Microbes play key geoactive roles in the biosphere, particularly in the areas of element biotransformations and biogeochemical cycling, metal and mineral transformations, decomposition, bioweathering, and soil and sediment formation. All kinds of microbes, including prokaryotes and eukaryotes and their symbiotic associations with each other and 'higher organisms', can contribute actively to geological phenomena, and central to many such geomicrobial processes are transformations of metals and minerals. Microbes have a variety of properties that can effect changes in metal speciation, toxicity and mobility, as well as mineral formation or mineral dissolution or deterioration. Such mechanisms are important components of natural biogeochemical cycles for metals as well as associated elements in biomass, soil, rocks and minerals, e.g. sulfur and phosphorus, and metalloids, actinides and metal radionuclides. Apart from being important in natural biosphere processes, metal and mineral transformations can have beneficial or detrimental consequences in a human context. Bioremediation is the application of biological systems to the clean-up of organic and inorganic pollution, with bacteria and fungi being the most important organisms for reclamation, immobilization or detoxification of metallic and radionuclide pollutants. Some biominerals or metallic elements deposited by microbes have catalytic and other properties in nanoparticle, crystalline or colloidal forms, and these are relevant to the development of novel biomaterials for technological and antimicrobial purposes. On the negative side, metal and mineral transformations by microbes may result in spoilage and destruction of natural and synthetic materials, rock and mineral-based building materials (e.g. concrete), acid mine drainage and associated metal pollution, biocorrosion of metals, alloys and related substances, and adverse effects on radionuclide speciation, mobility and containment, all with immense social and economic consequences. The ubiquity and importance of microbes in biosphere processes make geomicrobiology one of the most important concepts within microbiology, and one requiring an interdisciplinary approach to define environmental and applied significance and underpin exploitation in biotechnology.

http://dzumenvis.nic.in/Physiology/pdf/Metals,%20minerals%20and%20microbes.pdf

Metals, minerals and microbes: geomicrobiology and bioremediation

Biosorption may be simply defined as the removal of substances from solution by biological material. Such substances can be organic and inorganic, and in gaseous, soluble or insoluble forms. Biosorption is a physico-chemical process and includes such mechanisms as absorption, adsorption, ion exchange, surface complexation and precipitation. Biosorption is a property of both living and dead organisms (and their components) and has been heralded as a promising biotechnology for pollutant removal from solution, and/or pollutant recovery, for a number of years, because of its efficiency, simplicity, analogous operation to conventional ion exchange technology, and availability of biomass. Most biosorption studies have carried out on microbial systems, chiefly bacteria, microalgae and fungi, and with toxic metals and radionuclides, including actinides like uranium and thorium. However, practically all biological material has an affinity for metal species and a considerable amount of other research exists with macroalgae (seaweeds) as well as plant and animal biomass, waste organic sludges, and many other wastes or derived bio-products. While most biosorption research concerns metals and related substances, including radionuclides, the term is now applied to particulates and all manner of organic substances as well. However, despite continuing dramatic increases in published research on biosorption, there has been little or no exploitation in an industrial context. This article critically reviews aspects of biosorption research regarding the benefits, disadvantages, and future potential of biosorption as an industrial process, the rationale, scope and scientific value of biosorption research, and the significance of biosorption in other waste treatment processes and in the environment. Copyright © 2008 Society of Chemical Industry

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Biosorption: critical review of scientific rationale, environmental importance and significance for pollution treatment

Recent records of environmental contamination noted a moderate decrease of SO2 pollution, whereas the burden of atmospheric heavy metals is still considerable. The present review refers to the entrapment, uptake, and accumulation of heavy metals by lichen thalli, made apparent by parameters of lichen vitality and stress. The particulate nature of airborne heavy metals is made evident by parameters referring to the entrapment of heavy-metal containing particles by lichen thalli. The mechanism of uptake of heavy metals, investigated by means of controlled experiments, refers to extracellular and intracellular uptake. The rate of absorption and the accumulation of heavy metals is dependent on morphological features of lichen thalli in addition to kind and intensity of emission sources and to nonanthropogenic factors such as climate and topography. The role of lichens as biomonitors is demonstrated by the case of lead. In contrast to data obtained by retrospective studies, using lichens as biomonitors of heav...

http://img2.tapuz.co.il/CommunaFiles/40529686.pdf

Biomonitoring Atmospheric Heavy Metals with Lichens: Theory and Application

Copper is both an essential micronutrient and a toxic heavy metal for most living cells. The presence of high concentrations of cupric ions in the environment promotes the selection of microorganisms possessing genetic determinants for copper resistance. Several examples of chromosomal and plasmid copper-resistance systems in bacteria have been reported, and the mechanisms of resistance have started to be understood at the molecular level. Bacterial mechanisms of copper resistance are related to reduced copper transport, enhanced effiux of cupric ions, or copper complexation by cell components. Copper tolerance in fungi has also been ascribed to diverse mechanisms involving trapping of the metal by cell-wall components, altered uptake of copper, extracellular chelation or precipitation by secreted metabolites, and intracellular complexing by metallothioneins and phytochelatins; only the metallothionein chelation mechanism has been approached with molecular detail.

Copper resistance mechanisms in bacteria and fungi

In the Earth’s lithosphere, fungi are of fundamental importance as decomposer organisms, animal and plant pathogens and symbionts (e.g. lichens and mycorrhizas), being ubiquitous in sub-aerial and subsoil environments. The ability of fungi to interact with minerals, metals, metalloids and organic compounds through biomechanical and biochemical processes, makes them ideally suited as biological weathering agents of rock and building stone. They also play a fundamental role in biogeochemical cycling of nutrients, (e.g. C, N, P and S) and metals (e.g. Na, Mg, Ca, Mn, Fe, Cu, Zn, Co and Ni) essential for the growth of living organisms in the biosphere. In addition they play an integral role in the mobilization and immobilization of non-essential metals (e.g. Cs, Al, Cd, Hg and Pb). Most studies on mineral-microbe interactions and microbial involvement in geological processes have concentrated on bacteria and archaea (Prokaryota): fungi (Eukaryota) have, to a certain extent, been neglected. This article addresses the role of fungi in geomicrobiological processes, emphasizing their deteriorative potential on rock, building stone and mineral surfaces and involvement in the formation of secondary mycogenic minerals. Such roles of fungi are also of importance for the global carbon reservoir and have potential biotechnological applications, e.g. in the bioremediation of xenobiotic-, metal- and/or radionuclide-contaminated soils and wastes, and metal/radionuclide recovery.

Fungal involvement in bioweathering and biotransformation of rocks and minerals

Many papers have reported the uptake and translocation of toxic metals and radionuclides to fruit bodies of edible fungi and also to mycelia biomass. Our aim is to study how to reduce the metal phytotoxicity by mychorrizal fungi pointing at land reclamation and at the detoxification of metal/radionuclides-containing industrial effluents.

Different Interactions of Fungi with Toxic Metals

Fusarium lateritium is a globally distributed plant pathogen. It was recently reported as the causal agent of nut gray necrosis (NGN) on hazelnut. Isolate characterization within F. lateritium was undertaken to investigate how morphological and molecular diversity was associated with host and geographic origin. Morphological studies combined with inter-simple-sequence repeat (ISSR) analysis, and phylogenetic analyses using translation elongation factor 1α (TEF-1α), β-tubulin genes, and nuclear ribosomal DNA internal transcribed spacer (ITS) sequences were conducted to resolve relationships among 32 F. lateritium isolates from NGN-affected hazelnut fruit, and 14 from other substrates or 8 from other hosts than hazelnut. Colonies of F. lateritium from hazelnut showed dark grayish-olive differing from the orange-yellow color of all other isolates from other hosts. Generally, isolates from NGN-affected fruit failed to produce sporodochia on carnation leaf agar. The influence of host and substrate on the genetic structure of F. lateritium was supported by ISSR and analyzed with principal coordinates analysis. A relationship between hazelnut and genetic variation was inferred. Phylogenetic analysis of ITS provided limited resolution while TEF-1α and β-tubulin analyses allowed a clear separation between the European and non-European F. lateritium isolates retrieved from GenBank, regardless of host. Though morphological traits of F. lateritium isolates from hazelnut were generally uniform in defining a typical morphogroup, they were not yet phylogenetically defined. In contrast, the typology related to slimy deep orange cultures, due to spore mass, grouped clearly separated from the other F. lateritium isolates and revealed a congruence between morphology and phylogeny.

https://apsjournals.apsnet.org/doi/pdf/10.1094/PHYTO-04-10-0120

Morphological and molecular analysis of Fusarium lateritium, the cause of gray necrosis of hazelnut fruit in Italy.

A reliable and species-specific real-time quantitative polymerase chain reaction (qPCR) assay was developed for detection of the complex soilborne anamorphic fungus Fusarium oxysporum. The...

https://apsjournals.apsnet.org/doi/pdf/10.1094/PHYTO-11-12-0293-R

A newly developed real-time PCR assay for detection and quantification of Fusarium oxysporum and its use in compatible and incompatible interactions with grafted melon genotypes.

Fusarium oxysporum f. sp. melonis Snyd. & Hans. (FOM) causes Fusarium wilt, the most important infectious disease of melon (Cucumis melo L.). The four known races of this pathogen can be distinguished only by infection on appropriate cultivars. No molecular tools are available that can discriminate among the races, and the molecular basis of compatibility and disease progression are poorly understood. Resistance to races 1 and 2 is controlled by a single dominant gene, whereas only partial polygenic resistance to race 1,2 has been described. We carried out a large-scale cDNA-AFLP analysis to identify host genes potentially related to resistance and susceptibility as well as fungal genes associated with the infection process. At the same time, a systematic reisolation procedure on infected stems allowed us to monitor fungal colonization in compatible and incompatible host-pathogen combinations. Melon plants (cv. Charentais Fom-2), which are susceptible to race 1,2 and resistant to race 1, were artificially infected with a race 1 strain of FOM or one of two race 1,2 w strains. Host colonization of stems was assessed at 1, 2, 4, 8, 14, 16, 18 and 21 days post inoculation (dpi), and the fungus was reisolated from infected plants. Markedly different colonization patterns were observed in compatible and incompatible host-pathogen combinations. Five time points from the symptomless early stage (2 dpi) to obvious wilting symptoms (21 dpi) were considered for cDNA-AFLP analysis. After successful sequencing of 627 transcript-derived fragments (TDFs) differentially expressed in infected plants, homology searching retrieved 305 melon transcripts, 195 FOM transcripts expressed in planta and 127 orphan TDFs. RNA samples from FOM colonies of the three strains grown in vitro were also included in the analysis to facilitate the detection of in planta-specific transcripts and to identify TDFs differentially expressed among races/strains. Our data suggest that resistance against FOM in melon involves only limited transcriptional changes, and that wilting symptoms could derive, at least partially, from an active plant response. We discuss the pathogen-derived transcripts expressed in planta during the infection process and potentially related to virulence functions, as well as transcripts that are differentially expressed between the two FOM races grown in vitro. These transcripts provide candidate sequences that can be further tested for their ability to distinguish between races. Sequence data from this article have been deposited in GenBank, Accession Numbers: HO867279-HO867981.

/pdf/distinct-colonization-patterns-and-cdna-aflp-transcriptome-35pncml6iy.pdf

Distinct colonization patterns and cDNA-AFLP transcriptome profiles in compatible and incompatible interactions between melon and different races of Fusarium oxysporum f. sp. melonis

Kiwifruit is a very important commercial crop in Italy, the most important producer of the fruit worldwide, followed by China and New Zealand. The relatively rapid expansion of the area given over to kiwifruit has resulted in the spread of various diseases including those developing post-harvest. Stored kiwifruit showing post-harvest symptoms of inner rot with disorganized, soft and lighter green tissues, known as stem end rot, were investigated. Phomopsis isolates recovered from symptomatic tissues were examined morphologically, by DNA sequencing and pathogenicity tests, but could not be identified at the species level. Nevertheless, as reported for Diaporthe actinidiae, they were able to induce a soft rot decay that was artificially reproduced only on wound-inoculated fruit. ITS sequences had 98 to 100% identity with Phomopsis spp. from grapevine (N6), Rosa sp., blueberry (P. vaccinii) and Norway spruce (Diaporthe conorum), but were clearly distinct from D. actinidiae. These results call for extreme caution in fruit handling, as they suggest that only wounded fruits are susceptible to infection by this Phomopsis sp.

L. Luongo

Papers

Different Interactions of Fungi with Toxic Metals

Morphological and molecular analysis of Fusarium lateritium, the cause of gray necrosis of hazelnut fruit in Italy.

A newly developed real-time PCR assay for detection and quantification of Fusarium oxysporum and its use in compatible and incompatible interactions with grafted melon genotypes.

Distinct colonization patterns and cDNA-AFLP transcriptome profiles in compatible and incompatible interactions between melon and different races of Fusarium oxysporum f. sp. melonis

PHOMOPSIS sp. ASSOCIATED WITH POST-HARVEST FRUIT ROT OF KIWIFRUIT IN ITALY