Terrestrial Bacteria Research Articles

Development of the Genus and Species Determination Method for Histamine Producing Bacteria Isolated from Fishery Product with High-Resolution Melting Analysis

Histamine in foods with a high histidine content may be produced by bacteria with histidine decarboxylase activity. Consumption of food enriched in histamine can produce symptoms of histamine poisoning that include flushing, headache, and urticaria. The number of histamine poisoning cases in Japan has decreased with developments in food hygiene management technology. However, approximately 10 cases are still reported each year. In addition, there have been cases where histamine was detected in the end products, prompting large product recalls. To prevent and identify causes of histamine toxicity, manufacturers must identify the bacteria causing the illness. A simple method of identification is needed, since sequence-based identification is complicated to perform and the analysis takes a long time. High-Resolution Melting Analysis (HRMA) is a method that detects differences in the base sequences of PCR products manifested as varied melting temperatures of double-stranded DNA. The present study was intended to develop a rapid identification method for major histamine-producing bacteria using HRMA. Species-specific HRMA primers were designed that specifically targeted the hdcA gene of 20 Gram-negative histamine-producing bacterial strains. The designed primers were used for HRM analysis of the 20 histamine-producing bacterial strains. The strains were divided into three groups (A, B, and C) based on differences in melting temperature values obtained by Tm Calling analysis program. Group A comprised terrestrial bacteria, such as Morganella, Enterobacter, and Raoultella, while Groups B and C comprised marine bacteria, such as those belonging to the genera Vibrio and Photobacterium. The melting profiles obtained in Group A by HRMA were used to identify the aforementioned terrestrial bacteria. The findings indicated that HRMA can easily identify the major gram-negative histamine-producing bacteria. A flow chart was created to identify histamine-producing bacterial species. This method enables the identification of histamine-producing bacterial species more quickly and easily than conventional sequence-based methods. Therefore, the method could be valuable for food companies to screen raw materials and products and track the source of contamination, which will in turn contribute to the prevention of histamine-food poisoning and investigation of its causes.

Climatic and human impact on the environment: Insight from the tetraether lipid temperature reconstruction in the Beibu Gulf, China

Organic proxies have been widely used to reconstruct temperature and terrestrial input variation at the interface between land and sea. However, the impact of human activities on these proxies has been little constrained, which might cause the misinterpretation of the sediment profile. In order to study the climatic and human impact on the environment, proxies in coastal regions, glycerol dialkyl glycerol tetraethers (GDGTs) in a sediment core spanning 115 years was analyzed from Beibu Gulf, China. The results indicate that isoprenoid GDGTs in the Beibu Gulf were mainly derived from Thaumarchaeota and the branched GDGTs originated mainly from terrestrial soil bacteria. The TEX86 index was applied to reconstruct the temporal SST variation. The results show that variation of TEX86-derived SST is controlled mainly by East Asian Monsoon system and partly by ENSO events. The methylation index of branched tetraethers or the cyclization index of branched tetraethers (MBT/CBT) derived mean annual air temperature (MAAT) agreed with MAAT record at the Qinzhou Station before 1982 AD. However, the population growth and economic development after 1982 AD caused the reduction of terrestrial organic matter input and increase of nutrient, leading to the thriving of Thaumarchaeota and increasing of in situ branched GDGTs proportion, which created the scatter of the MBT/CBT-reconstructed MAAT after 1982 AD. Therefore, human influence on GDGT proxies can be constrained in this way to avoid misinterpretation of paleoclimate and paleoenvironment records.

What Is in Store for EPS Microalgae in the Next Decade?

Microalgae and their metabolites have been an El Dorado since the turn of the 21st century. Many scientific works and industrial exploitations have thus been set up. These developments have often highlighted the need to intensify the processes for biomass production in photo-autotrophy and exploit all the microalgae value including ExoPolySaccharides (EPS). Indeed, the bottlenecks limiting the development of low value products from microalgae are not only linked to biology but also to biological engineering problems including harvesting, recycling of culture media, photoproduction, and biorefinery. Even respecting the so-called “Biorefinery Concept”, few applications had a chance to emerge and survive on the market. Thus, exploiting EPS from microalgae for industrial applications in some low-value markets such as food is probably not a mature proposition considering the competitiveness of polysaccharides from terrestrial plants, macroalgae, and bacteria. However, it does not imply drawing a line on their uses but rather “thinking them” differently. This review provides insights into microalgae, EPS, and their exploitation. Perspectives on issues affecting the future of EPS microalgae are also addressed with a critical point of view.

Branched GDGTs as Proxies in Surface Sediments From the South-Eastern Brazilian Continental Margin

Branched glycerol dialkyl glycerol tetraethers (brGDGTs) are membrane lipids produced by bacteria usually ascribed to soil and peat deposits. The presence of brGDGTs in marine sediments can thus be used to track terrigenous organic matter inputs to the continental margin and to infer the local continental mean annual air temperature (MAT) and soil pH. The proxy rationale is based on the degree methylation and cyclization of the brGDGTs from terrestrial bacteria, but recently evidence was found of river and oceanic production of brGDGTs with similar configuration, indicating the necessity to better constrain the applicability of the soil brGDGTs in the marine realm. Here we considered crenarchaeol and brGDGTs obtained in 46 core-top sediments from cross-margin transects in the Campos Basin in the Southwest Atlantic, with the goal to evaluate the effectiveness of the brGDGT-associated proxies in a region in the southeastern tropical Brazilian continental margin influenced by upwelling events and low terrigenous inputs. The separation of the 5- and 6-methyl brGDGTs proved to be essential for a better evaluation of the sources of brGDGTs in the environment. Direct evidence of input of terrigenous organic matter by the medium-sized Paraiba do Sul River and other small rivers in the region were observed. More importantly, the high proportions of ring-containing brGDGTs – and the consequent increased values of the #ringstetra – in the sediments deposited between 75 and 400 m water depths (mid-shelf to upper slope) were clear evidence of marine in situ production of brGDGTs. In some stations deeper than 1900 m, an increase in the acyclic 6-methyl hexamethylated compounds can also be ascribed to in situ production. Our results revealed that the initial soil signal is lost during transport and after river discharge in the Campos Basin, which compromise the use of brGDGTs to reconstruct the soil pH and MAT of the nearby land area.

Maintenance of Sympatric and Allopatric Populations in Free-Living Terrestrial Bacteria.

For free-living bacteria and archaea, the equivalent of the biological species concept does not exist, creating several obstacles to the study of the processes contributing to microbial diversification. These obstacles are particularly high in soil, where high bacterial diversity inhibits the study of closely related genotypes and therefore the factors structuring microbial populations. Here, we isolated strains within a single Curtobacterium ecotype from surface soil (leaf litter) across a regional climate gradient and investigated the phylogenetic structure, recombination, and flexible gene content of this genomic diversity to infer patterns of gene flow. Our results indicate that microbial populations are delineated by gene flow discontinuities, with distinct populations cooccurring at multiple sites. Bacterial population structure was further delineated by genomic features allowing for the identification of candidate genes possibly contributing to local adaptation. These results suggest that the genetic structure within this bacterium is maintained both by ecological specialization in localized microenvironments (isolation by environment) and by dispersal limitation between geographic locations (isolation by distance).IMPORTANCE Due to the promiscuous exchange of genetic material and asexual reproduction, delineating microbial species (and, by extension, populations) remains challenging. Because of this, the vast majority of microbial studies assessing population structure often compare divergent strains from disparate environments under varied selective pressures. Here, we investigated the population structure within a single bacterial ecotype, a unit equivalent to a eukaryotic species, defined as highly clustered genotypic and phenotypic strains with the same ecological niche. Using a combination of genomic and computational analyses, we assessed the phylogenetic structure, extent of recombination, and flexible gene content of this genomic diversity to infer patterns of gene flow. To our knowledge, this study is the first to do so for a dominant soil bacterium. Our results indicate that bacterial soil populations, similarly to those in other environments, are structured by gene flow discontinuities and exhibit distributional patterns consistent with both isolation by distance and isolation by environment. Thus, both dispersal limitation and local environments contribute to the divergence among closely related soil bacteria as observed in macroorganisms.

Three new bioactive natural products from the fungus Talaromyces assiutensis JTY2.

A novel cyclopentenone derivative, talarocyclopenta A (1), a new phenolicethers derivative, talarocyclopenta B (2) and a new itaconic acid derivative, talarocyclopenta C (3) together with four known itaconic acid derivatives (4-7) were isolated from the Talaromyces assiutensis JTY2. Their structures were elucidated by the detailed analysis of comprehensive spectroscopic data. Among them, talarocyclopent (1) is the first represent an unusual type of cyclopentenone derivative, possessing a cyclopentenone unit, a 2-butanone unit and a 3-hydroxybutyric acid unit. All isolated compounds were evaluated for their anti-inflammatory and antibacterial activities. Compounds 1-4 showed inhibitory activities against the nitric oxide (NO) production induced by lipopolysaccharide in mouse macrophage RAW 264.7 cells in vitro. Compound 2 showed broad spectrum antibacterial against six terrestrial pathogenic bacteria.

Survival of halophiles of Altai lakes under extreme environmental conditions: implications for the search for Martian life

AbstractMars is considered to be one of the most favourable places in the Solar System to search for past and present life. In the past Mars was warmer and wetter, so terrestrial halophiles can be regarded as analogues of hypothetical ancient Martian halophiles. In this study we used microorganisms from unique Altai region (Russia) to estimate the capability of terrestrial bacteria and archaea to survive at low temperatures and high concentration of salts and metals, similar to the Martian environment. The current report demonstrates that both halophilic archaea and halotolerant bacteria from saline lakes of the Altai region may be considered as analogues of ancient Martian organisms, since they are able to withstand conditions that hypothetically existed in subsurface layers of the early Mars (low temperatures, salt solutions with a high content of NaCl) with only slight decrease in viability. We also found that the studied microorganisms can use some organic substances found in meteorites. We consider that transfer of unicellular halophiles from Earth to Mars was possible, and, moreover, they could successfully survive and grow on early Mars. Adjusting our growth media to the chemical composition of the lakes, from which the studied strains were isolated, resulted in significant increase in survival and growth rates. Certain strains could survive several freeze–thaw cycles at −70 °C typical for Martian nights.

Whole Genome Sequencing and Metabolomic Study of Cave Streptomyces Isolates ICC1 and ICC4.

The terrestrial subsurface microbiome has gained considerable amount of interests in the recent years because of its rich potential resource for biomining novel genes coding for metabolites possessing antimicrobial activities. In our previous study, we identified two Streptomyces isolates, designated as ICC1 and ICC4, from the Iron Curtain Cave, Chilliwack, Canada that exhibited antagonistic activities against the multidrug resistant strains of Escherichia coli. In this study, the genomes of these two isolates were sequenced by Illumina MiSeq, assembled and annotated. The genes associated with secondary metabolite production were identified and annotated using the bioinformatics platforms antiSMASH and BAGEL. ICC1 and ICC4 were then cultivated and ICC1 metabolome characterized by UHPLC-ESI-HRMS. The Global Natural Products Social Molecular Networking was used to identify metabolites based on the MS/MS spectral data. ICC1 and ICC4 showed a high level of sequence identity with the terrestrial bacteria Streptomyces lavendulae; however, they possess a greater secondary metabolite potential as estimated by the total number of identified biosynthetic gene clusters (BGCs). In particular, ICC1 and ICC4 had a greater number of polyketide and non-ribosomal peptide BGCs. The most frequently detected BGCs were those predicted to generate terpenes, small and low complexity dipeptides and lipids. Spectral analysis clearly identified a number of diketopiperazine products through matched reference spectra for cyclo (Leu-Pro), cyclo (Pro-Val) and cyclo [(4-hydroxyPro)-Leu]. One of the terpenes gene clusters predicted by antiSMASH possesses a seven-gene pathway consistent with diazepinomicin biosynthesis. This molecule contains a very rare core structure and its BGC, to date, has only been identified from a single bacterial genome. The tetrapeptide siderophore coelichelin BGC was unambiguously identified in the genome, however, the metabolite could not be identified from the culture extracts. Two type III polyketides, 2′, 5′ – dimethoxyflavone and nordentatin, were identified from the UHPLC-HRMS data of the aqueous and n-butanolic fractions of Streptomyces sp. ICC1, respectively. A BGC likely encoding these metabolites was predicted in both genomes. The predicted similarities in molecule production and genome shared by these two strains could be an indicative of a cooperative mode of living in extreme habitats instead of a competitive one. This secondary metabolite potential may contribute to the fitness of ICC1 and ICC4 in the Iron Curtain Cave.

Genetic and Physiological Characteristics of a Novel Marine Propylene-Assimilating Halieaceae Bacterium Isolated from Seawater and the Diversity of Its Alkene and Epoxide Metabolism Genes.

The Gram-negative marine propylene-assimilating bacterium, strain PE-TB08W, was isolated from surface seawater. A structural gene analysis using the 16S rRNA gene showed 96, 94, and 95% similarities to Halioglobus species, Haliea sp. ETY-M, and Haliea sp. ETY-NAG, respectively. A phylogenetic tree analysis showed that strain PE-TB08W belonged to the EG19 (Chromatocurvus)-Congregibacter-Haliea cluster within the Halieaceae (formerly Alteromonadaceae) family. Thus, strain PE-TB08W was characterized as a newly isolated Halieaceae bacterium; we suggest that this strain belongs to a new genus. Other bacterial characteristics were investigated and revealed that strain PE-TB08W assimilated propylene, n-butane, 1-butene, propanol, and 1-butanol (C3 and C4 gaseous hydrocarbons and primary alcohols), but not various other alcohols, including methane, ethane, ethylene, propane, and i-butane. The putative alkene monooxygenase (amo) gene in this strain was a soluble methane monooxygenase-type (sMMO) gene that is ubiquitous in alkene-assimilating bacteria for the initial oxidation of alkenes. In addition, two epoxide carboxylase systems containing epoxyalkane, the co-enzyme M transferase (EaCoMT) gene, and the co-enzyme M biosynthesis gene, were found in the upstream region of the sMMO gene cluster. Both of these genes were similar to those in Xanthobacter autotrophicus Py2 and were inductively expressed by propylene. These results have a significant impact on the genetic relationship between terrestrial and marine alkene-assimilating bacteria.

Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization.

Pectin is a complex uronic acid-containing polysaccharide typically found in plant cell walls, though forms of pectin are also found in marine diatoms and seagrasses. Genetic loci that target pectin have recently been identified in two phyla of marine bacteria. These loci appear to encode a pectin saccharification pathway that is distinct from the canonical pathway typically associated with phytopathogenic terrestrial bacteria. However, very few components of the marine pectin metabolism pathway have been experimentally validated. Here, we biochemically reconstructed the pectin saccharification pathway from a marine Pseudoalteromonas sp. in vitro and show that it results in the production of galacturonate and the key metabolic intermediate 5-keto-4-deoxyuronate (DKI). We demonstrate the sequential de-esterification and depolymerization of pectin into oligosaccharides and the synergistic action of glycoside hydrolases (GHs) to fully degrade these oligosaccharides into monosaccharides. Furthermore, we show that this pathway relies on enzymes belonging to GH family 105 to carry out the equivalent chemistry afforded by an exolytic polysaccharide lyase (PL) and KdgF in the canonical pectin pathway. Finally, we synthesize our findings into a model of marine pectin degradation and compare it with the canonical pathway. Our results underline the shifting view of pectin as a solely terrestrial polysaccharide and highlight the importance of marine pectin as a carbon source for suitably adapted marine heterotrophs. This alternate pathway has the potential to be exploited in the growing field of biofuel production from plant waste.IMPORTANCE Marine polysaccharides, found in the cell walls of seaweeds and other marine macrophytes, represent a vast sink of photosynthetically fixed carbon. As such, their breakdown by marine microbes contributes significantly to global carbon cycling. Pectin is an abundant polysaccharide found in the cell walls of terrestrial plants, but it has recently been reported that some marine bacteria possess the genetic capacity to degrade it. In this study, we biochemically characterized seven key enzymes from a marine bacterium that, together, fully degrade the backbone of pectin into its constituent monosaccharides. Our findings highlight the importance of pectin as a marine carbon source available to bacteria that possess this pathway. The characterized enzymes also have the potential to be utilized in the production of biofuels from plant waste.

Flame sprayed environmentally friendly high density polyethylene (HDPE)–capsaicin composite coatings for marine antifouling applications

Marine biofouling has emerged as worldwide serious problems for artificial marine infrastructures. Among the measures taken so far to solve the abovementioned problems, construction of an antifouling layer has been proven to be effective in offering long-term antifouling performances. Antifouling based on the use of biocides is the most important method in modern maritime industries. While tributyltin (TBT)-based self-polishing coatings are being replaced by other biocide-releasing coatings, the environmental toxicity of these compounds is also under scrutiny. Therefore, there is a significant interest in developing non-toxic technologies. Green biocides can also be extracted from many types of organisms including terrestrial plants, sea creatures and bacteria. The capsaicin was extracted from chili pepper. In this study, flame sprayed high density polyethylene (HDPE)–capsaicin composite coatings were developed for marine antifouling applications. Capsaicin powder were fixed by polymer-based substrate and distributed evenly. Antifouling performances of the films were assessed by examining survival and colonization behaviors of E. coli and Bacillus sp. bacteria and Phaeodactylum tricornutum. Antifouling test indicated excellent antibacterial properties of HDPE–capsaicin composite coatings against both gram-negative Escherichia coli and gram-positive marine Bacillus sp. bacteria. Excellent antifouling performances against bacteria and algae of the thermal sprayed composite coatings give clear insight into their potential applications as environmentally friendly antifouling layers in the marine environment.

Occurrence and origins of biomarker aliphatic hydrocarbons and their indications in surface sediments of the East China Sea

The composition, distribution, indexes and budget of saturated lipid biomarker aliphatic hydrocarbons (AHs) in sediments of the East China Sea (ESC) were analyzed to identify their indications and sources. The resolved n-alkane (R) contents were 0.70–2.89 μg/g, with long-chain n-alkanes as the dominant composition in the ECS. The high R values mainly appeared at south inner shelf and north outer upwelling area, corresponding to the high mud, total organic carbon (TOC) and Chl a contents there. The composition, distribution pattern, combined with indexes of AHs, suggested no petroleum contamination and predominant biogenic sources in the ECS. The biogenic sources mainly were the mixed terrestrial higher plant, marine plankton and bacteria and aquatic macrophyte origins. Biotic source apportionment suggested that terrestrial higher plants were the dominant source of AHs, followed by marine planktons, with the lowest of submerged/floating macrophytes. Quantitative evaluation of R sources suggested that the Changjiang River input was the primary terrestrial contributor, accounting for 67.9% of total terrestrial input. The burial flux of R was 1.11 × 103 t/yr, with inner shelf and estuary as main accumulation areas. Although there was a huge amount of R influx from terrestrial and marine sources, only 9.8% could be preserved in sediments.

Genomic evidence for the degradation of terrestrial organic matter by pelagic Arctic Ocean Chloroflexi bacteria

The Arctic Ocean currently receives a large supply of global river discharge and terrestrial dissolved organic matter. Moreover, an increase in freshwater runoff and riverine transport of organic matter to the Arctic Ocean is a predicted consequence of thawing permafrost and increased precipitation. The fate of the terrestrial humic-rich organic material and its impact on the marine carbon cycle are largely unknown. Here, a metagenomic survey of the Canada Basin in the Western Arctic Ocean showed that pelagic Chloroflexi from the Arctic Ocean are replete with aromatic compound degradation genes, acquired in part by lateral transfer from terrestrial bacteria. Our results imply marine Chloroflexi have the capacity to use terrestrial organic matter and that their role in the carbon cycle may increase with the changing hydrological cycle.

Long-range-transported bioaerosols captured in snow cover on Mount Tateyama, Japan: impacts of Asian-dust events on airborne bacterial dynamics relating to ice-nucleation activities

Abstract. The westerly wind travelling at high altitudes over eastern Asia transports aerosols from the Asian deserts and urban areas to downwind areas such as Japan. These long-range-transported aerosols include not only mineral particles but also microbial particles (bioaerosols), that impact the ice-cloud formation processes as ice nuclei. However, the detailed relations of airborne bacterial dynamics to ice nucleation in high-elevation aerosols have not been investigated. Here, we used the aerosol particles captured in the snow cover at altitudes of 2450 m on Mt Tateyama to investigate sequential changes in the ice-nucleation activities and bacterial communities in aerosols and elucidate the relationships between the two processes. After stratification of the snow layers formed on the walls of a snow pit on Mt Tateyama, snow samples, including aerosol particles, were collected from 70 layers at the lower (winter accumulation) and upper (spring accumulation) parts of the snow wall. The aerosols recorded in the lower parts mainly came from Siberia (Russia), northern Asia and the Sea of Japan, whereas those in the upper parts showed an increase in Asian dust particles originating from the desert regions and industrial coasts of Asia. The snow samples exhibited high levels of ice nucleation corresponding to the increase in Asian dust particles. Amplicon sequencing analysis using 16S rRNA genes revealed that the bacterial communities in the snow samples predominately included plant associated and marine bacteria (phyla Proteobacteria) during winter, whereas during spring, when dust events arrived frequently, the majority were terrestrial bacteria of phyla Actinobacteria and Firmicutes. The relative abundances of Firmicutes (Bacilli) showed a significant positive relationship with the ice nucleation in snow samples. Presumably, Asian dust events change the airborne bacterial communities over Mt Tateyama and carry terrestrial bacterial populations, which possibly induce ice-nucleation activities, thereby indirectly impacting climate change.

Tetracycline resistance gene tet(M) of a marine bacterial strain is not accumulated in bivalves from seawater in clam tank experiment and mussel monitoring

Antibiotic resistance genes (ARGs) are found in marine as well as terrestrial bacteria. Bivalves are known to accumulate chemical pollutants and pathogenic microbes, however, the fate of ARGs in bivalves after the intake of ARG-possessing bacteria is not known. Here we show that the copy number of oxytetracycline resistance gene tet(M) increased rapidly in the clam digestive tract by filtering water, then remained constant over 96h in a tank experiment even with the addition of tet(M)-possessing bacteria every 24h. >99.9% of the added tet(M) was decomposed, reaching a balanced state. Environmental sampling of mussel digestive tract and seawater supported the hypothesis that tet(M) was decomposed in bivalves as tet(M) was present in seawater from April to October at a concentration of 10−5 to 10−6 copies/16S, whereas tet(M) in mussels was mostly below the detection limit. Two (April) and three (July and October) individual mussels were positive for tet(M) with a concentration equivalent to that of seawater. We therefore conclude that bivalves do not accumulate tet(M) from seawater.

The crystal structure of methanol dehydrogenase, a quinoprotein from the marine methylotrophic bacterium Methylophaga aminisulfidivorans MPT.

The first crystal structure of a pyrroloquinoline quinone (PQQ)-dependent methanol dehydrogenase (MDH) from a marine methylotrophic bacterium, Methylophaga aminisulfidivorans MPT (MDH Mas ), was determined at 1.7 Å resolution. The active form of MDH Mas (or MDHI Mas ) is a heterotetrameric α2β2, where each β-subunit assembles on one side of each of the α-subunits, in a symmetrical fashion, so that two β-subunits surround the two PQQ-binding pockets on the α-subunits. The active site consists of a PQQ molecule surrounded by a β-propeller fold for each α-subunit. Interestingly, the PQQ molecules are coordinated by a Mg2+ ion, instead of the Ca2+ ion that is commonly found in the terrestrial MDHI, indicating the efficiency of osmotic balance regulation in the high salt environment. The overall interaction of the β-subunits with the α-subunits appears tighter than that of terrestrial homologues, suggesting the efficient maintenance of MDHI Mas integrity in the sea water environment to provide a firm basis for complex formation with MxaJ Mas or Cyt cL. With the help of the features mentioned above, our research may enable the elucidation of the full molecular mechanism of methanol oxidation by taking advantage of marine bacterium-originated proteins in the methanol oxidizing system (mox), including MxaJ, as the attainment of these proteins from terrestrial bacteria for structural studies has not been successful.

Microbial Antibiotic Resistance and Heavy Metal Tolerance and their Implications and prospects with Environment

Most natural waterways include microorganisms, which are extensively dispersed across the natural world. Their diversity and abundance can serve as indicators of whether a body of water is suitable for fish, wildlife, or leisure and recreational uses. Hundreds of antimicrobial medicines have been produced for use in humans and animals since the discovery of penicillin in the late 1920s, significantly lowering the morbidity and mortality linked to a variety of infectious illnesses. Approximately half of the over one million tons of antibiotics that have been discharged into the biosphere in the past fifty years are thought to have entered through veterinary and agricultural systems the ongoing exposure of microbial populations to substances chosen for resistance strains, such as antibiotics, chemical compounds, heavy metals, and other agents. Bacteria that have adapted to the presence of heavy metals and evolved effective metal resistance mechanisms live in ecosystems that have been contaminated by dangerous quantities of heavy metals. Based on the degree of pollution, the frequency of plasmids differed from site to site, according to ecological research on the incidence of plasmids in natural populations of freshwater, marine, estuarine, and terrestrial bacteria.

Two new secondary metabolites from a mangrove-derived fungus Cladosporium sp. JJM22

Two new compounds (1 and 2), together with six known compounds (3–8), were obtained from the Cladosporium sp. JJM22, an endophytic fungus isolated from the stem bark of the mangrove plant Ceriops tagal collected in South China Sea. Their structures were elucidated on the basis of detailed spectroscopic analysis. The absolute configurations of 1 and 2 were confirmed by the comparison of optical rotation and the CD data with those of known compounds. The inhibitory activities of the isolated compounds against six terrestrial pathogenic bacteria and human cervical carcinoma Hela cell line were evaluated. Compound 3 exhibited a broad spectrum of antibacterial activities.

Impacts of Mesopotamian wetland re-flooding on the lipid biomarker distributions in sediments

Shallow sediment core samples from two locales in the Mesopotamian marshlands of Iraq were analyzed to characterize the extractable organic (lipid) compounds, and their sources and distributions after hydrological restoration by re-flooding of the marshes. Dried samples were extracted with a dichloromethane/methanol mixture before analysis by gas chromatography-mass spectrometry (GC–MS). The major compounds were n-alkanes, fatty acids and alcohols, steroids, terpenoids, hopanes, steranes, unresolved complex mixture (UCM), and plasticizers. The lipid compounds in Kurmashia (Al-Hammar marshes) were generally higher in concentration than in Abu Zirig (Central marshes), and decreased with core depths for both sites. This concentration decrease with core depth is attributed to transformation, biodegradation and variable input processes. The distribution patterns of the lipids in the sediment cores indicated that the Abu Zirig area was drier than Kurmashia before the re-flooding process. Furthermore, the concentration of the compounds in the surface sediment the Abu Zirig core was as high and similar to that in Kurmashia, reflecting the re-flooding impacts on the marsh and the revival of the wetland. The major sources of these lipids were from natural terrestrial vegetation (35–66% for Abu Zirig; 40–49% for Kurmashia), microbial (plankton) residues and bacteria (27–52% for Abu Zirig; 39–43% for Kurmashia), with a minor contribution from anthropogenic sources including plastic wastes and petroleum (6–13% for Abu Zirig; 9–18% for Kurmashia).

Dendrocoumarin: a new benzocoumarin derivative from the stem of Dendrobium nobile

A new benzocoumarin derivative, dendrocoumarin (1), along with itolide A were isolated from the stems of Dendrobium nobile. The structure of the new compound 1 elucidated on the basis of NMR and mass spectroscopic data. Compounds 1 and 2 showed broad spectrum antibacterial activity against five terrestrial pathogenic bacteria.