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1.
Mar Pollut Bull ; 172: 112764, 2021 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-34425363

RESUMO

Richards Bay Harbour (RBH) is situated in the industrialized area on the northeast coast of South Africa. To decipher recent human activities and accompanying environmental degradation, surface sediment was collected across RBH and analysed for granulometric and elemental composition, microfaunal assemblages, and microplastics. Microplastics occur most abundantly near recreational areas, whereas metal contamination relates to activities at bulk goods terminals from which they are imported or exported. In particular, Cr and Cu concentrations in surface sediment near bulk goods terminals exceed South African sediment quality guidelines. In metal contaminated sediment, bioindicators reflected stress and were noticeably impacted. A transect of short sediment cores reflects spatial and historical metal contamination and allows quantification of the load of metals within the sediment column. The volume of metal (Cr) contaminated sediment was estimated at almost 2 million m3.


Assuntos
Metais Pesados , Poluentes Químicos da Água , Baías , Monitoramento Ambiental , Sedimentos Geológicos , Humanos , Metais Pesados/análise , Plásticos , África do Sul , Poluentes Químicos da Água/análise
2.
mSphere ; 4(3)2019 06 05.
Artigo em Inglês | MEDLINE | ID: mdl-31167950

RESUMO

Methane-oxidizing microorganisms perform an important role in reducing emissions of the greenhouse gas methane to the atmosphere. To date, known bacterial methanotrophs belong to the Proteobacteria, Verrucomicrobia, and NC10 phyla. Within the Proteobacteria phylum, they can be divided into type Ia, type Ib, and type II methanotrophs. Type Ia and type II are well represented by isolates. Contrastingly, the vast majority of type Ib methanotrophs have not been able to be cultivated so far. Here, we compared the distributions of type Ib lineages in different environments. Whereas the cultivated type Ib methanotrophs (Methylococcus and Methylocaldum) are found in landfill and upland soils, lineages that are not represented by isolates are mostly dominant in freshwater environments, such as paddy fields and lake sediments. Thus, we observed a clear niche differentiation within type Ib methanotrophs. Our subsequent isolation attempts resulted in obtaining a pure culture of a novel type Ib methanotroph, tentatively named "Methylotetracoccus oryzae" C50C1. Strain C50C1 was further characterized to be an obligate methanotroph, containing C16:1ω9c as the major membrane phospholipid fatty acid, which has not been found in other methanotrophs. Genome analysis of strain C50C1 showed the presence of two pmoCAB operon copies and XoxF5-type methanol dehydrogenase in addition to MxaFI. The genome also contained genes involved in nitrogen and sulfur cycling, but it remains to be demonstrated if and how these help this type Ib methanotroph to adapt to fluctuating environmental conditions in freshwater ecosystems.IMPORTANCE Most of the methane produced on our planet gets naturally oxidized by a group of methanotrophic microorganisms before it reaches the atmosphere. These microorganisms are able to oxidize methane, both aerobically and anaerobically, and use it as their sole energy source. Although methanotrophs have been studied for more than a century, there are still many unknown and uncultivated groups prevalent in various ecosystems. This study focused on the diversity and adaptation of aerobic methane-oxidizing bacteria in different environments by comparing their phenotypic and genotypic properties. We used lab-scale microcosms to create a countergradient of oxygen and methane for preenrichment, followed by classical isolation techniques to obtain methane-oxidizing bacteria from a freshwater environment. This resulted in the discovery and isolation of a novel methanotroph with interesting physiological and genomic properties that could possibly make this bacterium able to cope with fluctuating environmental conditions.


Assuntos
Água Doce/microbiologia , Metano/metabolismo , Methylococcaceae/classificação , Adaptação Fisiológica , Técnicas de Tipagem Bacteriana , DNA Bacteriano/genética , Ácidos Graxos/química , Genoma Bacteriano , Methylococcaceae/isolamento & purificação , Methylococcaceae/fisiologia , Filogenia , RNA Ribossômico 16S/genética
3.
RSC Adv ; 9(19): 10657-10669, 2019 Apr 03.
Artigo em Inglês | MEDLINE | ID: mdl-35515315

RESUMO

The synthesis of complexes [M(OCHMeCH2NMeCH2)2] (5, M = Mg; 7, M = Zn) is described. Treatment of MeHNCH2CH2NMeH (1) with 2-methyloxirane (2) gave diol (HOCHMeCH2NMeCH2)2 (3), which upon reaction with equimolar amounts of MR2 (4, M = Mg, R = Bu; 6, M = Zn, R = Et) gave 5 and 7. The thermal behavior and vapor pressure of 5 and 7 were investigated to show whether they are suited as CVD (= chemical vapor deposition) and/or spin-coating precursors for MgO or ZnO layer formation. Thermogravimetric (TG) studies revealed that 5 and 7 decompose between 80-530 °C forming MgO and ZnO as evidenced by PXRD studies. In addition, TG-MS-coupled experiments were carried out with 7 proving that decomposition occurs by M-O, C-O, C-N and C-C bond cleavages, as evidenced from the detection of fragments such as CH4N+, C2H4N+, C2H5N+, CH2O+, C2H2O+ and C2H3O+. The vapor pressure of 7 was measured at 10.4 mbar at 160 °C, while 5 is non-volatile. The layers obtained by CVD are dense and conformal with a somewhat granulated surface morphology as evidenced by SEM studies. In addition, spin-coating experiments using 5 and 7 as precursors were applied. The corresponding MO layer thicknesses are between 7-140 nm (CVD) or 80 nm and 65 nm (5, 7; spin-coating). EDX and XPS measurements confirm the formation of MgO and ZnO films, however, containing 12-24 mol% (CVD) or 5-9 mol% (spin-coating) carbon. GIXRD studies verify the crystalline character of the deposited layers obtained by CVD and the spin-coating processes.

4.
Beilstein J Nanotechnol ; 8: 2615-2624, 2017.
Artigo em Inglês | MEDLINE | ID: mdl-29259876

RESUMO

The synthesis, chemical and physical properties of [{AgO2CCH2OMe} n ] (1) and [{AgO2CCH2OMe(PPh3)} n ] (2) are reported. Consecutive reaction of AgNO3 with HO2CCH2OMe gave 1, which upon treatment with PPh3 produced 2. Coordination compound 2 forms a 1D coordination polymer in the solid state as evidenced by single crystal X-ray structure analysis. The coordination geometry at Ag+ is of the [3 + 1] type, whereby the carboxylate anions act as bridging ligands. The formation of PPh3-Ag(I) coordinative bonds results in distorted T-shaped AgPO2 units, which are stabilized further by an additional O-Ag dative bond. TG and TG-MS measurements show that 1 and 2 decompose at 190-250 °C (1) and 260-300 °C (2) via decarboxylation, involving Ag-P (2), C-C and C-O bond cleavages to give elemental silver as confirmed by PXRD studies. In order to verify if polymeric 2 is suitable as a FEBID precursor for silver deposition, its vapor pressure was determined (p170 °C = 5.318 mbar, ∆Hvap = 126.1 kJ mol-1), evincing little volatility. Also EI and ESI mass spectrometric studies were carried out. The dissociation of the silver(I) compound 2 under typical electron-driven FEBID conditions was studied by DFT (B3LYP) calculations on monomeric [AgO2CCH2OMe(PPh3)]. At an energy of the secondary electrons up to 0.8 eV elimination of PPh3 occurs, giving Ag+ and O2CCH2OMe-. Likewise, by release of PPh3 from [AgO2CCH2OMe(PPh3)] the fragment [AgO2CCH2OMe]- is formed from which Ag+ and O2CCH2OMe- is generated, further following the first fragmentation route. However, at 1.3 eV the initial step is decarboxylation giving [AgCH2OMe(PPh3)], followed by Ag-P and Ag-C bond cleavages.

5.
Acta Crystallogr E Crystallogr Commun ; 72(Pt 2): 215-9, 2016 Feb 01.
Artigo em Inglês | MEDLINE | ID: mdl-26958391

RESUMO

The mol-ecular structure of the tetra-kis(tri-phenyl-phosphan-yl)disilver salt of butane-1,1,4,4-tetra-carb-oxy-lic acid, [Ag2(C8H8O8)(C18H15P)4]·3CH2Cl2, crystallizes with one and a half mol-ecules of di-chloro-methane in the asymmetric unit. The coordination complex exhibits an inversion centre through the central CH2-CH2 bond. The Ag(I) atom has a distorted trigonal-planar P2O coordination environment. The packing is characterized by inter-molecular T-shaped π-π inter-actions between the phenyl rings of the PPh3 substituents in neighbouring mol-ecules, forming a ladder-type superstructure parallel to [010]. These ladders are arranged in layers parallel to (101). Intra-molecular hydrogen bonds between the OH group and one O atom of the Ag-bonded carboxyl-ate group results in an asymmetric bidendate coordination of the carboxyl-ate moiety to the Ag(I) ion.

6.
Acta Crystallogr E Crystallogr Commun ; 71(Pt 10): 1262-5, 2015 Oct 01.
Artigo em Inglês | MEDLINE | ID: mdl-26594421

RESUMO

In the title compound, [{[(C6H5)3P]Ag}4{NCO}4], a distorted Ag4N4-heterocubane core is set up by four Ag(I) ions being coordinated by the N atoms of the cyanato anions in a µ 3-bridging mode. In addition, a tri-phenyl-phosphine ligand is datively bonded to each of the Ag(I) ions. Intra-molecular Ag⋯Ag distances as short as 3.133 (9) Šsuggest the presence of argentophilic (d (10)⋯d (10)) inter-actions. Five moderate-to-weak C-H⋯O hydrogen-bonding inter-actions are observed in the crystal structure, spanning a three-dimensional network. A region of electron density was treated with the SQUEEZE procedure in PLATON [Spek (2015). Acta Cryst. C71, 9-18] following unsuccessful attempts to model it as being part of disordered tetra-hydro-furan solvent mol-ecules. The given chemical formula and other crystal data do not take into account these solvent mol-ecules.

7.
Sci Rep ; 5: 13318, 2015 Aug 21.
Artigo em Inglês | MEDLINE | ID: mdl-26294226

RESUMO

The Tibetan Plateau (TP) is primarily influenced by the northern hemispheric middle latitude Westerlies and the Indian summer monsoon (ISM). The extent, long-distance effects and potential long-term changes of these two atmospheric circulations are not yet fully understood. Here, we analyse modern airborne pollen in a transition zone of seasonally alternating dominance of the Westerlies and the ISM to develop a pollen discrimination index (PDI) that allows us to distinguish between the intensities of the two circulation systems. This index is applied to interpret a continuous lacustrine sedimentary record from Lake Nam Co covering the past 24 cal kyr BP to investigate long-term variations in the atmospheric circulation systems. Climatic variations on the central TP widely correspond to those of the North Atlantic (NA) realm, but are controlled through different mechanisms resulting from the changing climatic conditions since the Last Glacial Maximum (LGM). During the LGM, until 16.5 cal kyr BP, the TP was dominated by the Westerlies. After 16.5 cal kyr BP, the climatic conditions were mainly controlled by the ISM. From 11.6 to 9 cal kyr BP, the TP was exposed to enhanced solar radiation at the low latitudes, resulting in greater water availability.

8.
Proc Natl Acad Sci U S A ; 112(19): E2507-16, 2015 May 12.
Artigo em Inglês | MEDLINE | ID: mdl-25918393

RESUMO

Arctic permafrost soils store large amounts of soil organic carbon (SOC) that could be released into the atmosphere as methane (CH4) in a future warmer climate. How warming affects the complex microbial network decomposing SOC is not understood. We studied CH4 production of Arctic peat soil microbiota in anoxic microcosms over a temperature gradient from 1 to 30 °C, combining metatranscriptomic, metagenomic, and targeted metabolic profiling. The CH4 production rate at 4 °C was 25% of that at 25 °C and increased rapidly with temperature, driven by fast adaptations of microbial community structure, metabolic network of SOC decomposition, and trophic interactions. Below 7 °C, syntrophic propionate oxidation was the rate-limiting step for CH4 production; above this threshold temperature, polysaccharide hydrolysis became rate limiting. This change was associated with a shift within the functional guild for syntrophic propionate oxidation, with Firmicutes being replaced by Bacteroidetes. Correspondingly, there was a shift from the formate- and H2-using Methanobacteriales to Methanomicrobiales and from the acetotrophic Methanosarcinaceae to Methanosaetaceae. Methanogenesis from methylamines, probably stemming from degradation of bacterial cells, became more important with increasing temperature and corresponded with an increased relative abundance of predatory protists of the phylum Cercozoa. We concluded that Arctic peat microbiota responds rapidly to increased temperatures by modulating metabolic and trophic interactions so that CH4 is always highly produced: The microbial community adapts through taxonomic shifts, and cascade effects of substrate availability cause replacement of functional guilds and functional changes within taxa.


Assuntos
Archaea/metabolismo , Aquecimento Global , Metano/biossíntese , Microbiologia do Solo , Archaea/genética , Regiões Árticas , Carbono/química , Dióxido de Carbono/química , Cromatografia Gasosa , Cromatografia Líquida de Alta Pressão , Ecossistema , Meio Ambiente , Fermentação , Perfilação da Expressão Gênica , Hidrogênio/química , Hidrólise , Modelos Lineares , Microbiota , Polissacarídeos/química , RNA Ribossômico/metabolismo , Solo/química , Sphagnopsida , Temperatura
9.
Environ Microbiol ; 17(5): 1721-37, 2015 May.
Artigo em Inglês | MEDLINE | ID: mdl-25186436

RESUMO

Aerobic methane-oxidizing bacteria (MOB) in soils mitigate methane (CH4 ) emissions. We assessed spatial and seasonal differences in active MOB communities in a landfill cover soil characterized by highly variable environmental conditions. Field-based measurements of CH4 oxidation activity and stable-isotope probing of polar lipid-derived fatty acids (PLFA-SIP) were complemented by microarray analysis of pmoA genes and transcripts, linking diversity and function at the field scale. In situ CH4 oxidation rates varied between sites and were generally one order of magnitude lower in winter compared with summer. Results from PLFA-SIP and pmoA transcripts were largely congruent, revealing distinct spatial and seasonal clustering. Overall, active MOB communities were highly diverse. Type Ia MOB, specifically Methylomonas and Methylobacter, were key drivers for CH4 oxidation, particularly at a high-activity site. Type II MOB were mainly active at a site showing substantial fluctuations in CH4 loading and soil moisture content. Notably, Upland Soil Cluster-gamma-related pmoA transcripts were also detected, indicating concurrent oxidation of atmospheric CH4 . Spatial separation was less distinct in winter, with Methylobacter and uncultured MOB mediating CH4 oxidation. We propose that high diversity of active MOB communities in this soil is promoted by high variability in environmental conditions, facilitating substantial removal of CH4 generated in the waste body.


Assuntos
Metano/metabolismo , Methylomonas/metabolismo , Microbiologia do Solo , Instalações de Eliminação de Resíduos , Ácidos Graxos/metabolismo , Methylomonas/classificação , Methylomonas/genética , Oxirredução , Estações do Ano
10.
Acta Crystallogr Sect E Struct Rep Online ; 70(Pt 10): 174-7, 2014 Oct 01.
Artigo em Inglês | MEDLINE | ID: mdl-25484645

RESUMO

In the tetra-nuclear mol-ecule of the title compound, [Ag4(C9H10O4)2(C18H15P)4], the Ag(I) ion is coordinated by one P and three O atoms in a considerably distorted tetra-hedral environment. The two 2,2-di-allyl-malonate anions bridge four Ag(I) ions in a µ4-(κ(6) O (1),O (3):O (3):O (1'),O (3'):O (1')) mode, setting up an Ag4O8P4 core (point group symmetry -4..) of corner-sharing tetra-hedra. The shortest intra-molecular Ag⋯Ag distance of 3.9510 (3) Šreveals that no direct d (10)⋯d (10) inter-actions are present. Four weak intra-molecular C-H⋯O hydrogen bonds are observed in the crystal structure of the title compound, which most likely stabilize the tetra-nuclear silver core.

11.
Environ Microbiol ; 16(1): 72-83, 2014 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-24914433

RESUMO

Studies addressing microbial biogeography haveincreased during the past decade, but research onmicrobial distribution patterns is still in its infancies,and many aspects are only poorly understood. Here,we compared the methanotroph community in paddysoils sampled in Indonesia, Vietnam, China and Italy,focusing on the distance­decay relationship.We usedthe pmoA gene as marker for methanotroph diversityin terminal restriction fragment length polymorphism,microarray and pyrosequencing approaches. Wecould observe a significant increase of ß-diversity with geographical distance across continents (12 000 km).Measured environmental parameters explained only asmall amount of data variation, and we found no evidencefor dispersal limitation. Thus, we propose historicalcontingencies being responsible for theobserved patterns. Furthermore, we performed anin-depth analysis of type II methanotroph pmoA distributionat the sequence level. We used ordinationanalysis to project sequence dissimilarities into athree-dimensional space (multidimensional scaling).The ordination suggests that type II methanotrophs inpaddy fields can be divided into five major groups.However, these groups were found to be distributed inall soils independent of the geographic origin. Byincluding tropical field sites (Indonesia and Vietnam)into the analysis, we further observed the firstpaddy fields harbouring a methanotroph communitydepleted in type II methanotrophs.


Assuntos
Methylococcaceae/classificação , Methylococcaceae/genética , Oryza , Microbiologia do Solo , Biodiversidade , Ecossistema , Genótipo , Oxigenases/genética , Clima Tropical
12.
Appl Environ Microbiol ; 79(23): 7234-40, 2013 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-24038691

RESUMO

Termite-derived methane contributes 3 to 4% to the total methane budget globally. Termites are not known to harbor methane-oxidizing microorganisms (methanotrophs). However, a considerable fraction of the methane produced can be consumed by methanotrophs that inhabit the mound material, yet the methanotroph ecology in these environments is virtually unknown. The potential for methane oxidation was determined using slurry incubations under conditions with high (12%) and in situ (∼0.004%) methane concentrations through a vertical profile of a termite (Macrotermes falciger) mound and a reference soil. Interestingly, the mound material showed higher methanotrophic activity. The methanotroph community structure was determined by means of a pmoA-based diagnostic microarray. Although the methanotrophs in the mound were derived from populations in the reference soil, it appears that termite activity selected for a distinct community. Applying an indicator species analysis revealed that putative atmospheric methane oxidizers (high-indicator-value probes specific for the JR3 cluster) were indicative of the active nest area, whereas methanotrophs belonging to both type I and type II were indicative of the reference soil. We conclude that termites modify their environment, resulting in higher methane oxidation and selecting and/or enriching for a distinct methanotroph population.


Assuntos
Bactérias/classificação , Bactérias/metabolismo , Biodiversidade , Isópteros/fisiologia , Metano/metabolismo , Microbiologia do Solo , Animais , Carga Bacteriana , Análise em Microsséries , Oxirredução , Reação em Cadeia da Polimerase
13.
Appl Environ Microbiol ; 79(8): 2841-6, 2013 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-23417005

RESUMO

The methanotrophic potential in sewage treatment sludge was investigated. We detected a diverse aerobic methanotrophic community that potentially plays a significant role in mitigating methane emission in this environment. The results suggest that community structure was determined by conditions specific to the processes in a sewage treatment plant.


Assuntos
Alphaproteobacteria/metabolismo , Gammaproteobacteria/metabolismo , Metano/metabolismo , Esgotos/microbiologia , Alphaproteobacteria/genética , Reatores Biológicos , Gammaproteobacteria/genética , Dados de Sequência Molecular , Purificação da Água
14.
PLoS One ; 8(1): e53656, 2013.
Artigo em Inglês | MEDLINE | ID: mdl-23341965

RESUMO

The metabolic pathways of methane formation vary with environmental conditions, but whether this can also be linked to changes in the active archaeal community structure remains uncertain. Here, we show that the suppression of aceticlastic methanogenesis by methyl fluoride (CH(3)F) caused surprisingly little differences in community composition of active methanogenic archaea from a rice field soil. By measuring the natural abundances of carbon isotopes we found that the effective dose for a 90% inhibition of aceticlastic methanogenesis in anoxic paddy soil incubations was <0.75% CH(3)F (v/v). The construction of clone libraries as well as t-RFLP analysis revealed that the active community, as indicated by mcrA transcripts (encoding the α subunit of methyl-coenzyme M reductase, a key enzyme for methanogenesis), remained stable over a wide range of CH(3)F concentrations and represented only a subset of the methanogenic community. More precisely, Methanocellaceae were of minor importance, but Methanosarcinaceae dominated the active population, even when CH(3)F inhibition only allowed for aceticlastic methanogenesis. In addition, we detected mcrA gene fragments of a so far unrecognised phylogenetic cluster. Transcription of this phylotype at methyl fluoride concentrations suppressing aceticlastic methanogenesis suggests that the respective organisms perform hydrogenotrophic methanogenesis. Hence, the application of CH(3)F combined with transcript analysis is not only a useful tool to measure and assign in situ acetate usage, but also to explore substrate usage by as yet uncultivated methanogens.


Assuntos
Archaea/efeitos dos fármacos , Archaea/metabolismo , Biota , Hidrocarbonetos Fluorados/farmacologia , Metano/metabolismo , Oryza/crescimento & desenvolvimento , Microbiologia do Solo , Acetatos/metabolismo , Agricultura , Sequência de Bases , Isótopos de Carbono , Marcação por Isótopo , Metaboloma/efeitos dos fármacos , Dados de Sequência Molecular , Análise Multivariada , Oxirredução/efeitos dos fármacos , Filogenia , Polimorfismo de Fragmento de Restrição , Padrões de Referência
15.
Naturwissenschaften ; 100(1): 51-67, 2013 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-23224070

RESUMO

The Caribbean is highly vulnerable to coastal hazards. Based on their short recurrence intervals over the intra-American seas, high-category tropical cyclones and their associated effects of elevated storm surge, heavy wave impacts, mudslides and floods represent the most serious threat. Given the abundance of historical accounts and trigger mechanisms (strike-slip motion and oblique collision at the northern and southern Caribbean plate boundaries, submarine and coastal landslides, volcanism), tsunamis must be considered as well. This paper presents interdisciplinary multi-proxy investigations of sediment cores (grain size distribution, carbonate content, loss-on-ignition, magnetic susceptibility, microfauna, macrofauna) from Washington-Slagbaai National Park, NW Bonaire (Leeward Antilles). No historical tsunami is recorded for this island. However, an allochthonous marine layer found in all cores at Boka Bartol reveals several sedimentary criteria typically linked with tsunami deposits. Calibrated (14)C data from these cores point to a palaeotsunami with a maximum age of 3,300 years. Alternative explanations for the creation of this layer, such as inland flooding during tropical cyclones, cannot entirely be ruled out, though in recent times even the strongest of these events on Bonaire did not deposit significant amounts of sediment onshore. The setting of Boka Bartol changed from an open mangrove-fringed embayment into a poly- to hyperhaline lagoon due to the establishment or closure of a barrier of coral rubble during or subsequent to the inferred event. The timing of the event is supported by further sedimentary evidence from other lagoonal and alluvial archives on Bonaire.


Assuntos
Ecossistema , Sedimentos Geológicos/análise , Tsunamis , Animais , Radioisótopos de Carbono/análise , Invertebrados/ultraestrutura , Microscopia Eletrônica de Varredura , Índias Ocidentais
16.
ISME J ; 6(11): 2128-39, 2012 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-22695859

RESUMO

Aerobic methane-oxidizing bacteria (MOB) use a restricted substrate range, yet >30 species-equivalent operational taxonomical units (OTUs) are found in one paddy soil. How these OTUs physically share their microhabitat is unknown. Here we highly resolved the vertical distribution of MOB and their activity. Using microcosms and cryosectioning, we sub-sampled the top 3-mm of a water-saturated soil at near in situ conditions in 100-µm steps. We assessed the community structure and activity using the particulate methane monooxygenase gene pmoA as a functional and phylogenetic marker by terminal restriction fragment length polymorphism (t-RFLP), a pmoA-specific diagnostic microarray, and cloning and sequencing. pmoA genes and transcripts were quantified using competitive reverse transcriptase PCR combined with t-RFLP. Only a subset of the methanotroph community was active. Oxygen microprofiles showed that 89% of total respiration was confined to a 0.67-mm-thick zone immediately above the oxic-anoxic interface, most probably driven by methane oxidation. In this zone, a Methylobacter-affiliated OTU was highly active with up to 18 pmoA transcripts per cell and seemed to be adapted to oxygen and methane concentrations in the micromolar range. Analysis of transcripts with a pmoA-specific microarray found a Methylosarcina-affiliated OTU associated with the surface zone. High oxygen but only nanomolar methane concentrations at the surface suggested an adaptation of this OTU to oligotrophic conditions. No transcripts of type II methanotrophs (Methylosinus, Methylocystis) were found, which indicated that this group was represented by resting stages only. Hence, different OTUs within a single guild shared the same microenvironment and exploited different niches.


Assuntos
Methylococcaceae/isolamento & purificação , Microbiologia do Solo , Ecossistema , Methylococcaceae/genética , Methylococcaceae/metabolismo , Análise em Microsséries , Oryza , Oxigenases/genética , Filogenia , Polimorfismo de Fragmento de Restrição , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Solo/química
17.
Environ Microbiol Rep ; 4(2): 203-8, 2012 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-23757274

RESUMO

The role of microbial diversity for ecosystem functioning has become an important subject in microbial ecology. Recent work indicates that microbial communities and microbial processes can be very sensitive to anthropogenic disturbances. However, to what extent microbial communities may change upon, resist to, or overcome disturbances might differ depending on substrate availability. We used soil from an Italian rice field in gradient microcosms, and analysed the response of methanotrophic communities to an NH4 (+) pulse as a potential disturbance under two different CH4 source strengths. We found a significant influence of source strength, i.e. the energy flow through the methanotrophic community, while NH4 (+) had no effect. Our data suggest that historical contingencies, i.e. nitrogen fertilization, led to an ammonium-tolerant MOB community. Methanotrophs were able to oxidize virtually all CH4 diffusing into the oxic-anoxic boundary layer regardless of NH4 (+) addition. Total and active methanotrophic communities were assessed by a pmoA-specific microarray. From the reservoir of dormant methanotrophs, different species became active with Methylobacter and an environmental cluster affiliated with paddy soils being indicative for high CH4 source strength. Thus, a microbial seed bank is an important prerequisite to maintain functioning in a fluctuating environment.

18.
Appl Environ Microbiol ; 77(17): 6305-9, 2011 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-21764977

RESUMO

We analyzed the potential of pmoA amplicon pyrosequencing compared to that of Sanger sequencing with paddy soils as a model environment. We defined operational taxonomic unit (OTU) cutoff values of 7% and 18%, reflecting methanotrophic species and major phylogenetic pmoA lineages, respectively. Major lineages were already well covered by clone libraries; nevertheless, pyrosequencing provided a higher level of diversity at the species level.


Assuntos
Biodiversidade , Microbiologia Ambiental , Metagenômica/métodos , Methylococcaceae/classificação , Methylococcaceae/genética , Oxigenases/genética , Análise de Sequência de DNA/métodos , Análise por Conglomerados , Filogenia
19.
ISME J ; 5(4): 750-8, 2011 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-20981115

RESUMO

Biodiversity is claimed to be essential for ecosystem functioning, but is threatened by anthropogenic disturbances. Prokaryotes have been assumed to be functionally redundant and virtually inextinguishable. However, recent work indicates that microbes may well be sensitive to environmental disturbance. Focusing on methane-oxidizing bacteria as model organisms, we simulated disturbance-induced mortality by mixing native with sterilized paddy soil in two ratios, 1:4 and 1:40, representing moderate and severe die-offs. Disturbed microcosms were compared with an untreated control. Recovery of activity and populations was followed over 4 months by methane uptake measurements, pmoA-qPCR, pmoA-based terminal restriction fragment length polymorphism and a pmoA-based diagnostic microarray. Diversity and evenness of methanotrophs decreased in disturbed microcosms, but functioning was not compromised. We consistently observed distinctive temporal shifts between type I and type II methanotrophs, and a rapid population growth leading to even higher cell numbers comparing disturbed microcosms with the control. Overcompensating mortality suggested that population size in the control was limited by competition with other bacteria. Overall, methanotrophs showed a remarkable ability to compensate for die-offs.


Assuntos
Biodiversidade , Metano/metabolismo , Methylococcaceae/classificação , Methylococcaceae/genética , Methylococcaceae/crescimento & desenvolvimento , Filogenia , Polimorfismo de Fragmento de Restrição , Microbiologia do Solo
20.
Environ Microbiol Rep ; 3(4): 466-72, 2011 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-23761309

RESUMO

The dominant terminal process of carbon mineralization in most freshwater wetlands is methanogenesis. With methane being an important greenhouse gas, the predicted warming of the Arctic may provide a positive feedback. However, the amount of methane released to the atmosphere may be controlled by the activity of methane-oxidizing bacteria (methanotrophs) living in the oxic surface layer of wetlands. Previously, methanotrophs have been isolated and identified by genetic profiling in High Arctic wetlands showing the presence of only a few genotypes. Two isolates from Solvatnet (Ny-Ålesund, Spitsbergen; 79°N) are available: Methylobacter tundripaludum (type I) and Methylocystis rosea (type II), raising the question whether the low diversity is a cultivation effect. We have revisited Solvatnet applying stable isotope probing (SIP) with (13) C-labelled methane. 16S rRNA profiling revealed active type I methanotrophs including M. tundripaludum, while no active type II methanotrophs were identified. These results indicate that the extant M. tundripaludum is an active methane oxidizer at its locus typicus; furthermore, Methylobacter seems to be the dominant active genus. Diversity of methanotrophs was low as compared, e.g. to wetland rice fields in the Mediterranean. This low diversity suggests a high vulnerability of Arctic methanotroph communities, which deserves more attention.

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