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Diazotrophic bacteria were isolated from the rhizosphere of field-grown Triticum aestivum, Hordeum vulgare, and Avena saliva grown in various regions of Greece. One isolate, with the highest nitrogen-fixation ability from each of the eleven rhizospheres, was selected for further characterisation. Diazotrophic strains were assessed for plant-growth-promoting traits such as indoleacetic acid production and phosphate solubilisation. The phylogenies of 16S rRNA gene of the selected isolates were compared with those based on dnaK and nifH genes. The constructed trees indicated that the isolates were members of the species Azospirillum brasilense, Azospirillum zeae, and Pseudomonas stutzeri. Furthermore, the ipdC gene was detected in all A. brasilence and one A. zeae isolates. The work presented here provides the first molecular genetic evidence for the presence of culturable nitrogen-fixing P. stutzeri and A. zeae associated with field-grown A. saliva and H. vulgare in Greece.

Peptidyl-prolyl cis/trans isomerases (PPIases, EC: 5.2.1.8), a class of enzymes that catalyse the rate-limiting step of the cis/trans isomerization in protein folding, are divided into three structurally unrelated families: cyclophilins, FK506-binding proteins (FKBPs), and parvulins. Two recombinant FKBPs from the soil nitrogen-fixing bacterium Azotobacter vinelandii, designated as AvfkbX and AvfkbB, have been purified and their peptidyl-prolyl cis/trans isomerase activity against Suc-Ala-Xaa-Pro-Phe-pNA synthetic peptides characterised. The substrate specificity of both enzymes is typical for bacterial FKBPs, with Suc-Ala-Phe-Pro-Phe-pNA being the most rapidly catalysed substrate by AvfkbX and Suc-Ala-Leu-Pro-Phe-pNA by AvfkbB. Both FKBPs display chaperone activity as well in the citrate synthase thermal aggregation assay. Furthermore, using real-time RT-qPCR, we demonstrated that both genes were expressed during the exponential growth phase on glucose minimal medium, while their expression declined dramatically during the stationary growth phase as well as when the growth medium was supplied exogenously with ammonium.

The South American tomato pinworm, Tuta absoluta (Meyrick) (Lepidoptera: Gelechiidae), is an invasive pest difficult to control. Insecticide application is quite common and remains the prevalent control method particularly in open-field cultivation systems. As a result, insecticide resistance to many chemical classes of insecticides has been described both in South America and in Europe. The development of insecticide resistance is relatively fast in this species, and the main mechanisms involved are altered target-site sensitivity and/or enhanced detoxification, depending on the chemical class. However, insecticide resistance mechanisms do not differ between South America and Europe and are mainly due to simple genotype variations leading to high levels of resistance. The presence of resistance alleles at low frequency, especially against newer chemistry, is of major concern, as they tend to spread with the invasions making tomato pinworm particularly difficult to control. The monitoring methods and management programmes developed for the species benefited from the pro-activity of the Insecticide Resistance Action Committee and its country groups, particularly in Brazil and Spain. Bioassay methods were developed, resistance monitoring activities initiated and resistance management guidance was provided. The implementation of integrated control programmes and appropriate resistance management strategies as part of such programs is of utmost importance to keep tomato pinworm infestations under economic damage thresholds, thus guaranteeing sustainable yields.

Background The Avrk1 and Avra10 avirulence (AVR) genes encode effectors that increase the pathogenicity of the fungus Blumeria graminis f.sp. hordei ( Bgh ), the powdery mildew pathogen, in susceptible barley plants. In resistant barley, MLK1 and MLA10 resistance proteins recognize the presence of AVRK1 and AVRA10, eliciting the hypersensitive response typical of gene for gene interactions. Avrk1 and Avra10 have more than 1350 homologues in Bgh genome, forming the EKA ( E ffectors homologous to Avr k 1 and Avr a 10) gene family. Results We tested the hypothesis that the EKA family originated from degenerate copies of Class I LINE retrotransposons by analysing the EKA family in the genome of Bgh isolate DH14 with bioinformatic tools specially developed for the analysis of Transposable Elements (TE) in genomes. The Class I LINE retrotransposon copies homologous to Avrk1 and Avra10 represent 6.5 % of the Bgh annotated genome and, among them, we identified 293 AVR/effector candidate genes. We also experimentally identified peptides that indicated the translation of several predicted proteins from EKA family members, which had higher relative abundance in haustoria than in hyphae. Conclusions Our analyses indicate that Avrk1 and Avra10 have evolved from part of the ORF1 gene of Class I LINE retrotransposons . The co-option of Avra10 and Avrk1 as effectors from truncated copies of retrotransposons explains the huge number of homologues in Bgh genome that could act as dynamic reservoirs from which new effector genes may evolve. These data provide further evidence for recruitment of retrotransposons in the evolution of new biological functions.

Abstract Microbial communities play important roles in all ecosystems and yet a comprehensive understanding of the ecological processes governing the assembly of these communities is missing. To address the role of biotic interactions between microorganisms in assembly and for functioning of the soil microbiota, we used a top-down manipulation approach based on the removal of various populations in a natural soil microbial community. We hypothesized that removal of certain microbial groups will strongly affect the relative fitness of many others, therefore unraveling the contribution of biotic interactions in shaping the soil microbiome. Here we show that 39% of the dominant bacterial taxa across treatments were subjected to competitive interactions during soil recolonization, highlighting the importance of biotic interactions in the assembly of microbial communities in soil. Moreover, our approach allowed the identification of microbial community assembly rule as exemplified by the competitive exclusion between members of Bacillales and Proteobacteriales. Modified biotic interactions resulted in greater changes in activities related to N- than to C-cycling. Our approach can provide a new and promising avenue to study microbial interactions in complex ecosystems as well as the links between microbial community composition and ecosystem function.

Anaerobic Digestion (AD) is a process that is well-known and fast-developing in Europe. AD generates large amounts of digestate, especially in livestock-intensive areas. Digestate has potential environmental issues due to nutrients (such as nitrogen) lixiviation or volatilization. Using liquid digestate as a nutrient source for microalgae growth is considered beneficial because digestate could be valorized and upgraded by the production of an added value product. In this work, microalgal biomass produced using liquid digestate from an agricultural biogas plant was investigated as a slow-release fertilizer in tomatoes. Monoraphidium sp. was first cultivated at different dilutions (1:20, 1:30, 1:50), in indoor laboratory-scale trials. The optimum dilution factor was determined to be 1:50, with a specific growth rate of 0.13 d −1 and a complete nitrogen removal capacity in 25 days of culture. Then, outdoor experiments were conducted in a 110 dm 3 vertical, closed photobioreactors (PBRs) in batch and semi-continuous mode with 1:50 diluted liquid digestate. During the batch mode, the microalgae were able to remove almost all NH 4 + and 65 (±13) % of PO 4 3− , while the microalgal growth rate reached 0.25 d −1. After the batch mode, the cultures were switched to operate under semi-continuously conditions. The cell densities were maintained at 1.3 × 10 7 cells mL −1 and a biomass productivity around 38.3 mg TSS L −1 d −1 during three weeks was achieved, where after that it started to decline due to unfavorable weather conditions. Microalgae biomass was further tested as a fertilizer for tomatoes growth, enhancing by 32% plant growth in terms of dry biomass compared with the control trials (without fertilization). Similar performances were achieved in tomato growth using synthetic fertilizer or digestate. Finally, the leaching effect in soils columns without plant was tested and after 25 days, only 7% of N was leached when microalgae were used, against 50% in the case of synthetic fertilizer.

In the current paper, we reviewed the use of nanoparticles (NPs) in crop protection, emphasizing the control of pests in the agricultural and urban environment. At the same time, we provide the framework on which the technology of NPs is based and the various categories of NPs that are currently used for pest control. Apart from the use of NPs as carriers of a broad category of active ingredients, including insecticides and pheromones, some NPs can be used successfully as insecticides alone. Moreover, several types of NPs are produced by natural resource-based substances, which make them promising \"green\" alternatives to the use of traditional pest control agents. Finally, the potentials in the use of NPs are briefly illustrated and discussed.

Yield maps provide a detailed account of crop production and potential revenue of a farm. This level of details enables a range of possibilities from improving input management, conducting on-farm experimentation, or generating profitability map, thus creating value for farmers. While this technology is widely available for field crops such as maize, soybean and grain, few yield sensing systems exist for horticultural crops such as berries, field vegetable or orchards. Nevertheless, a wide range of techniques and technologies have been investigated as potential means of sensing crop yield for horticultural crops. This paper reviews yield monitoring approaches that can be divided into proximal, either direct or indirect, and remote measurement principles. It reviews remote sensing as a way to estimate and forecast yield prior to harvest. For each approach, basic principles are explained as well as examples of application in horticultural crops and success rate. The different approaches provide whether a deterministic (direct measurement of weight for instance) or an empirical (capacitance measurements correlated to weight for instance) result, which may impact transferability. The discussion also covers the level of precision required for different tasks and the trend and future perspectives. This review demonstrated the need for more commercial solutions to map yield of horticultural crops. It also showed that several approaches have demonstrated high success rate and that combining technologies may be the best way to provide enough accuracy and robustness for future commercial systems.

Local breeds are recognized as an important element for the maintenance of various and specific farming systems. Challenges for local breeds’ management, in a context of crossbreeding with exotic highly productive breeds, have been mainly studied in tropical countries. However, similar situation and challenges are likely to exist in Mediterranean countries subjected to climatic and feed scarcity issues. The objective of this work is to identify the challenges for local breed management in a regional context of informal crossbreeding with highly productive breeds. For this purpose, the case of dairy sheep farming in the region of Thessaly, in Central Greece, was examined. Semi-structured interviews were performed in 46 farms and processed through hierarchical classification on principal components. A follow-up on seven farms raising the Karagouniko sheep breed, the main local breed of the region, was carried on during one milk campaign. Results showed that a diversity of breeding strategies involving local purebred and crossbred flocks coexist in the region. The Karagouniko breed is facing several challenges. The supply in exotic breeding males and their crosses could be wide-scaled and involved a diversity of operators, whereas the supply in breeding males of Karagouniko breed was restrained to between-farm supply among flocks under milk recording scheme. In addition, the heterogeneity of access and quality of collective rangelands affected the farming of Karagouniko breed ewes, whose purebred flocks were significantly associated with the grazing on native grasslands. Finally, unfavorable dairies’ policies led Karagouniko farmers to seek higher flock milk production through levers that could impact the vulnerability of the farm, such as earlier lambing period or earlier weaning age. Farmers also questioned the use of highly productive breeds as a potential lever to reach higher flock milk production.

Amplified fragment length polymorphism (AFLP) analysis was used to assess genetic inter-relationships among olive varieties cultivated in the Eastern Mediterranean Basin. The genotypes sampled included most of the important cultivars from Turkey, Greece and the Middle East and selected genotypes from the Western Mediterranean area. A total of 119 polymorphic markers were generated from five selective primer-pair combinations. The combined data sets generated by just two primer-pairs were adequate to discriminate between all 65 genotypes, while each primer-pair could individually identify up to 64 genotypes. A factorial correspondence analysis (FCA) plot indicated that the cultivars clustered into two relatively modestly defined groups. The first broad group was dominated by cultivars from Turkey but also included genotypes originating from the Middle East (Syria and Lebanon) that collectively formed a tight subcluster. The second group comprised Greek cultivars and those originating from the Western Mediterranean. A significant genetic distance value between Greek and Turkish cultivars was provided by an analysis of molecular variance (AMOVA). There was also evidence of substructure here, with an apparent separation of most Spanish and Italian clones. These findings are in general accordance to previous suggestions of an East-West divergence of olive cultivars, although the dichotomy is less extensive than reported previously and complicated by regional variation within each group.