Search Results (57)

The domesticated species currently available in the market have been developed through the breeding of wild relatives. Breeding strategies using wild relatives with high genetic diversity are attracting attention as an important approach for addressing climate change and ensuring sustainable food supply. However, studies examining gene expression variation in multiple wild and domesticated species are limited. Therefore, we aimed to investigate the changes in gene expression associated with domestication. We performed a meta-analysis of public gene expression data of domesticated species of rice, tomato, and soybean and their presumed ancestral species using 21 pairs for rice, 36 pairs for tomato, and 56 pairs for soybean. In wild relatives, the expression of genes involved in osmotic, drought, and wound stress tolerance was upregulated, with 18 genes included in the top 5% of DW scores. In domesticated species, upregulated expression was observed in genes related to auxin and those involved in the efflux of heavy metals and harmful substances, with 36 genes included in the top 5% of DW scores. These findings provide insights into how domestication influences changes in crop traits. Thus, our findings may contribute to rapid breeding and the development of new varieties capable of growing in harsh natural environments. Hence, a new cultivation method called “de novo domestication” has been proposed, which combines the genetic diversity of currently unused wild relatives and wild relatives with genome editing technologies that enable rapid breeding. Full article

The domestication process not only reduced the allelic diversity of tomato genotypes but also affected the genetic traits associated to microbial recruitment, their composition, and their diversity in different compartments of the plant host. Additionally, this process included the transition from natural to agricultural soils, which differ in nutrient availability, physicochemical properties, and agricultural practices. Therefore, modern cultivars may fail to recruit microbial taxa beneficial to their wild relatives, potentially losing important ecological functions. In this study, we analyzed the phylogenetic relationship and the rhizosphere microbiota of four tomato genotypes, Solanum chilense (wild species), S. lycopersicum var. cerasiforme (Cherry tomato), and the S. lycopersicum landrace ‘Poncho Negro’ and the modern cultivar ‘Cal Ace’, grown in both natural and agricultural soils. Microbial communities were identified using 16S rRNA (bacteria) and ITS2 (fungi) amplicon sequencing, allowing cross-domain taxonomic characterization. While the soil type was the main driver of overall microbial diversity, the host genotype influenced the recruitment of specific microbial taxa, which exhibited different recruitment patterns according to the genetic diversification of Solanum genotypes and soil types. Additionally, co-occurrence network analysis identified two main clusters: first, taxa did not show any preferential associations to particular genotypes or soil types, while the second cluster revealed specific microbial patterns associated to fungal taxa in natural soil and bacterial taxa in agricultural soil. Finally, the functional analysis suggested the loss of specific functions through tomato domestication independently of soil type. These findings highlight the role of the plant genotype as a fine-tuning factor in microbiome assembly, with implications for breeding strategies aimed at restoring beneficial plant–microbe interactions. Full article

Water plays a critical role in ensuring sustainable food security, particularly in the face of increasing freshwater scarcity and climate variability. This study examines virtual water use and virtual water trade in Ghana’s vegetable production sector over a 30-year period (1994–2023), focusing on four key crops: tomato, pepper, onion, and eggplant. Using secondary data on production volumes, trade flows, and virtual water content, the research quantifies imported and exported virtual water volumes and assesses net virtual water trends. The results reveal a substantial increase in virtual water use for most crops, with the exception of pepper, which experienced a marked decline. Onion and tomato are identified as the dominant contributors to both imports and exports of virtual water, while pepper and eggplant play relatively minor roles. The study finds that Ghana is a net importer of virtual water in vegetable trade, emphasizing the need for integrated water resource management to balance agricultural growth with water sustainability. A gravity model analysis was applied to identify the primary determinants of virtual water trade, revealing that GDP per capita, population size, distance, land availability, virtual water use, and border-sharing significantly influence trade patterns. The findings suggest that enhancing domestic production capacity and promoting efficient water use practices can reduce Ghana’s reliance on imports and improve resilience against water-related risks. This research provides valuable insights for policymakers, researchers, and practitioners aiming to develop sustainable water and food systems in Ghana and similar contexts. Full article

The adoption of grafting machines has become an essential trend in the advancement of the vegetable nursery industry, driven by the aging population and the rapid growth of the vegetable sector. Domestic and foreign research organizations have designed various types of vegetable grafting devices for the huge nursery market. However, most of the machines developed and designed at home and abroad are now semi-automated and are thus highly susceptible to damaging the stems of the seedlings during operation. Therefore, in order to realize the complete automation of the grafting operation and improve the grafting survival rate and quality, in this paper, eggplant hole tray seedlings were grafted as the object, and the cutting mechanism, the integrated mechanism of clamping and fitting, and the wrapping mechanism were structured on the basis of the affixing method. The transition conversion from semi-automatic to fully automatic was realized. And the rationality of the design was verified via the cutting test and the clamping characteristic test, which maximized the fit rate between the cutting surface of the rootstock and the scion seedling and maximized the protection of the grafted seedling from damage in the clamping process. Finally, the device was tested using Torubam rootstock and a Nova 101 tomato scion. The results showed that the optimal cutting angles were 35° and 30° for rootstock and scion, respectively, and that the lengths of the cutting surfaces were 11.28 ± 0.18 mm and 11.43 ± 0.14 mm. The grafting efficiency of the machine was up to 700 grafts per hour, with an average grafting success rate of up to 95% and zero stem damage to the seedlings. The experiments proved that the structure design of the machine is reasonable, and it can fully improve the grafting efficiency and quality. Meanwhile, the research findings can provide a theoretical basis for the application of the latter in the field of plant grafting. The research results can effectively alleviate the dependence on manual labor in the nursery industry and further liberate the labor force. Full article

Pests and diseases have caused significant problems since the domestication of crops, resulting in economic loss and hunger. To overcome these problems, synthetic pesticides were developed to control pests; however, there are significant detrimental side effects of synthetic pesticides on the environment and human health. There is an urgent need to develop safer and more sustainable pesticides. Industrial hemp is a reservoir of compounds that could potentially replace some synthetic bactericides, fungicides, and insecticides. We determined the efficacy of industrial hemp extracts against Pseudomonas syringae pv. tabaci (PSTA), Pseudomonas syringae pv. tomato (PSTO), and Erwinia carotovora (EC). The study revealed a minimum inhibitory concentration (MIC) of 2.05 mg/mL and a non-inhibitory concentration (NIC) of 1.2 mg/mL for PSTA, an MIC of 5.7 mg/mL and NIC of 0.66 mg/mL for PSTO, and an MIC of 12.04 mg/mL and NIC of 5.4 mg/mL for EC. Time-kill assays indicated the regrowth of E. carotovora at 4 × MIC after 15 h and P. syringae pv. tomato at 2 × MIC after 20 h; however, P. syringae pv. tabaci had no regrowth. The susceptibility of test bacteria to hemp extract can be ordered from the most susceptible to the least susceptible, as follows: P. syringae pv. tabaci > P. syringae pv. tomato > E. carotovora. Overall, the data indicate hemp extract is a potential source of sustainable and safe biopesticides against these major plant pathogens. Full article

This study aimed to develop an active biodegradable bio-based (polylactic acid/PLA) equilibrium modified atmosphere packaging (EMAP) containing a carvacrol-emitting sachet (created by poly-hydroxybutyrate) (PLA-PHB-CARV) to extend the shelf-life of cherry tomatoes at 15 °C and 25 °C. Cherry tomatoes in macro-perforated polypropylene (PP) films (mimicking the commercial packaging) or in PLA-based micro-perforated film without the carvacrol sachet (PLA) were also tested. Weight loss, decay, headspace gases, pH, titratable acidity (TA), total suspended solids (TSS), ripening index, color, texture, total viable counts (TVC), and sensory analysis were performed. Decay was 40% in PLA-PHB-CARV, and 97% in PP after 20 days at 25 °C. PLA-PHB-CARV showed lower weight loss (p < 0.05) and stable firmness compared to PP and PLA at both temperatures. TSS and TA were not affected by the packaging at 15 °C, while at 25 °C, the TSS accumulation was inhibited in PLA-PHB-CARV compared to in PLA and PP (p < 0.05), indicating a notable delay in the ripening process. PLA-PHB-CARV retained their red color during storage compared to PP and PLA. Carvacrol addition inhibited TVC compared to PP and PLA by ca. 2.0 log CFU/g during storage at 25 °C, while at 15 °C, the packaging did not reveal a significant effect. Overall, the results indicated that the developed active EMAP may be adequately used as an advanced and alternative packaging for tomatoes or potentially other fruits with a similar respiration rate versus their conventional packaging, showing several advantages, e.g., a reduction in petrochemical-based plastics use, shelf-life extension of the packaged food, and consequently, the perspective of limiting food waste during distribution and retail or domestic storage. Full article

When plant-available phosphorus (P) is lost from a soil solution, it often accumulates in the soil as a pool of unavailable legacy P. To acquire legacy P, plants employ recovery strategies, such as forming associations with soil microbes. However, the degree to which plants rely on microbial associations for this purpose varies with crop domestication and subsequent breeding. Here, by generating microbial co-occurrence networks, we sought to explore rhizosphere bacterial interactions in low-P conditions and how they change with tomato domestication and breeding. We grew wild tomato, traditional tomato (developed circa 1900), and modern tomato (developed circa 2020) in high-P and low-P soil throughout their vegetative developmental stage. Co-occurrence network analysis revealed that as the tomatoes progressed along the stages of domestication, the rhizosphere microbiome increased in complexity in a P deficit. However, with the addition of P fertilizer, the wild tomato group became more complex, surpassing the complexity of traditional and modern tomato, suggesting a high degree of responsiveness in the rhizosphere microbiome to P fertilizer by wild tomato relatives. By illustrating these changing patterns of network complexity in the tomato rhizosphere microbiome, we can further understand how plant domestication and breeding have shaped plant–microbe interactions. Full article

Many studies have attempted to explore the changes in the structure and function of symbiotic microbiomes, as well as the underlying genetic mechanism during crop domestication. However, most of these studies have focused on crop root microbiomes, while those on leaf and fruit are rare. In this study, we generated a comprehensive dataset including the metagenomic (leaf) and metatranscriptomic (fruit pericarp in the orange stage) data of hundreds of germplasms from three tomato clades: Solanum pimpinellifolium (PIM), cherry tomato (S. lycopersicum var. cerasiforme) (CER), and S. lycopersicum group (BIG). We investigated the effect of domestication and improvement processes on the structure of the symbiotic microbiome of tomato leaf and fruit pericarp, as well as its genetic basis. We were able to obtain the composition of the symbiotic microbiome of tomato leaf and fruit pericarp, based on which the tomato clade (PIM, CER, or BIG) was predicted with high accuracy through machine learning methods. In the processes of tomato domestication and improvement, changes were observed in the relative abundance of specific bacterial taxa, Bacillus for example, in the tomato leaf and fruit pericarp symbiotic microbiomes, as well as in the function of these symbiotic microbiomes. In addition, SNP loci that were significantly associated with microbial species that are characteristic of tomato leaf were identified. Our results show that domestication and genetic improvement processes alter the symbiotic microbiome structure and function of tomato leaf and fruit pericarp. We propose that leaf and fruit microbiomes are more suitable for revealing changes in symbiotic microbiomes during the domestication process and the underlying genetic basis for these changes due to the exclusion of the influence of environmental factors such as soil types on the microbiome structure. Full article

Salinity stress impairs growth and physiological performance in tomato, which is one of the most economically important vegetables and is widely cultivated in arid and semi-arid areas of the world. Plant landraces, which are heterogeneous, local adaptations of domesticated species, offer a unique opportunity to valorize available germplasm, underpinning the productivity, resilience, and adaptive capacity of staple crops in vulnerable environments. Here, we investigated the response of fully mature tomato plants from a commercial variety, an ancestral wild relative, and a landrace under short-term salinity exposure, as well as their ability to recover upon cessation of stress. The heterogeneous panel evaluated in this study revealed different adaptative strategies to cope the stress. Our data highlighted the ability of the tomato clade to handle low and intermediate salinity stress for short-term exposure time, as well as its capacity to recover after the cessation of stress, although inter- and intraspecific variations in morphological and physiological responses to salinity were observed. Overall, the landrace and the wild type performed similarly to control conditions under low salinity, demonstrating an improved ability to maintain ionic balance. In contrast, the commercial genotype showed susceptibility and severe symptoms even under low salinity, with pronounced reductions in K⁺/Na⁺ ratio, PSII photochemical efficiency, and photosynthetic pigments. This research confirmed that improved salt tolerant genotypes can lead to substantial, positive impacts on horticultural production. While the salt tolerance mechanism of domesticated tomato was efficient under mild stress conditions, it failed at higher salinity levels. Full article

This study investigated the chemical and sensory distinctions in tomato fruits from three Physalis species (P. ixocarpa, P. angulata, and P. philadelphica) found in Michoacán, Mexico, using metabolomic fingerprinting through GC-MS analysis. The objective was to identify organoleptic differences that could influence consumer preferences, highlighting the significance of these species’ unique traits. These species represented a valuable genetic reservoir for potential hybridization or selection aimed at enhancing commercial varieties by focusing on organoleptic properties rather than traditional selection criteria like fruit size or yield. This research emphasizes the importance of preserving Mexican biodiversity and providing insights into domestication processes that prioritize flavor and sensory qualities. By analyzing metabolite profiles and their correlation with taste preferences, this study contributes to understanding how these differences could be leveraged in breeding programs to develop new tomato varieties with preferred flavors. It was suggested that variations in taste among the species are mainly due to differences in metabolite expression. This knowledge underscores the importance of organoleptic properties in the selection and domestication of edible fruits, offering a pathway toward the conservation and enhancement of tomato varieties through the exploitation of genetic diversity for organoleptic improvement. Full article

Volatile accumulation during tomato ripening greatly affects the fruit flavor. In this study, four accessions from each of the three tomato subgroups (BIG, S. lycopersicum, CER, S. lycopersicumvar. Cerasiforme, and PIM, S. pimpinellifolium) were subjected to a sensory evaluation. The CER subgroup had the highest fruit-flavor score. Using a Headspace solid-phase microextraction/gas chromatography-mass spectrometer (HP-SPME/GC-MS), a volatile database containing 94 volatiles was created. Pentanal accumulated in green fruits and 1-pentanol in red fruits. 1-Octen-3-ol was discovered to underlie the bitterness of green tomatoes, and it was most abundant in PIM green fruits. Phenylethyl alcohol affected the acidity and sweetness of red tomatoes, and it was most abundant in CER red fruits. Branched-chain volatiles were most abundant in PIM and BIG red fruits, while apocarotenoids were most abundant in CER red fruits. These findings suggest that domestication and improvement have influenced volatile content, and apocarotenoids and branched-chain volatiles synergistically mediated aromatic flavors in red fruits. This study provides a metabolic basis for analyses of the molecular mechanisms of fruit-flavor formation. Full article

The use of gene-editing tools, such as zinc finger nucleases, TALEN, and CRISPR/Cas, allows for the modification of physiological, morphological, and other characteristics in a wide range of crops to mitigate the negative effects of stress caused by anthropogenic climate change or biotic stresses. Importantly, these tools have the potential to improve crop resilience and increase yields in response to challenging environmental conditions. This review provides an overview of gene-editing techniques used in plants, focusing on the cultivated tomatoes. Several dozen genes that have been successfully edited with the CRISPR/Cas system were selected for inclusion to illustrate the possibilities of this technology in improving fruit yield and quality, tolerance to pathogens, or responses to drought and soil salinity, among other factors. Examples are also given of how the domestication of wild species can be accelerated using CRISPR/Cas to generate new crops that are better adapted to the new climatic situation or suited to use in indoor agriculture. Full article

Solanum lycopersicum, the domesticated species of tomato, is produced and consumed globally. It is one of the most economically important vegetable crops worldwide. In the commercial production of tomatoes, tomatoes are extremely sensitive to herbicide drifts from row crops in the vicinity. Injury to tomatoes from auxin herbicides and glyphosate can occur at rates as low as 0.01×. This results in a substantial yield reduction, and at high drift rates, plants may not show signs of recovery. With the new herbicide-resistant crop technologies on the market, which include 2,4-D and dicamba-resistant crops, there is an increase in the usage of these herbicides, causing more serious drift problems. There is a diverse germplasm of tomatoes that includes wild relatives which are tolerant to numerous biotic and abiotic stresses. Herbicide/chemical stress is an abiotic stress, and wild tomato accessions may have a natural tolerance to herbicides and other abiotic stresses. In the current study, diverse tomato genotypes consisting of 110 accessions representing numerous species, Solanum habrochaites, S. cheesmaniae, S. pimpinellifolium, S. chilense, S. lycopersicum, S. pimpinellifolium, S. galapagense, S. chimelewskii, S. corneliomulleri, S. neorickii, and S. lycopersicoides, were used for screening drift rate herbicide tolerance. The herbicides tested included simulated drift rates of 2,4-D, dicamba, glyphosate, quinclorac, aminopyralid, aminocyclopyrachlor, and picloram. The visual injury rating of each accession for each herbicide treatment was taken 7, 14, 21, and 28 days after treatment (DAT) on a scale of 0–100%. Numerous accessions were found to have minimal injury (less than 20%) for each of the herbicides tested; nine accessions were found for both 2,4-D and glyphosate, eleven for dicamba, five for quinclorac, eight for aminocyclopyrachlor and two for both aminopyralid and picloram at 28 DAT. The identification of genotypes with a higher herbicide tolerance will provide valuable genetic resources for the development of elite tomato varieties that can resist herbicide injury and produce competitive yields. Full article

Investigating the potential impacts of composting and recycling wastes on income distribution is crucial to promote a fairer and more sustainable fresh tomato supply chain (FTSC). Therefore, this study aims to explore the potential of generating extra income from recycling of tomatoes waste generated along the FTSC, and to analyze the impact of that extra income on reducing income inequality among the FTSC actors. Data were collected from 136 greenhouse tomato producers, 60 wholesalers, 18 exporters, 120 domestic retailers, 22 overseas retailers, and 3 recycling facilities in Türkiye. Marketing cost, absolute marketing margin, relative marketing margin and net profit margin were used to economically analyze the FTSCs. Research results showed that the net profit share of the producers decreased with the increasing number of intermediaries. Additionally, revenue generated from composting and recycling of product loss and wastes increased the welfare of greenhouse producers more than the other supply chain actors. When taking into account the revenue generated from composting and recycling of wastes, the net profit of the producers increased by 9.85% at first FTSC, while it increased by 8.29% and 9.21% in the second and third FTSCs, respectively, compared to the prevailing conditions. The retailers were benefitted more from the extra revenue generated via composting and recycling of wastes compared to the wholesalers and exporters. However, the income gain of the domestic retailers and wholesalers from recycling was more when compared to the overseas ones. Close cooperation between producers, wholesalers, exporters, retailers, and recycling facilities is essential for the effective implementation of waste recycling initiatives. Organizing training and education programs focused on waste management can increase the extra income that producers and active intermediaries in FTSCs can generate from composting and recycling of tomato wastes. Offering financial incentives, grants, or subsidies can encourage producers and other actors within the supply chain to adopt waste recycling practices. Continuous research and innovation are crucial in identifying and developing new technologies, processes, and strategies to minimize food loss and waste. Introducing fair-trade practices may help to balance the income distribution among FTSC actors. Full article

The ecology of greenhouse pests generally involves parasitoid or predatory insects. However, we investigated whether the leaf miner Tuta absoluta (Meyrick, 1917) (Lepidoptera: Gelechiidae) is part of the diet of domestic and synanthropic vertebrate animals, such as birds, reptiles, and mammals, and that take part in an ecosystem that contains a high density of tomato greenhouses. Feces from domesticated partridges, common quails, and chickens, as well as from wild lizards were collected within tomato greenhouses, and fecal pellets from bats, swallows, common swifts, and house martins living in the vicinity of tomato greenhouses were collected outside. The efficiencies of three different DNA extraction methods were compared on bird, reptile, and mammal stool samples, and the DNA extracts were analyzed using probe real-time PCR for the presence of T. absoluta DNA. The results showed that bats fed on the pest, which was also part of the diet of several bird species: partridges and common quails kept within tomato greenhouses and swallows and common swifts living outside but in the vicinity of tomato greenhouses. In addition, fecal samples of three lizard species living near tomato crops also tested positive for T. absoluta DNA. The results suggest that aerial foraging bats and insectivorous birds are part of ecosystems that involve leaf miners and tomato greenhouses. Full article