Crop Production and Environmental Effects in Conventional and Organic Vegetable Farming Systems: The Case of a Long-Term Experiment in Mediterranean Conditions (Central Italy)

The ground beetle Pseudoophonus rufipes gut microbiome is influenced by the farm management system

Intensive conventional farm management, characterized by high agrochemicals input, could alter the composition of microbial communities with potential negative effects on both functional traits and the ecosystem services provided. In this study, we investigated the gut microbial composition of a high ecological relevance carabid Pseudoophonus rufipes, sampled in two fields subjected to conventional and organic management practices. Carabids' gut microbiota was analyzed via qPCR and NGS. Profound differences between the microbial composition of organic and conventional samples were detected: the abundance of Tenericutes and Proteobacteria was significant higher in organic and conventional samples, respectively. Spiroplasmataceae and Bifidobacteriaceae families were significantly more abundant in samples from organic management, while Enterococcaceae, Morganellaceae and Yersiniaceae were more abundant in samples from conventional management. The diverse gut microbial composition of insects between the two management systems is related to the pressure of environmental stressors and it may representing an important bioindication of ecological functions and services provided by a carabid species.

Genome wide association mapping for agronomic, fruit quality, and root architectural traits in tomato under organic farming conditions

BACKGROUND

Opportunity and challenges of the agriculture scenario of the next decades will face increasing demand for secure food through approaches able to minimize the input to cultivations. Large panels of tomato varieties represent a valuable resource of traits of interest under sustainable cultivation systems and for genome-wide association studies (GWAS). For mapping loci controlling the variation of agronomic, fruit quality, and root architecture traits, we used a heterogeneous set of 244 traditional and improved tomato accessions grown under organic field trials. Here we report comprehensive phenotyping and GWAS using over 37,300 SNPs obtained through double digest restriction-site associated DNA (dd-RADseq).

RESULTS

A wide range of phenotypic diversity was observed in the studied collection, with highly significant differences encountered for most traits. A variable level of heritability was observed with values up to 69% for morphological traits while, among agronomic ones, fruit weight showed values above 80%. Genotype by environment analysis highlighted the strongest genotypic effect for aboveground traits compared to root architecture, suggesting that the hypogeal part of tomato plants has been a minor objective for breeding activities. GWAS was performed by a compressed mixed linear model leading to 59 significantly associated loci, allowing the identification of novel genes related to flower and fruit characteristics. Most genomic associations fell into the region surrounding SUN, OVATE, and MYB gene families. Six flower and fruit traits were associated with a single member of the SUN family (SLSUN31) on chromosome 11, in a region involved in the increase of fruit weight, locules number, and fruit fasciation. Furthermore, additional candidate genes for soluble solids content, fruit colour and shape were found near previously reported chromosomal regions, indicating the presence of synergic and multiple linked genes underlying the variation of these traits.

CONCLUSIONS

Results of this study give new hints on the genetic basis of traits in underexplored germplasm grown under organic conditions, providing a framework for the development of markers linked to candidate genes of interest to be used in genomics-assisted breeding in tomato, in particular under low-input and organic cultivation conditions.

Linking Coleopteran Diversity With Agricultural Management of Maize-Based Agroecosystems in Oaxaca, Mexico

Biodiversity is known to be influenced by agricultural practices in many ways. However, it is necessary to understand how this relation takes place in particular agroecosystems, sociocultural contexts and for specific biological groups, especially in highly biodiverse places. Also, in order to systematically study and track how biodiversity responds or changes with agricultural practices, it is necessary to find groups that can be used as practical indicators. We conduct a study of beetle (Coleoptera) diversity in maize-based agricultural plots with heterogeneous management practices in the Central Valleys of Oaxaca, Mexico, a region with outstanding biodiversity and a long agricultural history. We use a mixture of local knowledge and multivariate statistics to group the plots into two broad and contrasting management categories (traditional vs. industrialized). Then, we present an analysis of Coleopteran diversity for each category, showing higher levels across different diversity indexes for the traditional plots. Specifically, Coleopteran guilds associated with natural pest control and soil conservation are more common in traditional plots than in industrialized ones, while herbivorous beetles are more abundant in the second. Also, our results let us postulate the Curculionidae family as an indicator of both management type and overall Coleopteran diversity in the agricultural lands of the study site. We discuss our results in terms of the agricultural matrix quality and its role in strategies that favor the coexistence of culturally meaningful agricultural systems and local biodiversity.

Mulch-Based No-Tillage Effects on Weed Community and Management in an Organic Vegetable System

Weeds can cooperate with the agroecosystem’s functioning by providing ecosystem services. Effective weed management should mitigate negative weed–crop interference, while maintaining a functional and balanced weed community. In a two-year trial, the in-line/roller crimper (RC) was used to terminate an agroecological service crop (ASC; here barley, Hordeum vulgare L.) before organic zucchini (Cucurbita pepo, L.) and compared with green manure (GM) ASC and tilled no-ASC with Mater-Bi mulch on the rows (No_ASC). Zucchini yield, soil N availability, weed density/cover, biomass, and community composition were assessed. Analysis of variance, exploratory statistical analysis, and non-parametric inferential approaches were run, respectively, on agronomic data, species-specific weed frequencies, and Shannon diversity. Zucchini yield was the highest in No_ASC, due to soil N immobilization under high C:N barley residues in GM and RC. Multivariate analysis discriminated RC from tilled systems, outlining a specific ensemble of weed species correlated to Shannon diversity. From zucchini fruit set, RC selectively favored Polygonum aviculare L. and Helminthotheca echioides (L.), reasonably because of their oligotrophy and creeping habit. Their dominance finally caused low RC weed control. Results highlight strong weed selective pressure by the mulch-based no-tillage. Understanding the mechanisms underpinning the impact of soil management practices on weed community can drive towards a tailor-made and more effective weed management.

Mycorrhiza-mediated interference between cover crop and weed in organic winter cereal agroecosystems: The mycorrhizal colonization intensity indicator

The mycorrhizal fungi are symbiotic organisms able to provide many benefits to crop production by supplying a set of ecosystem functions. A recent ecological approach based on the ability of the fungi community to influence plant-plant interactions by extraradical mycelium development may be applied to diversified, herbaceous agroecosystems. Our hypothesis is that the introduction of a winter cereal cover crop (CC) as arbuscular mycorrhizal fungi (AMF)-host plant in an organic rotation can boosts the AMF colonization of the other plants, influencing crop-weed interference. In a 4-years organic rotation, the effect of two winter cereal CC, rye and spelt, on weed density and AMF colonization was evaluated. The AMF extraradical mycelium on CC and weeds roots was observed by scanning electron microscopy analysis. By joining data of plant density and mycorrhization, we built the mycorrhizal colonization intensity of the Agroecosystem indicator (MA%). Both the CC were colonized by soil AMF, being the mycorrhizal colonization intensity (M%) affected by environmental conditions. Under CC, the weed density was reduced, due to the increase of the reciprocal competition in favor of CC, which benefited from mycorrhizal colonization and promoted the development of AMF extraradical mycelium. Even though non-host plants, some weed species showed an increased mycorrhizal colonization in presence of CC respect to the control. Under intense rainfall, the MA% was less sensitive to the CC introduction. On the opposite, under highly competitive conditions, both the CC boosted significantly the mycorrhization of coexistent plants in the agroecosystem. The proposed indicator measured the agroecological service provided by the considered CCs in promoting or inhibiting the overall AMF colonization of the studied agroecosystems, as affected by weed selection and growth: It informs about agroecosystem resilience and may be profitably applied to indicate the extent of the linkage of specific crop traits to agroecosystem services, contributing to further develop the functional biodiversity theory.

Sustainability Assessment of Organic Vegetable Production Using a Qualitative Multi-Attribute Model

Organic agriculture is perceived as environmentally sustainable, but, under its umbrella, different production systems exist ranging from simplified organic productions to well diversified systems with a full implementation of agro-ecological approaches. Among several developed tools for agriculture sustainability assessment, multi-criteria models are increasingly gaining importance. In this study, we evaluated the use of the multi-criteria DEXi-BIOrt tool, coupled with data from long-term experiments, for the sustainability assessment of different organic vegetable production scenarios. These scenarios were applied in two Italian areas: the Adriatic coast of Marche Region and the Metaponto plan of Basilicata Region. Despite the presence of some critical issues, DEXI-BIOrt proved to be a valid tool for the sustainability evaluation of organic vegetable productions. In both areas, the most sustainable scenarios resulted the well diversified organic systems characterized by proper rotations, inclusion of agro-ecological service crops, cultivation of local and different cultivars, and presence of short supply chain mechanisms. Conversely, the implementation of the simplified organic substitution scenarios does not guarantee a suitable level of sustainability. The findings of this study could support decision makers in the implementation of appropriate measures for enhancing organic production sustainability in the framework of post-2020 Common Agricultural Policy.

Long-term impact of farm management and crops on soil microorganisms assessed by combined DGGE and PLFA analyses

In the present study, long-term organic and conventional managements were compared at the experimental field of Monsampolo del Tronto (Marche region, Italy) with the aim of investigating soil chemical fertility and microbial community structure. A polyphasic approach, combining soil fertility indicators with microbiological analyses (plate counts, PCR-denaturing gradient gel electrophoresis [DGGE] and phospholipid fatty acid analysis [PLFA]) was applied. Organic matter, N as well as some important macro and micronutrients (K, P, Mg, Mn, Cu, and Zn) for crop growth, were more available under organic management. Bacterial counts were higher in organic management. A significant influence of management system and management x crop interaction was observed for total mesophilic bacteria, nitrogen fixing bacteria and actinobacteria. Interestingly, cultivable fungi were not detected in all analyzed samples. PLFA biomass was higher in the organic and Gram positive bacteria dominated the microbial community in both systems. Even if fungal biomass was higher in organic management, fungal PCR-DGGE fingerprinting revealed that the two systems were very similar in terms of fungal species suggesting that 10 years were not enough to establish a new dynamic equilibrium among ecosystem components. A better knowledge of soil biota and in particular of fungal community structure will be useful for the development of sustainable management strategies.

Variations in the phytochemical contents and antioxidant capacity of organically and conventionally grown Italian cauliflower (Brassica oleracea L. subsp. botrytis): results from a three-year field study

A three-year field study (2009-2011) was performed to evaluate phytochemicals and antioxidant capacities of two genotypes (HF1 Emeraude and the local variety, Velox) of green cauliflower grown under organic and conventional management. The conventional system increased yield, but had little effect on the dry matter, whereas the organic system increased the soluble solids. Phytochemicals and antioxidant capacity showed significant year-to-year variability. During the third year, the scarce rainfall determined a significant increase of total glucosinolates and a general decrease of antioxidants in all samples. Interestingly, in the same year organic plants were less affected by the unfavorable climatic conditions, as they increased ascorbic acid, polyphenols, and carotenoids with respect to conventional ones. The overall results for the three years showed that the two genotypes responded differently. Compared to the conventional system, Velox showed 24, 21, 13, 48, and 44% higher content of ascorbic acid, polyphenols, carotenoids, volatiles, and antioxidant capacity, respectively. In contrast, no significant increase in the phytochemicals or the antioxidant potential was found in organic Emeraude, with the exception of total volatiles (+41%). These findings suggest that organic cultivation may be highly effective for particular cauliflower genotypes.