep-Sea Sediment of the Arctic Ocean. It can degrade two- to four-ring PAHs at 25°C. Here we present the draft genome sequence of this strain, which is 4,776,810 bp with a G+C content of 63.9%.
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roseovarius pacificus sp nov isolated from deep sea Sediment
International Journal of Systematic and Evolutionary Microbiology, 2009Co-Authors: Baojiang Wang, Tianfeng Tan, Zongze ShaoAbstract:An aerobic, Gram-negative, ovoid to rod-shaped bacterial isolate, strain 81-2T, was isolated from Deep-Sea Sediment of the Western Pacific Ocean. Strain 81-2T was motile, formed faint pink colonies, and was catalase-positive, weakly positive for oxidase and required NaCl for growth. It did not synthesize bacteriochlorophyll a and its DNA G+C content was 62.3 mol%. The 16S rRNA gene sequence of strain 81-2T indicated that it was a member of the Roseobacter clade of the class Alphaproteobacteria, with moderate bootstrap support for inclusion in the genus Roseovarius. Its closest phylogenetic neighbour was the type strain of Roseovarius nubinhibens, which shared 95.8 % 16S rRNA gene sequence similarity; strain 81-2T was <95.0 % similar to strains of other related species and genera. Phenotypic, chemotaxonomic and phylogenetic data support assignment of this strain to the genus Roseovarius as a representative of a novel species. The name Roseovarius pacificus sp. nov. is proposed, with strain 81-2T (=MCCC 1A00293T=CGMCC 1.7083T=LMG 24575T) as the type strain.
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intracellular sequestration of manganese and phosphorus in a metal resistant fungus cladosporium cladosporioides from deep sea Sediment
Extremophiles, 2007Co-Authors: Zongze Shao, Fengqin SunAbstract:A heavy metal resistant fungus was isolated from the Sediment of Pacific Ocean, and identified to be Cladosporium cladosporioides. It grew normally in a medium containing 60 mM Mn2+ and could endure 1,200 mM as the highest concentration tested. Quantification analysis confirmed a high accumulation of Mn which was 58 mg/g in dried biomass. Under transmission electron microscope, many intracellular crystals were observed in the cytoplasm of the hypha cells grown in a Mn-rich medium, and varied from a few nanometers to 200 nm in length. Energy dispersive X-ray (EDX) analysis showed that the crystals were composed of manganese and phosphorus in atomic ratio of 1.6:1 (Mn/P). Further, factors which might influence the resistance of this fungus were investigated. As a result, its high resistance to Mn2+ was found dependent on the presence of Mg2+, and could be further enhanced by phosphate. However, the effect of phosphate was not observed without the presence of Mg2+. In addition, the resistance was also influenced by pH of the medium, which was lost above pH 8. This is the first report on a fungus which showed a hyper resistance to manganese by forming a large quantity of intracellular Mn/P crystals.
Bin-gui Wang - One of the best experts on this subject based on the ideXlab platform.
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Antimicrobial bisabolane-type sesquiterpenoids from the Deep-Sea Sediment-derived fungus Aspergillus versicolor SD-330.
Natural product research, 2019Co-Authors: Xiu-li Yin, Bin-gui WangAbstract:One new aromatic bisabolene-type sesquiterpenoid (1), along with four known analogues (2–5) were isolated and identified from the Deep-Sea Sediment-derived fungus Aspergillus versicolor SD-330. The...
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20-Nor-Isopimarane Epimers Produced by Aspergillus wentii SD-310, a Fungal Strain Obtained from Deep Sea Sediment
MDPI AG, 2018Co-Authors: Yang Liu, Bin-gui WangAbstract:Four new uncommon 20-nor-isopimarane diterpenoid epimers, aspewentins I−L (1⁻4), together with a new methylated derivative of 3, aspewentin M (5), were isolated from the deep sea Sediment-derived fungus Aspergillus wentii SD-310. The very similar structures of these epimers made the separation and purification procedures difficult. The structures of compounds 1⁻5 were illustrated based on spectroscopic analysis, and the absolute configurations of compounds 1⁻5 were unambiguously determined by the combination of NOESY, time-dependent density functional (TDDFT)-ECD calculations, and X-ray crystallographic analysis. These metabolites represented the rare examples of 20-nor-isopimarane analogues possessing a cyclohexa-2,5-dien-1-one moiety. These compounds were tested for antimicrobial activities against human and aquatic pathogenic bacteria, as well as plant-pathogenic fungi. While compounds 1 and 2 exhibited inhibitory activities against zoonotic pathogenic bacteria such as Escherichia coli, Edwardsiella tarda, Vibrio harveyi, and V. parahaemolyticus, compound 5 showed potent activity against the plant pathogen Fusarium graminearum
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prenylated indole alkaloid derivatives from marine Sediment derived fungus penicillium paneum sd 44
ChemInform, 2015Co-Authors: Bin-gui WangAbstract:Two new β-carbolines, penipalines A and B (I), and the new indole carbaldehyde derivative, penipaline C (II) are isolated along with two known indole derived analogs from the Deep-Sea-Sediment derived fungus Penicillium paneum SD-44 Compounds (Ib) and (II) exhibit potent cytotoxic activities against A-549 an HCT-116 cell lines.
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prenylated indole alkaloid derivatives from marine Sediment derived fungus penicillium paneum sd 44
Helvetica Chimica Acta, 2014Co-Authors: Bin-gui WangAbstract:Three new prenylated indole alkaloids, including two -carbolines, penipalines A and B (1 and 2, resp.), and one indole carbaldehyde derivative, penipaline C (3), as well as two known indole derived analogs, 4 and 5, were isolated from the Deep-Sea-Sediment derived fungus Penicillium paneum SD-44 cultured in a 500-l bioreactor. The structures of the new compounds were determined on the basis of 1D- and 2D-NMR spectroscopy, as well as by high-resolution mass spectrometry. The new compounds 2 and 3 showed potent cytotoxic activities against A-549 and HCT-116 cell lines.
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chemical profile of the secondary metabolites produced by a deep sea Sediment derived fungus penicillium commune sd 118
Chinese Journal of Oceanology and Limnology, 2012Co-Authors: Zhuo Shang, Shushan Gao, Li Meng, Caiguo Huang, Bin-gui WangAbstract:Bioassay-guided fractionation of the crude extract from Penicillium commune SD-118, a fungus obtained from a Deep-Sea Sediment sample, resulted in the isolation of a known antibacterial compound, xanthocillin X (1), and 14 other known compounds comprising three steroids (2–4), two ceramides (5 and 6), six aromatic compounds (7–12), and three alkaloids (13–15). Xanthocillin X (1) was isolated for the first time from a marine fungus. In the bioassay, xanthocillin X (1) displayed remarkable antimicrobial activity against Staphylococcus aureus and Escherichia coli, and significant cytotoxicity against MCF-7, HepG2, H460, Hela, Du145, and MDA-MB-231 cell lines. Meleagrin (15) exhibited cytotoxicity against HepG2, Hela, Du145, and MDA-MB-231 cell lines. This is the first report of the cytotoxicity of xanthocillin X (1).
Weimin Zhang - One of the best experts on this subject based on the ideXlab platform.
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cytotoxic polyketides from a deep sea Sediment derived fungus diaporthe phaseolorum fs431
Molecules, 2019Co-Authors: Zheng Niu, Yuchan Chen, Heng Guo, Hongxin Liu, Zhaoming Liu, Weimin ZhangAbstract:Two new chromone-derived polyketides phaseolorins, G and H (1 and 2), and one new anthraquinone derivative, phaseolorin I (3), together with three known compounds (4-6), were isolated from the Deep-Sea Sediment-derived fungus Diaporthe phaseolorum FS431. The structures of the new compounds were determined by comprehensive analysis of their spectroscopic data, and the absolute configuration of 1 was established by quantum chemical calculations of electron capture detection (ECD). All the isolated compounds (1-6) were tested for their in vitro cytotoxic activities against four human tumor cell lines, of which compound 4 exhibited significant effect against MCF-7, HepG-2, and A549 tumor cell lines with IC50 values of 2.60, 2.55, and 4.64 µM, respectively.
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A new butenolide derivative from the Deep-Sea fungus Aspergillus terreus SCSIO FZQ028
2019Co-Authors: Qi Zeng, Xinpeng Tian, Yuchan Chen, Weimin Zhang, Si Zhang, Wei-mao Zhong, Yao Xiang, Xia-yu Chen, Fazuo WangAbstract:A new butenolide derivative (±)-asperteretal F (1) and related congener (2) recently reported containing an unusual 2-benzyl-3-phenyl substituted lactone core, together with five known compounds (3–7) were isolated and characterized from the fungus Aspergillus terreus. SCSIO FZQ028 derived from a Deep-Sea Sediment of South China Sea. Their chemical structures were established on the basis of 1D- and 2D-NMR spectroscopic data, and HR-ESI-MS analysis. Additionally, all the compounds were evaluated for the antioxidative activities against DPPH, cytotoxic activities against two tumor cell lines (SF-268 and HepG-2), and antimicrobial activities. Compounds 2-4, and 7 showed significant activities against DPPH with IC50 ranging from 5.89 to 10.07 μg/mL. Compounds 2 and 4 showed moderate antimicrobial activities against all four tested bacteria.
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dichotocejpins a c new diketopiperazines from a deep sea derived fungus dichotomomyces cejpii fs110
Marine Drugs, 2016Co-Authors: Zhen Fan, Yuchan Chen, Hongxin Liu, Zhanghua Sun, Zhong Liu, Weimin ZhangAbstract:Three new diketopiperazines, dichotocejpins A–C (1–3), together with eight known analogues (4–11), were isolated from the culture of the Deep-Sea Sediment derived fungus Dichotomomyces cejpii FS110. Their structures, including absolute configurations, were elucidated by a combination of HRESIMS, NMR, X-ray crystallography, and ECD calculations. Compounds 4–6, 10–11 showed significant cytotoxic activities against MCF-7, NCI-H460, HepG-2, and SF-268 tumor cell lines. Compound 1 exhibited excellent inhibitory activity against α-glucosidase with an IC50 of 138 μM.
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cytotoxic indole diketopiperazines from the deep sea derived fungus acrostalagmus luteoalbus scsio f457
Bioorganic & Medicinal Chemistry Letters, 2012Co-Authors: Fazuo Wang, Xinpeng Tian, Yuchan Chen, Weimin Zhang, Zhi Huang, Xuefeng Shi, Si ZhangAbstract:Two new indole diketopiperazines, namely luteoalbusins A-B (1-2), along with eight known ones (3-10), were isolated from the fungus Acrostalagmus luteoalbus SCSIO F457 originated from Deep-Sea Sediment. Their structures were determined by 1D/2D NMR, MS, and CD data analyses. Each of these compounds was evaluated for their cytotoxic activities against SF-268, MCF-7, NCI-H460, and HepG-2 cell lines, and compounds 1-5 showed significant cytotoxicties against all four cancer cell lines. Moreover, new compounds 1 and 2 had more potent cytotoxicity than the other ones and cisplatin. (C) 2012 Published by Elsevier Ltd.
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pseudonocardians a c new diazaanthraquinone derivatives from a deap sea actinomycete pseudonocardia sp scsio 01299
Marine Drugs, 2011Co-Authors: Xinpeng Tian, Wenjun Zhang, Yuchan Chen, Weimin Zhang, Siwen Niu, Si Zhang, Haibo Zhang, Xianwen Yang, Changsheng ZhangAbstract:Pseudonocardians A–C (2–4), three new diazaanthraquinone derivatives, along with a previously synthesized compound deoxynyboquinone (1), were produced by the strain SCSIO 01299, a marine actinomycete member of the genus Pseudonocardia, isolated from Deep-Sea Sediment of the South China Sea. The structures of compounds 1–4 were determined by mass spectrometry and NMR experiments (1H, 13C, HSQC, and HMBC). The structure of compound 1, which was obtained for the first time from a natural source, was confirmed by X-ray analysis. Compounds 1–3 exhibited potent cytotoxic activities against three tumor cell lines of SF-268, MCF-7 and NCI-H460 with IC50 values between 0.01 and 0.21 μm, and also showed antibacterial activities on Staphylococcus aureus ATCC 29213, Enterococcus faecalis ATCC 29212 and Bacillus thuringensis SCSIO BT01, with MIC values of 1–4 μg mL−1.
Yu Zhong Zhang - One of the best experts on this subject based on the ideXlab platform.
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elastolytic mechanism of a novel m23 metalloprotease pseudoalterin from deep sea pseudoalteromonas sp cf6 2 cleaving not only glycyl bonds in the hydrophobic regions but also peptide bonds in the hydrophilic regions involved in cross linking
Journal of Biological Chemistry, 2012Co-Authors: Huilin Zhao, Xiu-lan Chen, Bai-cheng Zhou, Xi-ying Zhang, Bin-bin Xie, Mingyang Zhou, Xiang Gao, Anthony S Weiss, Yu Zhong ZhangAbstract:Elastin is a common insoluble protein that is abundant in marine vertebrates, and for this reason its degradation is important for the recycling of marine nitrogen. It is still unclear how marine elastin is degraded because of the limited study of marine elastases. Here, a novel protease belonging to the M23A subfamily, secreted by Pseudoalteromonas sp. CF6-2 from Deep-Sea Sediment, was purified and characterized, and its elastolytic mechanism was studied. This protease, named pseudoalterin, has low identities (<40%) to the known M23 proteases. Pseudoalterin has a narrow specificity but high activity toward elastin. Analysis of the cleavage sites of pseudoalterin on elastin showed that pseudoalterin cleaves the glycyl bonds in hydrophobic regions and the peptide bonds Ala-Ala, Ala-Lys, and Lys-Ala involved in cross-linking. Two peptic derivatives of desmosine, desmosine-Ala-Ala and desmosine-Ala-Ala-Ala, were detected in the elastin hydrolysate, indicating that pseudoalterin can dissociate cross-linked elastin. These results reveal a new elastolytic mechanism of the M23 protease pseudoalterin, which is different from the reported mechanism where the M23 proteases only cleave glycyl bonds in elastin. Genome analysis suggests that M23 proteases may be popular in Deep-Sea Sediments, implying their important role in elastin degradation. An elastin degradation model of pseudoalterin was proposed, based on these results and scanning electron microscopic analysis of the degradation by pseudoalterin of bovine elastin and cross-linked recombinant tropoelastin. Our results shed light on the mechanism of elastin degradation in Deep-Sea Sediment.
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comparative genomics reveals a deep sea Sediment adapted life style of pseudoalteromonas sp sm9913
The ISME Journal, 2011Co-Authors: Qi-long Qin, Xiu-lan Chen, Bai-cheng Zhou, Xi-ying Zhang, Yanjiao Zhang, Zhemin Zhou, Weixin Zhang, Lei Wang, Yu Zhong ZhangAbstract:Deep-Sea Sediment is one of the most important microbial-driven ecosystems, yet it is not well characterized. Genome sequence analyses of Deep-Sea Sedimentary bacteria would shed light on the understanding of this ecosystem. In this study, the complete genome of Deep-Sea Sedimentary bacterium Pseudoalteromonas sp. SM9913 (SM9913) is described and compared with that of the closely related Antarctic surface sea-water ecotype Pseudoalteromonas haloplanktis TAC125 (TAC125). SM9913 has fewer dioxygenase genes than TAC125, indicating a possible sensitivity to reactive oxygen species. Accordingly, experimental results showed that SM9913 was less tolerant of H2O2 than TAC125. SM9913 has gene clusters related to both polar and lateral flagella biosynthesis. Lateral flagella, which are usually present in Deep-Sea bacteria and absent in the related surface bacteria, are important for the survival of SM9913 in Deep-Sea environments. With these two flagellar systems, SM9913 can swim in sea water and swarm on the Sediment particle surface, favoring the acquisition of nutrients from particulate organic matter and reflecting the particle-associated alternative lifestyle of SM9913 in the deep sea. A total of 12 genomic islands were identified in the genome of SM9913 that may confer specific features unique to SM9913 and absent from TAC125, such as drug and heavy metal resistance. Many signal transduction genes and a glycogen production operon were also present in the SM9913 genome, which may help SM9913 respond to food pulses and store carbon and energy in a Deep-Sea environment.
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the complete genome of zunongwangia profunda sm a87 reveals its adaptation to the deep sea environment and ecological role in Sedimentary organic nitrogen degradation
BMC Genomics, 2010Co-Authors: Qi-long Qin, Xiu-lan Chen, Hongyue Dang, Bai-cheng Zhou, Xi-ying Zhang, Bin-bin Xie, Xumin Wang, Guiming Liu, Yu Zhong ZhangAbstract:Background Zunongwangia profunda SM-A87, which was isolated from Deep-Sea Sediment, is an aerobic, gram-negative bacterium that represents a new genus of Flavobacteriaceae. This is the first sequenced genome of a Deep-Sea bacterium from the phylum Bacteroidetes.
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myroides profundi sp nov isolated from deep sea Sediment of the southern okinawa trough
Fems Microbiology Letters, 2008Co-Authors: Xi-ying Zhang, Xiu-lan Chen, Dianli Zhao, Hongyue Dang, Qi-long Qin, Yanjiao Zhang, Yu Zhong ZhangAbstract:A Gram-negative, nonmotile, aerobic and oxidase- and catalase-positive bacterium,, designated D25(T), was isolated from the Deep-Sea Sediments of the southern Okinawa Trough area. Phylogenetic analyses of 16S rRNA gene sequences showed that strain D25(T), fell within the genus Myroides, with 99.2%, 96.0% and 93.4% sequence similarities to the only three recognized species of Myroides. However, the DNA-DNA similarity Value between strain D25(T) and its nearest neighbour Myroides odoratimimus JCM 7460(T) was only 49.9% ( < 70%). Several phenotypic properties could be used to distinguish strain D25(T) from other Myroides species. The main cellular fatty acids of strain D25(T) were iso-C-15:0, iso-C-17:1 omega 9C, iso-C(17:0)3-OH and Summed Feature 3 (comprising C-16:1 omega 7c and/or iso-C(15:0)2-OH). The major respiratory quinone was MK-6. The DNA G+C content was 33.0 mol%. The results of the polyphasic taxonomy analysis suggested that strain D251(T) represents a novel species of the genus Myroides, for which the name Myroides profundi sp. nov. is proposed. The type strain is D25(T) (=CCTCC M 208030(T) = DSM 19823(T)).
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wangia profunda gen nov sp nov a novel marine bacterium of the family flavobacteriaceae isolated from southern okinawa trough deep sea Sediment
Fems Microbiology Letters, 2007Co-Authors: Dianli Zhao, Xiu-lan Chen, Tiegang Li, Hongyue Dang, Jing Wang, Yu Zhong ZhangAbstract:An orange-pigmented, Gram-negative, nonmotile, strictly aerobic and oxidase- and catalase-positive bacterium (SM-A87(T)) was isolated from the Deep-Sea Sediment of the southern Okinawa Trough area. The main fatty acids were i15 : 0, i17 : 0 3OH, i15 : 1 G, i17 : 1 omega 9c, 15 : 0, i15 : 0 3OH and summed feature 3 (comprising i-15 : 0 2OH and/or 16 : 1 omega 7c). MK-6 was the predominant respiratory quinone. DNA G+C content was 35.8 mol%. Flexirubin-type pigments were absent. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain SM-A87(T) formed a distinct lineage within the family Flavobacteriaceae, with < 93% sequence similarity to the nearest strain of genus Salegentibacter. Moreover, strain SM-A87(T) could be distinguished from the nearest phylogenetic neighbors by a number of chemotaxonomic and phenotypic properties. On the basis of polyphasic analyses, it is proposed that strain SM-A87(T) be classified in a novel genus and a new species in the family Flavobacteriaceae, designated Wangia profunda gen. nov., sp. nov. The type strain is SM-A87(T) (CCTCC AB 206139(T)=DSM 18752).
Xiu-lan Chen - One of the best experts on this subject based on the ideXlab platform.
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SEE PROFILE
2016Co-Authors: Xi-ying Zhang, Xiu-lan Chen, See Profile, Zheng ChengAbstract:of six of these strains, which are affiliated to different Pseudoalteromonas species based on 16S rRNA gene sequences, facilitating the study of physiology and adaptation of Arctic sea ice Pseudoalteromonas strains. Bacteria from the genus Pseudoalteromonas (Gammaproteobac-teria, Alteromonadales, Alteromonadaceae) are found in vari-ous habitats in global oceans, including seawater (see, e.g., refer-ences 1 and 5), Sediment (6, 11), and sea ice (3), ranging from the Antarctic (3, 4) to the Arctic (2). Currently, there are 38 recog-nized species in this genus. Complete genome sequences of three strains, Antarctic seawater strain Pseudoalteromonas haloplanktis TAC125 (9), Deep-Sea Sediment strain Pseudoalteromonas sp. SM9913 (12), and strain P. atlantica T6
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development of a genetic system for the deep sea psychrophilic bacterium pseudoalteromonas sp sm9913
Microbial Cell Factories, 2014Co-Authors: Dianli Zhao, Mei Shi, Bai-cheng Zhou, Xi-ying Zhang, Bin-bin Xie, Qi-long Qin, Liyuan Ran, Xiuhua Pang, Xiaoyan Song, Xiu-lan ChenAbstract:Background Pseudoalteromonas species are a group of marine gammaproteobacteria frequently found in Deep-Sea Sediments, which may play important roles in Deep-Sea Sediment ecosystem. Although genome sequence analysis of Pseudoalteromonas has revealed some specific features associated with adaptation to the extreme Deep-Sea environment, it is still difficult to study how Pseudoalteromonas adapt to the Deep-Sea environment due to the lack of a genetic manipulation system. The aim of this study is to develop a genetic system in the Deep-Sea Sedimentary bacterium Pseudoalteromonas sp. SM9913, making it possible to perform gene mutation by homologous recombination.
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elastolytic mechanism of a novel m23 metalloprotease pseudoalterin from deep sea pseudoalteromonas sp cf6 2 cleaving not only glycyl bonds in the hydrophobic regions but also peptide bonds in the hydrophilic regions involved in cross linking
Journal of Biological Chemistry, 2012Co-Authors: Huilin Zhao, Xiu-lan Chen, Bai-cheng Zhou, Xi-ying Zhang, Bin-bin Xie, Mingyang Zhou, Xiang Gao, Anthony S Weiss, Yu Zhong ZhangAbstract:Elastin is a common insoluble protein that is abundant in marine vertebrates, and for this reason its degradation is important for the recycling of marine nitrogen. It is still unclear how marine elastin is degraded because of the limited study of marine elastases. Here, a novel protease belonging to the M23A subfamily, secreted by Pseudoalteromonas sp. CF6-2 from Deep-Sea Sediment, was purified and characterized, and its elastolytic mechanism was studied. This protease, named pseudoalterin, has low identities (<40%) to the known M23 proteases. Pseudoalterin has a narrow specificity but high activity toward elastin. Analysis of the cleavage sites of pseudoalterin on elastin showed that pseudoalterin cleaves the glycyl bonds in hydrophobic regions and the peptide bonds Ala-Ala, Ala-Lys, and Lys-Ala involved in cross-linking. Two peptic derivatives of desmosine, desmosine-Ala-Ala and desmosine-Ala-Ala-Ala, were detected in the elastin hydrolysate, indicating that pseudoalterin can dissociate cross-linked elastin. These results reveal a new elastolytic mechanism of the M23 protease pseudoalterin, which is different from the reported mechanism where the M23 proteases only cleave glycyl bonds in elastin. Genome analysis suggests that M23 proteases may be popular in Deep-Sea Sediments, implying their important role in elastin degradation. An elastin degradation model of pseudoalterin was proposed, based on these results and scanning electron microscopic analysis of the degradation by pseudoalterin of bovine elastin and cross-linked recombinant tropoelastin. Our results shed light on the mechanism of elastin degradation in Deep-Sea Sediment.
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comparative genomics reveals a deep sea Sediment adapted life style of pseudoalteromonas sp sm9913
The ISME Journal, 2011Co-Authors: Qi-long Qin, Xiu-lan Chen, Bai-cheng Zhou, Xi-ying Zhang, Yanjiao Zhang, Zhemin Zhou, Weixin Zhang, Lei Wang, Yu Zhong ZhangAbstract:Deep-Sea Sediment is one of the most important microbial-driven ecosystems, yet it is not well characterized. Genome sequence analyses of Deep-Sea Sedimentary bacteria would shed light on the understanding of this ecosystem. In this study, the complete genome of Deep-Sea Sedimentary bacterium Pseudoalteromonas sp. SM9913 (SM9913) is described and compared with that of the closely related Antarctic surface sea-water ecotype Pseudoalteromonas haloplanktis TAC125 (TAC125). SM9913 has fewer dioxygenase genes than TAC125, indicating a possible sensitivity to reactive oxygen species. Accordingly, experimental results showed that SM9913 was less tolerant of H2O2 than TAC125. SM9913 has gene clusters related to both polar and lateral flagella biosynthesis. Lateral flagella, which are usually present in Deep-Sea bacteria and absent in the related surface bacteria, are important for the survival of SM9913 in Deep-Sea environments. With these two flagellar systems, SM9913 can swim in sea water and swarm on the Sediment particle surface, favoring the acquisition of nutrients from particulate organic matter and reflecting the particle-associated alternative lifestyle of SM9913 in the deep sea. A total of 12 genomic islands were identified in the genome of SM9913 that may confer specific features unique to SM9913 and absent from TAC125, such as drug and heavy metal resistance. Many signal transduction genes and a glycogen production operon were also present in the SM9913 genome, which may help SM9913 respond to food pulses and store carbon and energy in a Deep-Sea environment.
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the complete genome of zunongwangia profunda sm a87 reveals its adaptation to the deep sea environment and ecological role in Sedimentary organic nitrogen degradation
BMC Genomics, 2010Co-Authors: Qi-long Qin, Xiu-lan Chen, Hongyue Dang, Bai-cheng Zhou, Xi-ying Zhang, Bin-bin Xie, Xumin Wang, Guiming Liu, Yu Zhong ZhangAbstract:Background Zunongwangia profunda SM-A87, which was isolated from Deep-Sea Sediment, is an aerobic, gram-negative bacterium that represents a new genus of Flavobacteriaceae. This is the first sequenced genome of a Deep-Sea bacterium from the phylum Bacteroidetes.
