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Simultaneous nitrification and denitrification conducted by Halomonas venusta MA-ZP17-13 under low temperature conditions

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Acta Oceanologica Sinica 2021年第9期40卷 94-104页

作者： Guizhen Li Qiliang Lai Guangshan Wei Peisheng Yan Zongze Shao School of Environment Harbin Institute of TechnologyHarbin 150090China Key Laboratory of Marine Genetic Resources Third Institute of OceanographyMinistry of Natural ResourcesXiamen 361005China State Key Laboratory Breeding Base of Marine Genetic Resources Xiamen 361005China Fujian Key Laboratory of Marine Genetic Resources Xiamen 361005China Sourthem Marine Science and Engineering Guangdong Laboratory(Zhuhai) Zhuhai 519080China

Nitrification is a key step in the global nitrogen cycle.Compared with autotrophic nitrification,heterotrophic nitrification remains poorly understood.In this study,Halomonas venusta MA-ZP17-13,isolated from seawater in shrimp aquaculture (Penaeus vannamei),could simultaneously undertake nitrification and denitrification.With the initial ammonium concentration at 100 mg/L,the maximum ammonium-nitrogen removal rate reached98.7%under the optimal conditions including C/N concentration ratio at 5.95,p H at 8.93,and Na Cl at 2.33%.The corresponding average removal rate was 1.37 mg/(L·h)(according to nitrogen) in 3 d at 11.2℃.By whole genome sequencing and analysis,nitrification-and denitrification-related genes were identified,including ammonia monooxygenase,nitrate reductase,nitrite reductase,nitric oxide dioxygenase and nitric oxide synthase;while no gene encoding hydroxylamine oxidase was identified,it implied the existence of a novel nitrification pathway from hydroxylamine to nitrate.These results indicate heterotrophic bacterium H.venusta MA-ZP17-13 can undertake simultaneous nitrification and denitrification at low temperature and has potential for NH_(4)^(+)-N/NH_(3)-N removal in marine aquaculture systems.

关键词： Halomonas heterotrophic nitrification denitrification ammonia oxidization ammonia removal

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Microorganisms from deep-sea hydrothermal vents

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Marine Life Science & Technology 2021年第2期3卷 204-230页

作者： Xiang Zeng Karine Alain Zongze Shao Key Laboratory of Marine Biogenetic Resources Third Institute of OceanographyMinistry of Natural ResourcesXiamen361005China Laboratoire de Microbiologie des Environnements Extrêmes LM2E UMR6197 Univ BrestCNRSIFREMERF-29280PlouzanéFrance LIA/IRP 1211 MicrobSea Sino-French International Laboratory of Deep-Sea Microbiology29280PlouzanéFrance

With a rich variety of chemical energy sources and steep physical and chemical gradients,hydrothermal vent systems offer a range of habitats to support microbial life.Cultivation-dependent and independent studies have led to an emerging view that diverse microorganisms in deep-sea hydrothermal vents live their chemolithoautotrophic,heterotrophic,or mixotrophic life with versatile metabolic strategies.Biogeochemical processes are mediated by microorganisms,and notably,processes involving or coupling the carbon,sulfur,hydrogen,nitrogen,and metal cycles in these unique ecosystems.Here,we review the taxonomic and physiological diversity of microbial prokaryotic life from cosmopolitan to endemic taxa and emphasize their significant roles in the biogeochemical processes in deep-sea hydrothermal vents.According to the physiology of the targeted taxa and their needs inferred from meta-omics data,the media for selective cultivation can be designed with a wide range of physicochemical conditions such as temperature,pH,hydrostatic pressure,electron donors and acceptors,carbon sources,nitrogen sources,and growth factors.The application of novel cultivation techniques with real-time monitoring of microbial diversity and metabolic substrates and products are also recommended.

关键词： Deep-sea hydrothermal vents Cultivation Diversity Biogeochemical cycle

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深海热液区化能自养微生物多样性、代谢特征与环境作用

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科学通报 2018年第36期63卷 3902-3910页

作者：邵宗泽自然资源部第三海洋研究所海洋生物遗传资源重点实验室厦门361005

热液生态系统是如何形成的?深海热液活动在地球生命起源与演化中贡献是什么?作为深海热液生态系统初级生产者,化能自养微生物在热液区从无机到有机的物质能量转化、元素生物化学循环、热液生命起源演化、热液共生体与生态系统形成发挥... 详细信息

热液生态系统是如何形成的?深海热液活动在地球生命起源与演化中贡献是什么?作为深海热液生态系统初级生产者,化能自养微生物在热液区从无机到有机的物质能量转化、元素生物化学循环、热液生命起源演化、热液共生体与生态系统形成发挥着重要作用.深海热液生态系统的能量来源主要是地幔岩浆房水岩反应所产生的还原性物质,包括氢气、硫化氢、甲烷以及还原性金属离子等.化能自养微生物广泛分布于羽流、烟囱壁及热液沉积物等各种热液区生境,通过氧化热液中所携带的还原性物质获得能量、固定二氧化碳,形成热液生态系统初级生产力.通过长期的生物与非生物过程的交互作用,演化形成独特的深海暗能量生态系统.热液微生物的多样性分布特征与影响因素、热液区极端环境适应性机制与环境作用,以及热液生物共生机制等仍是目前重要研究内容,相关研究将有助于认识深海暗能量生态系统的形成机制以及深部生命过程.

关键词：深海热液区热液生态系统化能自养微生物共生菌与共生机制

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The Long-chain Alkane Metabolism Network of Alcanivorax dieselolei

The Long-chain Alkane Metabolism Network of Alcanivorax dies...

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2015中国遗传学会大会

作者： Wanpeng Wang Zongze Shao State Key Laboratory Breeding Base of Marine Genetic Resources Key Laboratory of Marine Genetic Resources Third Institute of Oceanography Key Laboratory of Marine Genetic Resources of Fujian Province

Alkane-degrading bacteria are ubiquitous in marine environments,but little is known about how alkane degradation is regulated.Here we investigate alkane sensing,chemotaxis,signal transduction,uptake and pathwayregulation inAlcanivorax dieselolei.The outer membrane protein OmpS detects the presence of alkanes and triggers expression of an alkane chemotaxis complex.The coupling protein CheW2 of chemotaxis complex,induced only by long-chain alkanes,sends signals to trigger the expression of Cyo,which participates in modulating the expression of negative regulator protein AltaR.This in turn leads to expression of ompT1andalmAthatdrive selective uptake and hydroxylation of long-chain alkanes,respectively.Additionalfactors responsible for the metabolism ofmedinm-chain-length alkanes are also identified,including CheW1,OmpT1 and OmpT2.These resultsprovide us new insights into the alkane metabolism pathways from alkane sensing to degradation.

关键词： Alcanivorax Alkane Alkane Metabolism Network

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Mineralogical characteristics of polymetallic sulfides from the Deyin-1 hydrothermal field near 15°S, southern Mid-Atlantic Ridge

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Acta Oceanologica Sinica 2017年第2期36卷 22-34页

作者： WANG Shujie LI Huaiming ZHAI Shikui YU Zenghui shao zongze CAI Zongwei Key Laboratory of Submarine Geosciences and Prospecting Techniques of Ministry of Education College of Marine Geosciences Ocean University of China Key Laboratory of Submarine Geosciences Second Institute of OceanographyState Oceanic Administration Key Laboratory of Marine Biogenetic Resources Third Institute of OceanographyState Oceanic Administration

A seafloor hydrothermal field, named Deyin-1 later, near 15°S southern Mid-Atlantic Ridge（SMAR） was newly found during the 22 nd cruise carried out by the China Ocean Mineral Resources Research ＆ Development Association（COMRA）. Sulfide samples were collected at three stations from the hydrothermal field during the26 th cruise in 2012. In this paper, mineralogical characteristics of the sulfides were analyzed with optical microscope, X-ray diffractometer, scanning electron microscope and electron microprobe to study the crystallization sequence of minerals and the process of hydrothermal mineralization. According to the difference of the ore-forming metal elements, the sulfide samples can be divided into three types：（1） the Ferich sulfide, which contains mainly pyrite and chalcopyrite;（2） the Fe-Cu-rich sulfide consisting predominantly of pyrite, chalcopyrite and isocubanite, with lesser amount of sphalerite, marmatite and pyrrhotine; and（3） the Fe-Zn-rich sulfide dominated by pyrite, sphalerite and marmatite, with variable amounts of chalcopyrite, isocubanite, pyrrhotine, marcasite, galena and gratonite. Mineral precipitations in these sulfides are in the sequence of chalcopyrite（isocubanite and possible coarse pyrite）, fine pyrite,sphalerite（marmatite）, galena, gratonite and then the minerals out of the dissolution. Two morphologically distinct generations（Py-I and Py-II） of pyrite are identified in each of the samples; inclusions of marmatite tend to exist in the coarse pyrite crystals（Py-I）. Sphalerite in the Fe-Zn-rich sulfide is characterized by a＂chalcopyrite disease＂ phenomenon. Mineral paragenetic relationships and a wide range of chemical compositions suggest that the environment of hydrothermal mineralization was largely changing. By comparison, the Fe-rich sulfide was formed in a relatively stable environment with a high temperature, but the conditions for the formation of the Fe-Cu-rich sulfide were variable. The Fe-Zn-rich sulfide was precipitated during the hydrothermal venting at relatively low tem

关键词： mineralogical characteristics mineral-forming sequence polymetallic sulfides Deyin-1 hydrothermal field southern Mid-Atlantic Ridge

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Bacillus xiamenensis sp.nov.,isolated from intestinal tract contents of a flathead mullet(Mugil cephalus)

Bacillus xiamenensis sp.nov.,isolated from intestinal tract ...

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第五届全国微生物资源学术暨国家微生物资源平台运行服务研...

作者： Qiliang Lai Yang Liu Zongze Shao State Key Laboratory Breeding Base of Marine Genetic Resources

A taxonomic study was carried out on strain HYC-10,which was isolated from the intestinal tract contents of a flathead mullet,Mugil cephalus,captured from the sea off Xiamen Island,China.The bacterium was observed to be Gram positive,oxidase and catalase positive,rod shaped,and motile by subpolar flagella.The bacterium was found to grow at salinities of 0-12%and at temperatures of 8-45℃. The isolate was found to hydrolyze aesculin and gelatin,but was unable to reduce nitrate to nitrite. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain HYC-10 belongs to the genus Bacillus,with highest sequence similarity(99.3%) to Bacillus aerophilus 28K,Bacillus stratosphericus 41KF2a,and Bacillus altitudinis DSM 21631,followed by Bacillus safensis DSM 19292 (99.5%) and Bacillus pumilus DSM 27(99.5%),while the sequence similarities to others were all below 97.6%.The genomic ANIm values between strain HYC-10 and three type strains {B.altitudinis DSM 21631,B.safensis DSM 19292 and B.pumilus DSM 27) were determined to range from 89.11%to 91.53%.The DNA-DNA hybridization estimate values between strain HYC-10 and the three type strains were from 36.60%to 44.00%.The principal fatty acids identified were iso-Cis:o(39.1%),anteiso-C]5:o (22.7%),iso-C(13.1%),C(6.1%),anteiso-C(5.8%) and iso-C(5.1%).The G+C content of the chromosomal DNA was determined from the draft genome sequence to be 41.3mol%.The respiratory quinone was determined to be MK-7(100%).Phosphatidylglycerol,diphosphatidylglycerol, aminoglycolipid,two glycolipids and two unknown phospholipids were found to be present.The combined genotypic and phenotypic data show that strain HYC-10 represents a novel species of the genus Bacillus, for which the name Bacillus xiamenensis sp.***.is proposed,with the type strain HYC-10(=CGMCC NO.1.12326 = LMG 27143=MCCC 1A00008).

关键词： Bacillus xiamenensis sp.nov. Taxonomy Mugil cephalus ANI DDH

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Genomic and metabolic analysis of fluoranthene degradation pathway in Celeribacter indicus P73T

Genomic and metabolic analysis of fluoranthene degradation p...

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福建省海洋学会2016年学术年会

作者： Junwei Cao Qiliang Lai Jun Yuan Zongze Shao State Key Laboratory Breeding Base of Marine Genetic Resources Key Laboratory of Marine Genetic Resources The Third Institute of State Oceanic Administration

Celeribacter indicus P73,isolated from deep-sea sediment from the Indian Ocean,is capable of degrading a wide range of polycyclic aromatic hydrocarbons(PAHs) and is the first fluoranthene-degrading bacterium within the family Rhodobacteraceae.Here,the complete genome sequence of strain P73 is presented and analyzed.Besides a 4.5-Mb circular chromosome,strain P73 carries five plasmids,and encodes 4827 predicted protein-coding sequences.One hundred and thirty-eight genes,including 14 dioxygenase genes,were predicted to be involved in the degradation of aromatic compounds,and most of these genes are clustered in four regions.P730346 is the first fluoranthene 7,8-dioxygenase to be discovered and the first fluoranthene dioxygenase within the toluene/biphenyl family.The degradative genes in regions B and D in P73 are absent in Celeribacter baekdonensis B30,which cannot degrade PAHs.Four intermediate metabolites[acenaphthylene-l(2H)-one,acenaphthenequinone,1,2-dihydroxyacenaphthylene,and 1,8-naphthalic anhydride]of fluoranthene degradation by strain P73 were detected as the main intermediates,indicating that the degradation of fluoranthene in P73 was initiated by dioxygenation at the C-7,8 positions.Based on the genomic and metabolitic results,we propose a C-7,8 dioxygenation pathway in which fluoranthene is mineralized to TCA cycle intermediates.

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Pseudopedobacter beijingensis gen. nov. sp. nov., isolated from coking wastewater activated sludge, and reclassification of Pedobacter saltans as Pseudopedobacter saltans com. nov.

Pseudopedobacter beijingensis gen. nov. sp. nov., isolated f...

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福建省海洋学会2014年学术年会暨福建省科协第十四届学...

作者： Junwei Cao Qiliang Lai Guizhen Li Zongze Shao School of Municipal and Environmental Engineering Harbin Institute of Technology State Key Laboratory Breeding Base of Marine Genetic Resources

A taxonomic study was carried out on strain GCS-AE-31 T, which was isolated from a phenol-degrading consortium, enriched from coking wastewater activated sludge of Beijing Shougang Company Limited during the screening of phenol-degrading bacteria. Cells of strain GCS-AE-31 T were Gram-negative, short rods, gliding motile, oxidase-/catalase-positive. Growth was observed at salinities from 0 to 3 % and at temperatures from 10 to 37 °C. On the basis of 16 S rR NA gene sequence similarity, strain GCS-AE-31 T was most closely to Pedobacter saltans LMG 10337T(96.17 %), but it showed low similarity to all other species of genus Pedobacter(89.28-92.45 %). It also showed low 16 S rR NA similarity to all other species of the family Sphingobacteriaceae(87.25-92.45 %). The dominant fatty acids were iso-C15:0(34.5 %), Sum In Feature 3(C16:1ω7c/C16:1ω6c, 18.6 %), anteiso-C15:0(7.1 %) and iso-C17:0 3-OH(6.4 %). The menaquinones were MK-7(95.5 %) and MK-6(4.5 %). The polar lipids were phosphatidylethanolamine, three aminolipids and three unknown phospholipids. Sphingolipid was present. The G+C content of the chromosomal DNA was 36.2 mol%. According to its phylogenetic position and phenotypic traits, the novel strain could not be assigned to the genus Pedobacter, it should be classified as a novel species of a new genus in the family Sphingobacteriaceae, for which the name Pseudopedobacter beijingensis gen. nov., sp. nov. is proposed(type strain GCS-AE-31 T =MCCC 1A01299 T = CGMCC NO 1.12329 T = LMG 27180T). The misclassified species Pedobacter saltans is transferred to the new genus as Pseudopedobacter saltans com. nov.(type strain LMG 10337 T = MCCC 1A06472 T = DSM 12145 T = CCUG 39354 T = CIP 105500 T = JCM 21818 T = NBRC 100064T).

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Metabolism of Fluoranthene by a Novel Marine Species,Celeribacter indica sp.nov.,and Reclassification of Huaishuia halophila as Celeribacter halophila comb.nov.

Metabolism of Fluoranthene by a Novel Marine Species,Celerib...

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第五届全国微生物资源学术暨国家微生物资源平台运行服务研...

作者： Qiliang Lai Jun Yuan Junwei Cao Zongze Shao State Key Laboratory Breeding Base of Marine Genetic Resources

A taxonomic study was carried out on strain P73,which was isolated from deep-sea sediment of the Indian Ocean by enrichment of PAHs.It can degrade biphenyl,naphthalene,2-methylnaphthalene, 2,6-dimethylnaphthalene,acenaphthene,anthracene,phenanthrene,dibenzothiophene,dibenzofuran, fluorene,4-methyldibenzothiophene and fluoranthene,but not pyrene or chrysene.The intermediate metabolites of fluoranthene degradation were examined with GC-MS.Acenaphthylene-1(2H)-one, acenaphthenequinone,1,2-dihydroxyacenaphthylene and 1,8-naphthalic anhydride were detected as the main intermediates,indicating that the degradation of fluoranthene was initiated by dioxygenation at the C-7,8 positions.Phylogenetic analysis based on 16S rRNA gene sequences showed that strain P73 formed a clade with the genus Celeribacter and Huaishuia within the family Rhodobacteraceae,with highest sequence similarity of 96.98%to Celeribacter neptunius H14,followed by Huaishuia halophile ZXM137 (96.42%).The bacterium was Gram-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 of strain P73 were Sum In Feature 8(Cω7c/ω6c)(58.6%),Cω8c cyclo(17.4%) and C (7.9%).The respiratory quinone was Q-10(100%).The lipids were phosphatidylglycerol(PG),aminolipid (AL),two phospholipids(PL),glycolipid(GL) and one unknown lipid(L).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 indica sp.***.is proposed,with the type strain P73(=LMG 27600 = DSM 27257= MCCC 1A01112).Phylogenetic study and existing phenotypic information also show that Huaishuia halophila should be transferred to the genus Celeribacter as Celeribacter halophila comb.nov.(type strain ZXM137 =CGMCC 1.8891T = LMG 24854).To our knowledge,this is the first report that bacterium belonging to family Rhodobacteraceae can use fluoranthene as

关键词： Celeribacter indica sp.nov. polycyclic aromatic hydrocarbons fluoranthene degradation Reclassification.

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Marinomonas profundimaris sp.nov.,isolated from deep-sea sediment of the Arctic Ocean

Marinomonas profundimaris sp.nov.,isolated from deep-sea sed...

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第五届全国微生物资源学术暨国家微生物资源平台运行服务研...

作者： Xiuhua Bai Qiliang Lai Chunming Dong Zongze Shao State Key Laboratory Breeding Base of Marine Genetic Resources

A taxonomic study was carried out on strain D104,which was isolated from deep-sea subsurface sediment of the Arctic Ocean.The bacterium was Gram-negative,oxidase negative and catalase weak positive,rod shape,motile by polar flagellum.Growth was observed at salinities from 0.5 to 6%and temperatures from 4 to 37°C,and it was capable of aesculin hydrolysis,but unable to reduce nitrate to nitrite.Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain D104 belonged to the genus Marinomonas,with highest sequence similarity of 97.72%to Marinomonas ushuaiensis DSM 15871,followed by other 20 species of genus Marinomonas(94.51- 96.94%),while the other genera were all below 91.00%.The ANIm value and DNA-DNA hybridization estimate value between strain D104T and M.ushuaiensis DSM 15871were 84.24%and 20.80 + 2.33%respectively.The principal fatty acids were Sum In Feature 3(C)(27.11%),Sum In Feature 8(C18:1ω7c/Cω6c)(39.67 %),C(12.32%) and C3OH(5.77%).The G+C content of the chromosomal DNA was 44.8 mol%. The respiratory quinone was determined to be Q8(100%).Phosphatidylglycerol(PG), Phosphatidylethanolamine(PE),aminolipid(AL) and Phospholipid(PL) were present.The combined genotypic and phenotypic data show that strain D104 represents a novel species of genus Marinomonas, for which the name Marinomonas projundimaris sp.***.is proposed,with the type strain D104 (=CGMCCNO.1.12597 = LMG27696=MCCC 1A07573).

关键词： Marinomonas projundimaris sp.nov. Taxonomy Polycyclic Aromatic Hydrocarbons deep sea sediment

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