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Adult parasitoids are well known to feed on sugar-rich resources such as floral nectar. Recently, an increasing body of evidence has shown that nectar is ubiquitously colonized by microorganisms and, as a consequence, microbial metabolic activity can affect several traits of floral nectar. Yet, how the fermentation of nectar by yeasts impacts the olfactory responses and performance of parasitoids is largely understudied, especially in the case of egg parasitoids. In this study, we investigated whether fermentation by the nectar yeasts Metschnikowia gruessii and M. reukaufii affects the olfactory responses of Trissolcus basalis and Ooencyrtus telenomicida, two egg parasitoid species associated with the southern green stink bug Nezara viridula. We also investigated how yeast fermentation affects the longevity and survival of the egg parasitoids. Results of static four-chamber olfactometer tests showed that nectar fermented by M. gruessii (but not by M. reukaufii) was attractive to both egg parasitoid species, whereas no significant yeast-mediated effects were found in terms of wasp longevity. Gas chromatography coupled with mass spectrometry (GC-MS) showed a clear separation of the volatile profiles among M. gruessii, M. reukaufii and non-fermented control nectar supporting the results of the insect bioassays. The results of our study highlight the need to consider the role of microbes when studying interactions between flower nectar and egg parasitoids and could have implications from a conservation biological control perspective. [ABSTRACT FROM AUTHOR]

Aims: Plant-beneficial fungi play an important role in enhancing plant growth and protecting plants from biotic and abiotic stresses. However, context-dependency of such effects and differences among fungi often lead to inconsistent results that hamper their widespread use. Here, we investigated the effect of plant-beneficial fungi on plant growth and herbivore resistance, and how effects are mediated by fertilization. Methods: Sweet pepper (Capsicum annuum L.) plants were root-inoculated with the plant-beneficial fungi Beauveria bassiana ARSEF 3097 and Trichoderma harzianum T22 and grown in a low-nutrient potting mix, with or without additional nutrients. Plant growth and herbivore resistance against the southern green stink bug (Nezara viridula L.) were compared between fungal treatments and fertilization levels by measuring several growth traits and quantifying feeding damage and plant defense-related gene expression. Results: Fertilization significantly increased plant growth, but at the same time made plants more susceptible to herbivory. Irrespective of fertilization, T. harzianum stimulated growth and reduced feeding damage (number of leaf punctures), while B. bassiana only enhanced growth. For both strains, fungal inoculation generally increased the expression of marker genes involved in salicylic acid- and jasmonic acid-dependent defense responses upon herbivory, but this was less pronounced for salicylic acid-dependent defense signaling under fertilization. Conclusions: We conclude that fungal inoculation improved plant growth and generally elicited a stronger defense response to stink bug feeding. Accordingly, plant damage was reduced by T. harzianum. Overall these results show that plant-beneficial fungi have the potential to promote plant growth and reduce feeding damage, irrespective of fertilization. [ABSTRACT FROM AUTHOR]

Biological control using natural enemies such as predatory insects and parasitoids has become an important alternative way of pest management and represents a crucial component in Integrated Pest Management (IPM). Although parasitoids are commonly used as biocontrol agents, their efficacy is not always sufficient to reduce pest populations to acceptable densities. Given that parasitoids can be attracted towards plants inoculated with entomopathogenic fungi, a combination of endophytic entomopathogenic fungi and parasitoids may lead to enhanced biocontrol efficacy, but information in this regard is scarce. Here, we used sweet pepper (Capsicum annuum L.), the entomopathogenic fungus Akanthomyces muscarius ARSEF 5128, the tobacco peach aphid Myzus persicae var. nicotianae and the aphid parasitoid Aphidius ervi to assess whether root inoculation with an entomopathogenic fungus has the potential to increase the biocontrol efficacy of an arthropod biological control agent. Results obtained over a five-weeks period revealed that a combination of the fungus and the parasitoid significantly improved biocontrol efficacy compared to the separate applications of the biocontrol agents, specifically by enhancing short-term parasitoid effectiveness. In greenhouse cages with A. muscarius and A. ervi, the aphid population was not able to produce progeny, and aphids were parasitized fast and efficiently. In cages with control plants and A. ervi, parasitism efficiency was significantly lower and the aphid population was able to increase by several generations. In these cages, the parasitoids could effectively control the aphid infestation after repeated parasitoid releases. We conclude that fungal inoculation improved parasitoid biocontrol efficacy, providing new opportunities for pest control. [ABSTRACT FROM AUTHOR]

Aims: Plant-beneficial fungi are non-pathogenic fungi that provide a variety of benefits to crops, including improved nutrition and increased resistance against biotic and abiotic stresses. However, to what extent these beneficial effects depend on fungal strain or host cultivar is not well known. Methods: In this study, we investigated the effects of different species of plant-beneficial fungi on plant nutrient composition and resistance against zoophytophagous predators, and assessed whether effects are mediated by plant cultivar. We evaluated how seed inoculation of three tomato (Solanum lycopersicum L.) cultivars (Micro-Tom, Moneymaker and Pearson) with three fungi (Beauveria bassiana ARSEF 3097, Metarhizium brunneum ARSEF 1095 and Trichoderma harzianum T22) affected the leaf sap nutrient composition and feeding damage (number of necrotic rings) and mortality rate of Nesidiocoris tenuis. Results: Plant nutrient composition was mainly determined by cultivar, but was also affected by fungal treatment. Significantly less necrotic rings were formed in fungus-inoculated plants compared to control plants. However, out of the nine cultivar-fungus combinations tested only the combination of Micro-Tom and B. bassiana showed less feeding damage by N. tenuis along with increased insect mortality. Conclusions: We conclude that plant-beneficial fungi affect plant nutrient composition, but this has little effect on plant defense against N. tenuis, suggesting that differences in insect damage are most likely not mediated by changes in nutrient composition. Moreover, effects depended largely on the cultivar and fungal strain used, indicating that generalizations based on single strain or cultivar studies should be made with caution. [ABSTRACT FROM AUTHOR]

The floral nectar of angiosperms harbors a variety of microorganisms that depend predominantly on animal visitors for their dispersal. Although some members of the genus Acinetobacter and all currently known species of Rosenbergiella are thought to be adapted to thrive in nectar, there is limited information about the response of these bacteria to variation in the chemical characteristics of floral nectar. We investigated the growth performance of a diverse collection of Acinetobacter (n = 43) and Rosenbergiella (n = 45) isolates obtained from floral nectar and the digestive tract of flower-visiting bees in a set of 12 artificial nectars differing in sugar content (15% w/v or 50% w/v), nitrogen content (3.48/1.67 ppm or 348/167 ppm of total nitrogen/amino nitrogen), and sugar composition (only sucrose, 1/3 sucrose + 1/3 glucose + 1/3 fructose, or 1/2 glucose + 1/2 fructose). Growth was only observed in four of the 12 artificial nectars. Those containing elevated sugar concentration (50% w/v) and low nitrogen content (3.48/1.67 ppm) were limiting for bacterial growth. Furthermore, phylogenetic analyses revealed that the ability of the bacteria to grow in different types of nectar is highly conserved between closely related isolates and genotypes, but this conservatism rapidly vanishes deeper in phylogeny. Overall, these results demonstrate that the ability of Acinetobacter spp. and Rosenbergiella spp. to grow in floral nectar largely depends on nectar chemistry and bacterial phylogeny. [ABSTRACT FROM AUTHOR]

Floral nectar is ubiquitously colonized by a variety of microorganisms among which yeasts and bacteria are the most common. Microorganisms inhabiting floral nectar can alter several nectar traits, including nectar odor by producing microbial volatile organic compounds (mVOCs). Evidence showing that mVOCs can affect the foraging behavior of insect pollinators is increasing in the literature, whereas the role of mVOCs in altering the foraging behavior of third-trophic level organisms such as insect parasitoids is largely overlooked. Parasitoids are frequent visitors of flowers and are well known to feed on nectar. In this study, we isolated bacteria inhabiting floral nectar of buckwheat, Fagopyrum esculentum (Polygonales: Polygonaceae), to test the hypothesis that nectar bacteria affect the foraging behavior of the egg parasitoid Trissolcus basalis (Hymenoptera: Scelionidae) via changes in odors of nectar. In behavioral assays, we found that T. basalis wasps are attracted toward nectar fermented by 4 out of the 14 bacterial strains isolated, which belong to Staphylococcus epidermidis, Terrabacillus saccharophilus (both Firmicutes), Pantoea sp. (Proteobacteria), and Curtobacterium sp. (Actinobacteria). Results of chemical investigations revealed significant differences in the volatile blend composition of nectars fermented by the bacterial isolates. Our results indicate that nectar-inhabiting bacteria play an important role in the interactions between flowering plants and foraging parasitoids. These results are also relevant from an applied perspective as flowering resources, such as buckwheat, are largely used in agriculture to promote conservation biological control of insect pests. [ABSTRACT FROM AUTHOR]

There is increasing evidence that microorganisms, particularly fungi and bacteria, emit volatile compounds that mediate the foraging behaviour of insects and therefore have the potential to affect key ecological relationships. However, to what extent microbial volatiles affect the olfactory response of insects across different trophic levels remains unclear. Adult parasitoids use a variety of chemical stimuli to locate potential hosts, including those emitted by the host's habitat, the host itself, and microorganisms associated with the host. Given the great capacity of parasitoids to utilize and learn odours to increase foraging success, parasitoids of eggs, larvae, or pupae may respond to the same volatiles the adult stage of their hosts use when locating their resources, but compelling evidence is still scarce. In this study, using Saccharomyces cerevisiae we show that Trichopria drosophilae, a pupal parasitoid of Drosophila species, is attracted to the same yeast volatiles as their hosts in the adult stage, i.e. acetate esters. Parasitoids significantly preferred the odour of S. cerevisiae over the blank medium in a Y-tube olfactometer. Deletion of the yeast ATF1 gene, encoding a key acetate ester synthase, decreased attraction of T. drosophilae, while the addition of synthetic acetate esters to the fermentation medium restored parasitoid attraction. Bioassays with individual compounds revealed that the esters alone were not as attractive as the volatile blend of S. cerevisiae, suggesting that other volatile compounds also contribute to the attraction of T. drosophilae. Altogether, our results indicate that pupal parasitoids respond to the same volatiles as the adult stage of their hosts, which may aid them in locating oviposition sites. [ABSTRACT FROM AUTHOR]

Aims: Arbuscular Mycorrhizal Fungi (AMF) are ubiquitous soil microorganisms playing a vital role in the functioning of agricultural ecosystems. Although AMF are generally considered to have a low host specificity, it has been suggested that modern plant breeding has selected crop genotypes that are more selectively associated with AMF, possibly resulting in modern high yielding varieties (HYV) having a lower AMF diversity than traditional crop varieties. Whether this is true for paddy rice varieties under field conditions is not known so far. Here, we aimed at comparing differences of AMF communities among modern HYV and traditional rice varieties. Methods: We collected root and soil samples of five Bangladeshi rice varieties (two traditional and three modern HYV) from 40 different rice fields and quantified AMF richness, diversity and community composition through high throughput amplicon sequencing of the small subunit (SSU) of the ribosomal RNA cistron. Results: Overall, 75 AMF OTUs, distributed over six AMF families with Glomeraceae as predominant family were found. After accounting for differences in soil conditions, we found that AMF diversity significantly differed among the five varieties and was higher in the traditional than modern varieties. The composition and structure of the AMF communities were distinct between the traditional and modern varieties. An indicator species analysis detected 9 OTUs significantly associated with traditional rice varieties, whereas no indicator OTUs were found for the modern HYV. Conclusions: We conclude that modern breeding coupled with high fertilizer application rates provide a plausible explanation for the reduced AMF diversity and the different AMF community composition between Bangladeshi modern HYV and traditional varieties. [ABSTRACT FROM AUTHOR]

Floral nectar is commonly colonized by yeasts and bacteria, whose growth largely depends on their capacity to assimilate nutrient resources, withstand high osmotic pressures, and cope with unbalanced carbon-to-nitrogen ratios. Although the basis of the ecological success of these microbes in the harsh environment of nectar is still poorly understood, it is reasonable to assume that they are efficient nitrogen scavengers that can consume a wide range of nitrogen sources in nectar. Furthermore, it can be hypothesized that phylogenetically closely related strains have more similar phenotypic characteristics than distant relatives. We tested these hypotheses by investigating the growth performance on different nitrogen-rich substrates of a collection of 82 acinetobacters isolated from nectar and honeybees, representing members of five species (Acinetobacter nectaris, A. boissieri, A. apis, and the recently described taxa A. bareti and A. pollinis). We also analyzed possible links between growth performance and phylogenetic affiliation of the isolates, while taking into account their geographical origin. Results demonstrated that the studied isolates could utilize a wide variety of nitrogen sources, including common metabolic by-products of yeasts (e.g., ammonium and urea), and that phylogenetic relatedness was associated with the variation in nitrogen assimilation among the studied acinetobacters. Finally, nutrient source and the origin (sample type and country) of isolates also predicted the ability of the acinetobacters to assimilate nitrogen-rich compounds. Overall, these results demonstrate inter-clade variation in the potential of the acinetobacters as nitrogen scavengers and suggest that nutritional dependences might influence interactions between bacteria and yeasts in floral nectar. [ABSTRACT FROM AUTHOR]

Aphid parasitoids are commonly used in the biological control of aphids. However, their success in biological control largely depends on the availability of carbohydrate-rich food as an energy source for maintenance and reproduction. Therefore, as these resources have become rare in modern agricultural systems, external sugar sources like flowering plants or artificial sugar solutions are more and more used to provide the biocontrol agents with the necessary sugars. When developing such artificial food sources, it is essential to carefully select the sugars that best support the target parasitoids without benefiting non-target insects, such as pest insects or hyperparasitoids. Here, we investigated the gustatory response and longevity of two commonly used aphid parasitoids ( Aphidius colemani and Aphidius matricariae) and their hyperparasitoid Dendrocerus aphidum when provided with one of eight plant- and/or insect-derived sugars (fructose, galactose, glucose, melibiose, melezitose, rhamnose, sucrose and trehalose). Our results showed that the studied insect species consumed the largest amounts of sugars that are most commonly found in honeydew (sucrose, fructose, glucose and melezitose) and also survived best when feeding on these sugars. Both Aphidius spp. survived well on melibiose, whereas D. aphidum performed poorly on this sugar. When melibiose was offered in a mixture with glucose, a significant reduction in longevity was observed for D. aphidum when compared to glucose only, while this was less pronounced for Aphidius spp. This knowledge can be exploited in tailoring food sources to selectively support Aphidius parasitoids, enhancing the biological control of aphids. [ABSTRACT FROM AUTHOR]

A common belief is that the phylogeny of bacteria may reflect molecular functions and phenotypic characteristics, pointing towards phylogenetic conservatism of traits. Here, we tested this hypothesis for a large set of Acinetobacter strains. Members of the genus Acinetobacter are widespread in nature, demonstrate a high metabolic diversity and are resistant to several environmental stressors. Notably, some species are known to cause opportunistic human infections. A total of 133 strains belonging to 33 species with validly published names, two genomic species and species of an as-yet unknown taxonomic status were analyzed using the GENIII technology of Biolog, which allows high-throughput phenotyping. We estimated the strength and significance of the phylogenetic signal of each trait across phylogenetic reconstructions based on partial RNA polymerase subunit B ( rpoB) and core genome sequences. Secondly, we tested whether phylogenetic distance was a good predictor of trait differentiation by Mantel test analysis. And finally, evolutionary model fitting was used to determine if the data for each phenotypic character was consistent with a phylogenetic or an essentially random model of trait distribution. Our data revealed that some key phenotypic traits related to substrate assimilation and chemical sensitivity are linked to the phylogenetic placement of Acinetobacter species. The strongest phylogenetic signals found were for utilization of different carbon sources such as some organic acids, amino acids and sugars, thus suggesting that in the diversification of Acinetobacter carbon source assimilation has had a relevant role. Future work should be aimed to clarify how such traits have shaped the remarkable ability of this bacterial group to dominate in a wide variety of habitats. [ABSTRACT FROM AUTHOR]

Pesticides have become an inseparable element of agricultural intensification. While the direct impact of pesticides on non-target organisms, such as pollinators, has recently received much attention, less consideration has been given to the microorganisms that are associated with them. Specialist yeasts and bacteria are known to commonly inhabit floral nectar and change its chemical characteristics in numerous ways, possibly influencing pollinator attraction. In this study, we investigated the in vitro susceptibility of nectar yeasts Metschnikowia gruessi, Metschnikowia reukaufii, and Candida bombi to six widely used agricultural fungicides (prothioconazole, tebuconazole, azoxystrobin, fenamidone, boscalid, and fluopyram). Next, a commercial antifungal mixture containing tebuconazole and trifloxystrobin was applied to natural populations of the plant Linaria vulgaris and the occurrence, abundance, and diversity of nectar-inhabiting yeasts and bacteria was compared between treated and untreated plants. The results showed that prothioconazole and tebuconazole were highly toxic to nectar yeasts, inhibiting their growth at concentrations varying between 0.06 and 0.5 mg/L. Azoxystrobin, fenamidone, boscalid, and fluopyram on the other hand exhibited considerably lower toxicity, inhibiting yeast growth at concentrations between 1 and 32 mg/L or in many cases not inhibiting microbial growth at all. The application of the antifungal mixture in natural plant populations resulted in a significant decrease in the occurrence and abundance of yeasts in individual flowers, but this did not translate into noticeable changes in bacterial incidence and abundance. Yeast and bacterial species richness and distribution did not also differ between treated and untreated plants. We conclude that the application of fungicides may have negative effects on the abundance of nectar yeasts in floral nectar. The consequences of these effects on plant pollination processes in agricultural systems warrant further investigation. [ABSTRACT FROM AUTHOR]

To meet their carbohydrate requirements, adult parasitoids exploit a broad range of sugar resources, including floral and extrafloral nectar and honeydew. Although honeydew might be the predominant sugar source, especially in agricultural systems, it often is nutritionally inferior to sugar sources like nectar. Given its broad availability, it may be expected that sugar-feeding insects have evolved specialized adaptations to deal with this typically inferior sugar source. This would apply especially to organisms that have a close association with honeydew producers. Here, we hypothesized that parasitoids of honeydew-producing insects should show a pronounced response to sugars, such as fructose, sucrose, melezitose, and trehalose, and to a lesser extent glucose. To test this hypothesis, we investigated sugar consumption, feeding behavior and survival of the aphid parasitoid Aphidius ervi on several sugars (equiweight solutions). Our results show that A. ervi adults consumed typical honeydew sugars (sucrose, fructose, trehalose, and melezitose) the most, while consuming considerably less glucose or melibiose. Rhamnose, which does not occur in aphid honeydew, was not, or was only marginally, consumed. When different sugars were provided at the same time, A. ervi adults preferred sucrose or fructose over glucose or melezitose. Furthermore, pre-exposure to sucrose or fructose significantly reduced subsequent intake of glucose, suggesting an acquired distaste for glucose after being previously exposed to highly preferred sugars such as sucrose and fructose. Altogether, this study shows that A. ervi adults prefer sugars (fructose, melezitose, trehalose, and sucrose) that are overrepresented in aphid honeydew and show a lower preference to one (glucose) that is underrepresented in honeydew. [ABSTRACT FROM AUTHOR]

Comparative analyses of bacterial and archaeal community structures and dynamics in three biogas digesters during start-up and subsequent operation using microwaved, ultrasonicated or untreated waste activated sludge were performed based on 454 pyrosequencing datasets of part of 16S ribosomal RNA sequences and quantitative PCR. The pre-treatment increased the solubility, and thus the availability of the substrate for microbial degradation and significantly affected the succession of the anaerobic community structure over the course of the digestion. Bacteroidetes, Proteobacteria and Firmicutes were the dominant phyla in all digesters throughout operation. Proteobacteria decreased in relative abundance from 23-26 % to 11-13 % in association with enhanced substrate availability. Negative correlations between relative abundance of Alpha-, Beta- and Gammaproteobacteria and the substrate availability and/or biogas production were disclosed in statistical analyses. Clostridiales was the dominant order in Firmicutes, and Clostridiales, Clostridia and Firmicutes relative abundance and richness were shown to positively correlate with substrate availability and biogas generation. Methanogenic communities had a fairly restricted structure, highly dominated by Methanosaeta and Methanobrevibacter phylotypes. A gradual decline in Methanobrevibacter and increased representation of Methanosaeta concilii over time were particularly apparent in the digester receiving untreated waste activated sludge, whereas more diversified archaeal communities were maintained in the pre-treatment digesters. The quantitative PCR analyses revealed a methanogenic community distribution that coincided with the 454 pyrosequencing data. [ABSTRACT FROM AUTHOR]

Arbuscular mycorrhizal fungi are root symbionts that play a key role in crop growth. A systematic quantitative analysis of the response of crops to arbuscular mycorrhizal inoculation, however, remains to be done. Additionally, little is known regarding the role of mycorrhizal specificity and the diversity of the inoculum on crop growth. Therefore, we collected data from 115 inoculation studies, including 435 experiments. We then used meta-analysis to examine the effect of crop identity, arbuscular mycorrhizal fungus identity, and mycorrhizal diversity on crop biomass increase, following inoculation. Our results show that total crop biomass was on average 34.9 % higher in inoculated versus non-inoculated plants. We found that specific combinations of arbuscular mycorrhizal fungus genera and host plant families were more beneficial for growth promotion as compared to other combinations. Moreover, a single-species inoculum increased crop growth response on average by 41.2 % compared to a multi-species inoculum. Overall, our findings show that a broad range of crops highly benefit from the inoculation with arbuscular mycorrhizal fungi. They also strongly suggest that selecting specific arbuscular mycorrhizal taxa for specific crops is the most promising approach to enhance crop growth. There is no 'one-size-fits-all' arbuscular mycorrhizal fungus. Finally, and at least in stable and controlled environments, inoculation with a single arbuscular mycorrhizal species is more effective, compared to inoculation with a mixture of different arbuscular mycorrhizal taxa. This may be explained by fungi superior in extraradical growth, but less beneficial to the host, that outcompete the more mutualistic fungi. Therefore, it may be beneficial to maintain a high dominance of one beneficial arbuscular mycorrhizal taxon in simplified agricultural systems. [ABSTRACT FROM AUTHOR]

Aims: Arbuscular mycorrhizal fungi (AMF) play a key role in the functioning of agricultural ecosystems. Therefore, understanding how the application of fertilizers, a common management practice, affects AMF communities is of major importance. Here we aimed to: (i) experimentally test whether different amounts and forms of phosphorus (P) fertilizer affect AMF diversity and community composition associated with the roots of apple trees ( Malus domestica); (ii) identify differences in tolerance to P fertilization between AMF taxa. Methods: We used 454-pyrosequencing of the small subunit rRNA gene amplicons to quantify AMF diversity and community composition in root samples obtained from a three year field experiment, with two inorganic, three slow-release P fertilization and one control treatment. Results: The slow-release fertilizer treatments showed significantly higher AMF richness and differed in community composition compared to the inorganic fertilizer treatments. The distribution of AMF OTUs showed a significantly nested pattern. Additionally, AMF communities in the inorganic fertilizer treatments were a subset of the communities in the slow-release fertilizer treatments. Conclusions: We demonstrate that application of slow-release fertilizers promoted AMF diversity in the roots of cultivated apple trees in comparison to the other treatments. The application of inorganic fertilizers elevated levels of plant-available P in the soil and selected only a small subset of abundant AMF, resulting in a lower AMF diversity. This may result in AMF communities dominated by inferior AMF mutualists. [ABSTRACT FROM AUTHOR]

Arabica coffee is a major agricultural commodity worldwide, representing 60 % of the world's coffee production. Arabica coffee is cultivated in more than 36 countries and is a key cash crop for many developing countries. Despite the coffee's huge economic importance, there is very limited knowledge on the association of arbuscular mycorrhizal fungi with coffee roots. Therefore, we assessed the mycorrhizal diversity and community composition in Arabica coffee ( Coffea arabica L.), using 454 pyrosequencing, in its Ethiopian center of origin. We studied the five most common coffee management systems in Ethiopia. Using pyrosequencing, we retrieved 10,061 mycorrhizae sequences across 30 samples, generating 36 operational taxonomic units from the four mycorrhizae orders: Glomerales, Diversisporales, Archaeosporales, and Paraglomerales; and eight families. Our results show that mycorrhizal diversity strongly differed between natural forest coffee systems and the other management systems. Furthermore, 13 operational taxonomic units were uniquely found in natural forest coffee. Finally, the mycorrhizal community composition in shade coffee plantations was different from the community composition in the other managed systems and the natural forest coffee systems. This is the first in depth study of mycorrhizal communities in wild coffee in its Ethiopian region of origin. Furthermore, we show for the first time the major differences in mycorrhizal communities in coffee between natural coffee forest and more intensively managed coffee systems. We, therefore, provide evidence of the conservation value of natural coffee forest systems as they harbor a unique mycorrhizal diversity, with possible future applications in low input coffee agriculture. [ABSTRACT FROM AUTHOR]

Saccharomyces cerevisiae is the organism of choice for many food and beverage fermentations because it thrives in high-sugar and high-ethanol conditions. However, the conditions encountered in bioethanol fermentation pose specific challenges, including extremely high sugar and ethanol concentrations, high temperature, and the presence of specific toxic compounds. It is generally considered that exploring the natural biodiversity of Saccharomyces strains may be an interesting route to find superior bioethanol strains and may also improve our understanding of the challenges faced by yeast cells during bioethanol fermentation. In this study, we phenotypically evaluated a large collection of diverse Saccharomyces strains on six selective traits relevant for bioethanol production with increasing stress intensity. Our results demonstrate a remarkably large phenotypic diversity among different Saccharomyces species and among S. cerevisiae strains from different origins. Currently applied bioethanol strains showed a high tolerance to many of these relevant traits, but several other natural and industrial S. cerevisiae strains outcompeted the bioethanol strains for specific traits. These multitolerant strains performed well in fermentation experiments mimicking industrial bioethanol production. Together, our results illustrate the potential of phenotyping the natural biodiversity of yeasts to find superior industrial strains that may be used in bioethanol production or can be used as a basis for further strain improvement through genetic engineering, experimental evolution, or breeding. Additionally, our study provides a basis for new insights into the relationships between tolerance to different stressors. [ABSTRACT FROM AUTHOR]

Anaerobic reductive dechlorination of hexachlorobenzene (HCB) and three isomers of tetrachlorobenzene (TeCB) (1,2,3,4-, 1,2,3,5- and 1,2,4,5-TeCB) was investigated in microcosms containing chloroaromatic contaminated river sediment. All chlorobenzenes were dechlorinated to dichlorobenzene (DCB) or monochlorobenzene. From the sediment, a methanogenic sediment-free culture was obtained which dechlorinated HCB, pentachlorobenzene, three TeCB isomers, three trichlorobenzene (TCB) isomers (1,2,3-, 1,2,4- and 1,3,5-TCB) and 1,2-DCB. Dechlorination involved multiple pathways including the removal of doubly flanked, singly flanked and isolated chlorine substituents. 454-pyrosequencing of partial bacterial 16S rRNA genes amplified from selected chlorobenzene dechlorinating sediment-free enrichment cultures revealed the presence of a variety of bacterial species, including Dehalobacter and Dehalococcoides mccartyi, that were previously documented as organohalide respiring bacteria. A genus with apparent close relationship to Desulfitobacterium that also has been associated with organohalide respiration, composed the major fraction of the operational taxonomic units (OTUs). Another major OTU was linked with Sedimentibacter sp., a genus that was previously identified in strict co-cultures of consortia reductively dehalogenating chlorinated compounds. Our data point towards the existence of multiple interactions within highly chlorinated benzene dechlorinating communities. [ABSTRACT FROM AUTHOR]

Despite the use of generally accepted good storage practices, sugar thick juice degradation caused by microbiological contamination occasionally occurs, causing considerable financial loss. In this study, a DNA array was developed for simultaneous detection and identification of the most prominent microflora present during thick juice storage, which may cause degradation of the thick juice. Specific oligonucleotides were developed for several bacterial taxa, including the genera Bacillus, Kocuria, Staphylococcus and Tetragenococcus and the species Aerococcus viridans, Leuconostoc mesenteroides and Tetragenococcus halophilus. The DNA array was validated using both pure cultures and industrial samples. In addition, comparisons were made between the developed array, PCR assays specifically targeting the thick juice contaminants and classical microbial platings. The array was found to be reliable and sensitive enough to detect and identify the target bacteria. In addition, the array was used to monitor the target microbial populations in thick juice during long-term storage and degradation. Results are discussed in relation to DNA stability in thick juice. [ABSTRACT FROM AUTHOR]

A correction to this paper has been published: https://doi.org/10.1007/s00248-021-01755-2 [ABSTRACT FROM AUTHOR]

Orchid species are critically dependent on mycorrhizal fungi for completion of their life cycle, particularly during the early stages of their development when nutritional resources are scarce. As such, orchid mycorrhizal fungi play an important role in the population dynamics, abundance, and spatial distribution of orchid species. However, less is known about the ecology and distribution of orchid mycorrhizal fungi. In this study, we used 454 amplicon pyrosequencing to investigate ecological and geographic variation in mycorrhizal associations in fourteen species of the orchid genus Dactylorhiza. More specifically, we tested the hypothesis that variation in orchid mycorrhizal communities resulted primarily from differences in habitat conditions where the species were growing. The results showed that all investigated Dactylorhiza species associated with a large number of fungal OTUs, the majority belonging to the Tulasnellaceae, Ceratobasidiaceae and Sebacinales. Mycorrhizal specificity was low, but significant variation in mycorrhizal community composition was observed between species inhabiting different ecological habitats. Although several fungi had a broad geographic distribution, Species Indicator Analysis revealed some fungi that were characteristic for specific habitats. Overall, these results indicate that orchid mycorrhizal fungi may have a broad geographic distribution, but that their occurrence is bounded by specific habitat conditions. [ABSTRACT FROM AUTHOR]

Archaea and Bacteria constitute a majority of life systems on Earth but have long been considered inferior to Eukarya in terms of solute tolerance. Whereas the most halophilic prokaryotes are known for an ability to multiply at saturated NaCl (water activity (aw) 0.755) some xerophilic fungi can germinate, usually at high-sugar concentrations, at values as low as 0.650-0.605 aw. Here, we present evidence that halophilic prokayotes can grow down to water activities of <0.755 for Halanaerobium lacusrosei (0.748), Halobacterium strain 004.1 (0.728), Halobacterium sp. NRC-1 and Halococcus morrhuae (0.717), Haloquadratum walsbyi (0.709), Halococcus salifodinae (0.693), Halobacterium noricense (0.687), Natrinema pallidum (0.681) and haloarchaeal strains GN-2 and GN-5 (0.635 aw). Furthermore, extrapolation of growth curves (prone to giving conservative estimates) indicated theoretical minima down to 0.611 aw for extreme, obligately halophilic Archaea and Bacteria. These were compared with minima for the most solute-tolerant Bacteria in high-sugar (or other non-saline) media (Mycobacterium spp., Tetragenococcus halophilus, Saccharibacter floricola, Staphylococcus aureus and so on) and eukaryotic microbes in saline (Wallemia spp., Basipetospora halophila, Dunaliella spp. and so on) and high-sugar substrates (for example, Xeromyces bisporus, Zygosaccharomyces rouxii, Aspergillus and Eurotium spp.). We also manipulated the balance of chaotropic and kosmotropic stressors for the extreme, xerophilic fungi Aspergillus penicilloides and X. bisporus and, via this approach, their established water-activity limits for mycelial growth (∼0.65) were reduced to 0.640. Furthermore, extrapolations indicated theoretical limits of 0.632 and 0.636 aw for A. penicilloides and X. bisporus, respectively. Collectively, these findings suggest that there is a common water-activity limit that is determined by physicochemical constraints for the three domains of life. [ABSTRACT FROM AUTHOR]

Although coffee leaf rust (CLR), caused by Hemileia vastatrix, poses an increasing threat to coffee production in Ethiopia, little is known regarding its genetic diversity and structure and how these are affected by coffee management. Here, we used genetic fingerprinting based on sequence-related amplified polymorphism (SRAP) markers to genotype H. vastatrix samples from different coffee shrubs, across 40 sites, covering four coffee production systems (forest coffee, semi plantation coffee, home garden coffee, and plantation coffee) and different altitudes in Ethiopia. In total, 96 H. vastatrix samples were successfully genotyped with three primer combinations, producing a total of 79 scorable bands. We found 35.44% of amplified bands to be polymorphic, and the polymorphic information content (PIC) was 0.45, suggesting high genetic diversity among our CLR isolates. We also found significant isolation-by-distance across the samples investigated and detected significant differences in fungal genetic composition among plantation coffee and home garden coffee and a marginally significant difference among plantation coffee and forest coffee. Furthermore, we found a significant effect of altitude on CLR genetic composition in the forest coffee and plantation systems. Our results suggest that both spore dispersal and different selection pressures in the different coffee management systems are likely responsible for the observed high genetic diversity and genetic structure of CLR isolates in Ethiopia. When selecting Ethiopian coffee genotypes for crop improvement, it is important that these genotypes carry some resistance against CLR. Because our study shows large variation in genetic composition across relatively short geographical distances, a broad selection of rust isolates must be used for coffee resistance screening., (© 2023. The Author(s), under exclusive licence to Springer Nature Switzerland AG.)