Ecological risk and enrichment of potentially toxic elements in the soil and eroded sediment in an organic vineyard (Tokaj Nagy Hill, Hungary).

Potentially toxic elements (PTEs), such as Cu, Zn, Pb, Ni, Cr, and Co, can accumulate in vineyard soils due to repeated uses of inorganic pesticides and chemical or organic fertilizers. In sloping vineyards, PTEs can also be moved by soil erosion resulting in their accumulation in low-energy zones within the landscape, adversely affecting the soil environment. Our study evaluated the ecological risk related to the pseudo-total and bioavailable PTE contents (Zn, Pb, Co, Ni, Cr, and Cu) in the soil and eroded sediment samples from an organic vineyard in Tokaj (NE Hungary). The contamination status and the ecological risk of target PTEs were assessed by calculating the contamination factor, the pollution load index, the ecological risk factor, and the ecological risk index. The median pollution load indices of 1.15, 1.81, and 1.10 for the topsoil, the sediments, and the subsoil, respectively, demonstrate a moderate multi-element contamination case in the organic vineyard. Target PTEs tented to show increased concentrations in eroded sediments with the highest enrichment ratio (3.36) observed for Cu (Cu in the sediment/Cu in the topsoil), revealing a preferential movement of Cu-rich soil particles by overland flow. Moreover, PTEs were present in the sediments in more bioavailable forms (except Ni, Cr), assessed by an extraction procedure with EDTA. The ecological risk index (< 90) based on the studied PTEs showed an overall low ecological risk in the vineyard. Copper was the predominant factor of the ecological risk. Moreover, the highest ecological risk factor (24.6) observed for the bioavailable Cu content in an eroded sediment sample (representing 82% of the total ecological risk) shows that Cu accumulation in sloping vineyards is an ecological risk, particularly in the sedimentation zones. The high proportions of bioavailable Cu in the vineyard's soil represent an increasing ecological risk over time, related to repeated treatments of vine plants with Cu-based pesticides.

Soil tillage affects soybean growth and promotes heavy metal accumulation in seeds.

When soybean is grown in soils with high heavy metal concentrations, it may introduce those contaminants into the human food chain, posing risks to human health. This study evaluated the effect of tilling the soil with high Cu, Zn, and Mn levels on soybean physiology and metal accumulation in seeds. Disturbed and undisturbed soil samples were collected in two different sites: a vineyard with high heavy metal concentration and a grassland area, containing natural vegetation. Two soybean cultivars were sown and grown in the greenhouse. Photosynthetic parameters and biochemical analysis of oxidative stress were performed. Cu, Zn, and Mn in leaves and seeds, dry mass, and weight of seeds were evaluated. Soil structure had a high influence on plant growth and physiology, while soil site had a high impact on heavy metal accumulation in leaves and seeds. Soybean plants that grown in vineyard soils with high heavy metal concentrations, accumulated 50% more Zn in leaves and seeds, 70% more Cu in leaves, and 90% more Cu in seeds, than those plants grown in grassland soils. Besides, Zn concentration in seeds was higher than the permissible limit. Moreover, the disturbance of both vineyard soil and grassland soil was not good for plant growth and physiology, which have increased TBARS and H2O2 concentration in plants, transpiration rate, metal concentration in leaves and seeds. Soil disturbance may have caused organic matter oxidation and changes in the composition and quantity of soil microorganisms and it affects the availability of other nutrients in the soil.

Ecological and health risks of soil and grape heavy metals in long-term fertilized vineyards (Chaharmahal and Bakhtiari province of Iran).

Heavy metal pollution in food-producing ecosystems resulting from long-term fertilizing and other agricultural practices is causing major concern due to its health risk potential for human and other organisms. This study was designed to investigate heavy metal concentrations (Cu, Zn, Pb, Cr and Cd) and assess their ecological risk using contamination factor (Cf), pollution load index (PLI) and ecological risk index. Health risk assessment (HRA) was also estimated by investigating non-carcinogenic and carcinogenic risks of soil via oral ingestion, dermal contact, inhalation, and health risk of grape consumption. To this aim, 38 fertilized vineyards of the region were investigated during harvesting seasons of 2016 and 2017. The results showed a same ranking order of the metals in the soil and grape that was Zn > Cu > Pb > Cr > Cd. The average concentrations of Zn and Pb in the grape samples were significantly higher than the national permissible limits. According to Cf and PLI indices, Cd had the most ecological risk compared to the other studied metals. The HRA results showed that adults and children are not exposed to non-carcinogenic risk from the studied heavy metals in the vineyard soils. But, it was a tolerable level of carcinogenic health risk only by Cr in some of the vineyards. The PLI had most significant correlation (p < 0.01) with the other studied indices. So, it can be considered as a rapid and applicable index to assess ecological and health risk of heavy metals in the region. To food-chain security and community health, some comprehensive managing plans are necessary to increase farmer's awareness about the standard amount of chemical fertilizers and pesticides. Furthermore, continuous monitoring of heavy metals in soil and grape of the vineyards should be performed.

Contamination and health risks from heavy metals in cultivated soil in Zhangjiakou City of Hebei Province, China.

A total of 79 topsoil samples (ranging from 0 to 20 cm in depth) were collected from a grape cultivation area of Zhangjiakou City, China. The total concentrations of As, Cd, Hg, Cr, Cu, Mn, Ni, Pb, and Zn in soil samples were determined to evaluate pollution levels and associated health risks in each sample. Pollution levels were calculated using enrichment factors (EF) and geoaccumulation index (I geo). Health risks for adults and children were quantified using hazard indexes (HI) and aggregate carcinogenic risks (ACR). The mean concentrations of measured heavy metals Cd, Hg, and Cu, only in the grape cultivation soil samples, were higher than the background values of heavy metals in Hebei Province. According to principal component analysis (PCA), the anthropogenic activities related to agronomic and fossil fuel combustion practices attributed to higher accumulations of Cd, Hg, and Cu, which have slightly polluted about 10-40% of the sampled soils. However, the HI for all of the heavy metals were lower than 1 (within safe limits), and the ACR of As was in the 10(-6)-10(-4) range (a tolerable level). This suggests the absence of both non-carcinogenic and carcinogenic health risks for adults and children through oral ingestion and dermal absorption exposure pathways in the studied area. It should be also noted that the heightened vulnerability of children to health risks was accounted for higher HI and ACR values. Consequently, heavy metal concentrations (e.g., Cd, Hg, Cu) should be periodically monitored in these soils and improved soil management practices are required to minimize possible impacts on children's health.

Factors affecting distribution and abundance of Aspergillus section Nigri in vineyard soils from grapevine growing regions of Argentina.

BACKGROUND: Aspergillus species belonging to section Nigri are the main fungi responsible for ochratoxin (OTA) contamination in grapes and wine. These species live as saprophytes in the superficial layer of the vineyard soil. We evaluated the biodiversity of potentially ochratoxigenic strains of Aspergillus section Nigri isolated from vineyard soils from different grapevine growing regions of Argentina. The isolates were characterized by classical and molecular methods. A multiple correspondence analysis was performed to identify the overall correlation of the Aspergillus group distribution with environmental conditions, geographical characteristics and vineyard practices. RESULTS: Aspergillus niger aggregate was the prevalent group (71%) and A. carbonarius made up only 2%. Species discrimination by species-specific primers showed that in A. niger aggregate 89% were A. tubingensis; 97% of the uniseriate were A. japonicus/A. aculeatus. Isolates belonging to these groups were unable to produce OTA. Our results clearly demonstrate a strong association between presence of A. carbonarius, high average temperatures and drip irrigation. Precipitation levels appear as a secondary factor, and altitude, vineyard age, predominant species, grape variety or total fungal count showed no association with A. carbonarius. CONCLUSION: We demonstrated a low prevalence of ochratoxigenic species in vineyard soil from the grape-growing regions of Argentina.

Assessment of the occurrence and interaction between pesticides and plastic litter from vineyard plots.

In this research, aged plastic fragments collected from vineyards were characterized in terms of composition, residues of pesticides, and their potential to exchange these compounds with the aquatic media. To this end, we employed the qualitative and quantitative information provided by complementary analytical techniques, including chromatography, organic and inorganic mass spectrometry, infrared spectroscopy and electronic microscopy. Debris of weathered plastics were identified as polypropylene and polyethylene, containing different types of additives, from organic UV stabilizers to inorganic fillers, such as calcium salts. Regardless of polymer type, plastic litter collected from vineyards contained residues of pesticides, and particularly of fungicides, with total concentrations in the range of values from 114 ng g-1 to 76.4 µg g-1. Data obtained under different extraction conditions suggested that a fraction of these compounds was absorbed in aged polymers, penetrating inside the material. The parallel analysis of plastic litter and vineyard soils reflected higher pesticide residues in the former matrix. Furthermore, several fungicides, considered as labile in vineyard soils (i.e. zoxamide and folpet), were those showing the highest levels in plastic litter. Simulated sorption-desorption studies, with plastic debris in contact with surface water, demonstrated the higher affinity of aged materials by moderately polar pesticides than their new counterparts. For the first time, the manuscript highlights the presence of plastic litter in vineyards soils, reflecting the accumulation of several fungicides in this matrix, in some cases, with a different stability pattern to that observed in the soil from same vineyards.

Copper toxicity on Eisenia fetida in a vineyard soil: a combined study with standard tests, genotoxicity assessment and gut metagenomic analysis.

Copper (Cu) toxicity is a pressing concern for several soils, especially in organic viticulture. The objective of this work was to assess Cu toxicity on the non-target organism Eisenia fetida, employing both traditional and novel tools for early identification of Cu-induced damages. In addition to traditional tests like avoidance and reproductive toxicity experiments, other tests such as the single cell gel electrophoresis (SCGE) and gut microbiome analysis were evaluated to identify early and more sensitive pollution biomarkers. Four sub-lethal Cu concentrations were studied, and the results showed strong dose-dependent responses by the earthworm avoidance test and the exceeding of habitat threshold limit at the higher Cu doses. An inverse proportionality was observed between reproductive output and soil Cu concentration. Bioaccumulation was not detected in earthworms; soil concentrations of potentially bioavailable Cu were not affected by E. fetida presence or by time. On the contrary, the SCGE test revealed dose-dependent genotoxicity for the 'tail length' parameter already at the second day of Cu exposition. Gut microbiome analysis a modulation of microbial composition, with the most aboundant families being Pectobateriaceae, Comamonadaceae and Microscillaceae. Bacillaceae increased over time and showed adaptability to copper up to 165 mg/kg, while at the highest dose even the sensitive Acetobacteriaceae family was affected. The research provided new insights into the ecotoxicity of Cu sub-lethal doses highlighting both alterations at earthworms' cellular level and changes in their gut microbiota.

Stability of exogenous Cadmium in different vineyard soils and its effect on grape seedlings.

Cadmium (Cd) being potentially toxic heavy metal, has become increasingly serious to vineyard soil and grapes in recent years. Soil type is one of the main factors affecting the absorption of Cd in grapes. To investigate the stabilization characteristics and form changes of Cd in different types of vineyard soils, a 90-days incubation experiment was conducted after exogenous Cd addition to 12 vineyard soils from typical vineyards in China. The inhibition of exogenous Cd on grape seedlings was determined based on the pit-pot incubation experiment (200 kg soil per pot). The results demonstrate that Cd concentration in all the sampling sites did not exceed the national screening values (GB15618-2018; i.e., 0.3 mg/kg when pH was lower than 7.5, 0.6 mg/kg when pH was higher than 7.5);. Cd in Fluvo-aquic soil 2, Red soils1, 2, 3 and Grey-Cinnamon soil is dominated by acid-soluble fraction, but was mainly in residual fraction in the remain soils. Throughout the aging process, proportion of the acid-soluble fraction increased and then decreased, while proportion of the residual fraction decreased and then increased, after exogenous Cd was added. The mobility coefficients of Cd in Fluvo-aquic soil 2 and Red soil 1, 2 increased 2.5, 3 and 2 folds, after exogenous Cd addition, respectively. Compared with CK (control), the correlation between total Cd content and its different fractions was relatively weak in the Cdl (low concentration) and Cdh (high concentration) groups. Poor Cd stabilization and strong inhibition of seedling growth rate were observed in Brown soil 1, black soil, red soil 1 and cinnamomic soil. Fluvo-aquic soil 2, 3 and Brown soil 2 showed good Cd stability and small inhibition effect on grape seedlings. These results show that Cd stability in soils and inhibition rate of grape seedlings by Cd are strongly influenced by soil type.

Evaluation of copper resistant bacteria from vineyard soils and mining waste for copper biosorption.

Vineyard soils are frequently polluted with high concentrations of copper due application of copper sulfate in order to control fungal diseases. Bioremediation is an efficient process for the treatment of contaminated sites. Efficient copper sorption bacteria can be used for bioremoval of copper from contaminated sites. In this study, a total of 106 copper resistant bacteria were examined for resistance to copper toxicity and biosorption of copper. Eighty isolates (45 from vineyard Mollisol, 35 from Inceptisol) were obtained from EMBRAPA (Empresa Brasileira de Pesquisa Agropecuária) experimental station, Bento Gonçalves, RS, Brazil (29°09'53.92″S and 51°31'39.40″W) and 26 were obtained from copper mining waste from Caçapava do Sul, RS, Brazil (30°29'43.48″S and 53'32'37.87W). Based on resistance to copper toxicity and biosorption, 15 isolates were identified by 16S rRNA gene sequencing. Maximal copper resistance and biosorption at high copper concentration were observed with isolate N2 which removed 80 mg L(-1) in 24 h. Contrarily isolate N11 (Bacillus pumilus) displayed the highest specific copper biosorption (121.82 mg/L/OD unit in 24 h). GenBank MEGABLAST analysis revealed that isolate N2 is 99% similar to Staphylococcus pasteuri. Results indicate that several of our isolates have potential use for bioremediation treatment of vineyards soils and mining waste contaminated with high copper concentration.

Rootstocks Shape Their Microbiome-Bacterial Communities in the Rhizosphere of Different Grapevine Rootstocks.

The microbiota associated with the rhizosphere is responsible for crucial processes. Understanding how the plant and its bacterial community interact is of great importance to face the upcoming agricultural and viticultural challenges. The composition of the bacterial communities associated with the rhizosphere of grapevines is the result of the interaction between many drivers: biogeography, edaphic factors, soil management and plant genotype. The experimental design of this study aimed to reduce the variability resulting from all factors except the genotype of the rootstock. This was made possible by investigating four ungrafted grapevine rootstock varieties of the same age, grown on the same soil under the same climatic conditions and managed identically. The bacterial communities associated with the rhizosphere of the rootstocks 1103 Paulsen, 140 Ruggeri, 161-49 Couderc and Kober 5BB were characterized with the amplicon based sequencing technique, targeting regions V4-V5 of 16S rRNA gene. Linear discriminant analysis effect Size (LEfSe) analysis was performed to determine differential abundant taxa. The four rootstocks showed similarities concerning the structure of the bacteria assemblage (richness and evenness). Nonetheless, differences were detected in the composition of the bacterial communities. Indeed, all investigated rootstocks recruited communities with distinguishable traits, thus confirming the role of rootstock genotype as driver of the bacteria composition.

Multiresidue procedure to assess the occurrence and dissipation of fungicides and insecticides in vineyard soils from Northwest Spain.

The presence of fungicide and insecticide residues in wine has been largely investigated. However, few studies have addressed the persistence of these compounds in vineyard soils. In this research, we investigate the residues of a relevant number of fungicides and insecticides in vineyard soils, obtained in the Northwest of Spain, at the beginning of each agriculture campaign. Moreover, the dissipation of species showing high concentrations were monitored during the non-vegetative period of vines, in order to understand their soil evolution between application campaigns. To this end, a multiresidue analytical procedure based on pressurized liquid extraction (PLE) followed by liquid chromatography tandem mass spectrometry (LC-MS/MS) determination was first optimized. Under final working conditions, absolute recoveries in the range from 70 to 130% were achieved for 44 out of 51 selected compounds. The method LOQs remained at the low ng g-1 level (0.2-13 ng g-1) with a linear response range up to 500 ng g-1. Analysis of vineyard soils, collected during a 2-year period, from a geographic area with a high incidence of fungal diseases, demonstrated the presence of relevant concentrations of several fungicides and the insecticide imidacloprid (IMI) in this compartment. Most compounds detected at the end of the application season remained in soil at the beginning of the next year campaign. Among them, six fungicides (dimethomorph, boscalid, myclobutanil, penconazole, pyraclostrobin and pyrimethanil) and IMI showed average dissipation efficiencies below 50%, so they pose a potential to accumulate in this kind of soils.

Wine Terroir and the Soil Bacteria: An Amplicon Sequencing-Based Assessment of the Barossa Valley and Its Sub-Regions.

A wines' terroir, represented as wine traits with regional distinctiveness, is a reflection of both the biophysical and human-driven conditions in which the grapes were grown and wine made. Soil is an important factor contributing to the uniqueness of a wine produced by vines grown in specific conditions. Here, we evaluated the impact of environmental variables on the soil bacteria of 22 Barossa Valley vineyard sites based on the 16S rRNA gene hypervariable region 4. In this study, we report that both dispersal isolation by geographic distance and environmental heterogeneity (soil plant-available P content, elevation, rainfall, temperature, spacing between row and spacing between vine) contribute to microbial community dissimilarity between vineyards. Vineyards located in cooler and wetter regions showed lower beta diversity and a higher ratio of dominant taxa. Differences in soil bacterial community composition were significantly associated with differences in fruit and wine composition. Our results suggest that environmental factors affecting wine terroir, may be mediated by changes in microbial structure, thus providing a basic understanding of how growing conditions affect interactions between plants and their soil bacteria.

Analysing the vineyard soil as a natural reservoir for wine yeasts.

The cultivable microorganisms isolated from grapes and soils of two contiguous vineyards were analysed. Two types of management system were tested in each vineyard: conventional tillage (CT), and no-tillage with natural green cover vegetation (NV), both under semi-arid rainfed conditions. The main objective was to gather evidence as to whether the yeasts present in ripe grapes before harvest and those found in spontaneous wine fermentations came from the vineyard soil which could then be regarded as a natural reservoir for these yeasts. Bacteria isolated from the grapes all corresponded to three genera (Pseudomonas, Stenotrophomonas, and Bacillus) that were very abundant in soil samples taken just before grape harvest, indicative of probable contamination of the grapes with soil microorganisms. The amounts of fermentative yeasts in vineyard soil increased significantly during the dates close to harvest. Some yeasts were isolated from soils and spontaneous fermentations (Saccharomyces and Lanchacea), while others were only isolated from fermentations (Hanseniaspora, Metschnikowia, and Pichia) or from soils (Torulaspora). Saccharomyces yeasts were isolated from vineyard soil only after grape harvest, to thereafter become undetectable. The analysis of sterile-must fermentations inoculated with soil samples showed that soil was not the origin of the most abundant fermentative yeasts in spontaneous grape fermentations (Saccharomyces and Hanseniaspora), regardless of the soil management system applied. In contrast, other fermentative wine yeasts such as Lanchacea and Torulaspora seemed to be permanently resident in the vineyard soil, especially in the NV vineyard. Hence, contamination of the grapes with vineyard soil may increase yeast biodiversity during spontaneous fermentation, which could affect the wine's organoleptic quality.

Geese Reared in Vineyard: Soil, Grass and Animals Interaction.

Agroforestry systems aim at increasing the productivity and the environmental sustainability of both crop and animal productions. The integration of small animals such as geese in the vineyard could represent an opportunity to improve farm income and reduce land use for grazing. The main objective of this work was to study the impact of geese rearing in an organic vineyard on the chemical and biochemical properties of the soil and the effect of Copper (Cu) supplied with the fungicide treatments. Furthermore, the amount of Cu in the animal tissues was also investigated. Three experimental areas within the vineyard were selected: High Geese Density (HGD-240 geese ha-1), Low Geese Density (LGD-120 geese ha-1) and Without Geese used as control soil (WG). The results indicated that both HGD and LGD did not affect the main chemical properties of the vineyard soils. LGD increased the amount and the efficiency of the microbial biomass in the upper soil horizons. Moreover, geese through the grazing activity reduced the Cu content in the vineyard soils, accumulating this element in their liver. However, the content of Cu in the breast and drumstick of vineyard geese did not show any significant difference in respect the meat of the control ones.

Corrigendum: Characterizing the Intra-Vineyard Variation of Soil Bacterial and Fungal Communities.

[This corrects the article DOI: 10.3389/fmicb.2019.01239.].

Characterizing the Intra-Vineyard Variation of Soil Bacterial and Fungal Communities.

Vineyard soil microbial communities potentially mediate grapevine growth, grape production as well as wine terroir. Simultaneously assessing shifts of microbial community composition at the intra-vineyard scale allows us to decouple correlations among environmental variables, thus providing insights into vineyard management. Here we investigated bacterial and fungal community compositions and their relationships with edaphic properties in soils collected from a commercial vineyard at four different soil depths (0-5, 5-10, 10-20, and 20-40 cm). Soil organic carbon (SOC) content, invertase activity and phosphatase activity decreased along depth gradient in the 0-20 cm soil fraction (P < 0.001). The soil bacterial biomass and α-diversity were significantly higher than those of fungi (P ≤ 0.001). Statistical analyses revealed that SOC content, pH, C/N ratio and total phosphorus (TP) were significant determinants of soil bacterial (R = 0.494, P = 0.001) and fungal (R = 0.443, P = 0.001) community structure. The abundance of dominated bacterial phyla (Proteobacteria, Acidobacteria and Actinobacteria) and fungal phyla (Ascomycota, Zygomycota and Basidiomycota) slightly varied among all soil samples. Genus Lactococcus, which comprised 2.72% of the soil bacterial community, showed increasing pattern with depth. Importantly, Candidatus Nitrososphaera, Monographella and Fusarium were also detected with high abundances in soil samples, indicating their ecological function in soil nitrogen cycle and the potential risk in grapevine disease. Overall, this work detected the intra-vineyard variation of bacterial and fungal communities and their relationships with soil characteristics, which was beneficial to vineyard soil management and grapevine disease prevention.

Assessment of major and trace element bioavailability in vineyard soil applying different single extraction procedures and pseudo-total digestion.

A different single extraction procedures (CH3COOH, Na2EDTA, CaCl2, NH4NO3, deionized water), and pseudo-total digestion (aqua regia) were applied to determine major (Al, Fe, K, Mn, Na, P, S, and Si) and trace (Cd, Co, Cr, Cu, Mo, Ni, Pb, V, and Zn) element bioavailability in a topsoil from the experimental vineyard ("Radmilovac", Belgrade, Serbia). For the first time, the extraction with deionized water during 16 h was tested as an alternative method for isolating bioavailable major and trace elements from the soil. Concentrations of the elements were determined by inductively coupled plasma - optical emission spectroscopy (ICP-OES). The extraction of Cu and S from the soil by deionized water during 16 h extracting, NH4NO3, and CaCl2 indicated that these elements could originate from the anthropogenic sources, such as fungicide. In addition according to the soil - plant experiment, performed as a preliminary experiment for future studies in vineyards, deionized water was recommended for isolation of bioavailable elements from grape seed and grape pulp; CH3COOH, Na2EDTA, CaCl2 and NH4NO3 for grape skin, while for assessment of leaf bioavailable elements from soil fraction, aqua regia was recommended. In addition, identification of similarities between the plant parts and the plant species were performed. Applying environmental risk assessment formulas, the most polluted vineyard parcel in the vineyard region "Radmilovac" was determined. The leaves of some grapevine species showed the high ability for accumulation some of the potentially toxic trace elements from the soil.

Phenotypic and genomic survey on organic acid utilization profile of Pseudomonas mendocina strain S5.2, a vineyard soil isolate.

Root exudates are chemical compounds that are released from living plant roots and provide significant energy, carbon, nitrogen and phosphorus sources for microbes inhabiting the rhizosphere. The exudates shape the microflora associated with the plant, as well as influences the plant health and productivity. Therefore, a better understanding of the trophic link that is established between the plant and the associated bacteria is necessary. In this study, a comprehensive survey on the utilization of grapevine and rootstock related organic acids were conducted on a vineyard soil isolate which is Pseudomonas mendocina strain S5.2. Phenotype microarray analysis has demonstrated that this strain can utilize several organic acids including lactic acid, succinic acid, malic acid, citric acid and fumaric acid as sole growth substrates. Complete genome analysis using single molecule real-time technology revealed that the genome consists of a 5,120,146 bp circular chromosome and a 252,328 bp megaplasmid. A series of genetic determinants associated with the carbon utilization signature of the strain were subsequently identified in the chromosome. Of note, the coexistence of genes encoding several iron-sulfur cluster independent isoenzymes in the genome indicated the importance of these enzymes in the events of iron deficiency. Synteny and comparative analysis have also unraveled the unique features of D-lactate dehydrogenase of strain S5.2 in the study. Collective information of this work has provided insights on the metabolic role of this strain in vineyard soil rhizosphere.

Assessment of metal bioavailability in the vineyard soil-grapevine system using different extraction methods.

This study was focused on the assessment of single and sequential extraction methods to predict the bioavailability of metals in the vineyard soil-grapevine system. The modified BCR sequential extraction method and two single-step extraction methods based on the use of EDTA and acetic acid were applied to differently amended vineyard soils. The variety effect was studied on the uptake of metals by leaves and grapes. Most of the elements studied (Ca, Mg, Cu, Fe, Mn, Zn and Pb) were weakly mobilized from vineyard soils, with the exception of Cu and Mn. The determination of total metal content in leaves and grapes showed a different accumulation pattern in the two parts of the vine. A significant relationship was observed, for all the elements studied except for Fe, between the content bioavailable in the soil and the accumulated in both leaves and grapes (R=0.602-0.775, p<0.01).

Comprehensive genomic and phenotypic metal resistance profile of Pseudomonas putida strain S13.1.2 isolated from a vineyard soil.

Trace metals are required in many cellular processes in bacteria but also induce toxic effects to cells when present in excess. As such, various forms of adaptive responses towards extracellular trace metal ions are essential for the survival and fitness of bacteria in their environment. A soil Pseudomonas putida, strain S13.1.2 has been isolated from French vineyard soil samples, and shown to confer resistance to copper ions. Further investigation revealed a high capacity to tolerate elevated concentrations of various heavy metals including nickel, cobalt, cadmium, zinc and arsenic. The complete genome analysis was conducted using single-molecule real-time (SMRT) sequencing and the genome consisted in a single chromosome at the size of 6.6 Mb. Presence of operons and gene clusters such as cop, cus, czc, nik, and asc systems were detected and accounted for the observed resistance phenotypes. The unique features in terms of specificity and arrangements of some genetic determinants were also highlighted in the study. Our findings has provided insights into the adaptation of this strain to accumulation and persistence of copper and other heavy metals in vineyard soil environment.