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A network of agronomists, researchers, and practitioners associated with cacao farming provided open access to their independent field trials across Latin America and the Caribbean (LAC). A centralized dataset was assembled using qualitative and quantitative data from 25 experimental field trials (hereafter referred to as “CacaoFIT”) spanning several LAC agroecosystems. This dataset was used to document the main traits and agroclimatic attributes of the cacao cultivation model being tested within the CacaoFIT network. By synthesizing data from an entire network of cacao trials, this study aimed to highlight specific design features and management practices that may contribute to better cacao farming sustainability. The CacaoFIT network comprises 200 ha of field trials testing over 150 cacao genotypes and set up under different shade canopy design, management, and research goals. Small-sized trials were common across Mesoamerica, whereas medium to large-size trials were distinct to South America. Cacao trials were 15 years old (on average) and ranged from 3 to 25 years of establishment. Most cacao trials were managed conventionally (i.e., 55%), while 20% were under organic practices, and the remaining 25% presented both conventional and organic management approaches. Most field trials (ca. 60%) planted an average of 10 international clones or national cultivars at high (1,230–1,500 plants ha−1) and medium density (833–1,111 plants ha−1). Mixed shade canopies were the dominant agroforestry model, while timber vs. leguminous shade canopies were also common. The diversity and depth of research domains examined across the CacaoFIT network varied widely. Agronomy and agroforestry topics dominated the research agenda across all trials, followed by environmental services domains. Cacao physiology and financial performance were researched to a lesser extent within the network. Five featured field trials from CacaoFIT offered technical guidelines to inform cacao farming within similar contexts. This collaborative work is a scaffold to encourage public–private partnerships, capacity building, and data sharing amongst cacao researchers across the tropics.

Cocoa attainable yields are affected by a complex of pests and diseases in a particular agro-environment. Estimation of yield loss is critical for agronomic and economic decision-making at the farm level. For over 15 months, we monitored 1100 pods from six cocoa clones (PMCT-58, CC-137, CATIE-R1 CATIE-R4, ICS-95, and CCN-51) to assess the incidence of pests and diseases and to elucidate their survival behavior. Cocoa clones grow in a 12-year timber-based cocoa agroforestry plot (1330 cocoa plants ha-1, 100 shade trees ha-1, and 65% shade cover), in La Montaña, Turrialba, Costa Rica. Between 6-12 trees and 120-140 pods per clone of four size classes (very small – 2.5-7 cm, small – 7.1-14 cm, medium – 14.1-21 cm, and large – ≥21 cm) were tagged and measured fortnightly. Pods were selected at two vertical strata along the tree trunk (below and above 1.5 m) and grouped into three generations (rainy, transition, and dry). Competitive risk and survival analysis were performed per clone, generation, pod size class, and pod position along the tree trunk. Overall, pods reached maturity at the age of 155-165 days and were exposed to several hazards that disrupted their development. The Cox model that better described the cumulative risk during pod development included two covariables with substantial explicative power, generation, and clones. Regardless of clone and pod generation, a combination of diseases/pests accounted for about 45% to 65% of yield losses. The Kaplan-Meier survival analysis showed that pod survival was similar between generations but differed among clones within generations. Pods from CATIE-R1, CATIE-R4 and CC-137 clones showed greater survival rates than those of ICS-95, CCN-51 and PMCT-58 clones. The position of the pod along the tree trunk did not influence pod survival rates. We combined pod counting and pod survival rates calculated in this study and contrasted our yield estimations against a widely used prediction method proposed by a certification body. Overall, yield estimated using the UTZ method applied to 90-day-old pods of CATIE-R1 clone consistently overestimated yield predictions in the range of 27-45%. We proposed the combination of pod counting and pod index with a set of clone-specific discount factors; the survival rates, to reliably forecast on-farm cacao yields over time.

Introduction. Genetic diversity, registration, and traceability of cacao planting material are the essential tripod to support its sustainable cultivation. In Nicaragua, cocoa planting material is mostly obtained from seeds, which leads to great variability in yield, bean quality, and tolerance to pests and diseases. Farmers, technical staff, development projects, and investors depend on a limited supply of elite trees as a reliable source of genetic material to support new cacao fronts and meet market quality standards. Therefore, the development of a national genetic improvement program and a planting material traceability system in Nicaragua are necessary to improve the sustainability of cacao cultivation. Objective. To evaluate the genetic resources on farms and provide information for future breeding programs, as well as to lay foundation for a national traceability and certification system. Materials and methods. Fourty-nine elite trees selected by farmers in the main producing regions in Nicaragua between 2018 and 2020 were sampled. Ninety-three SNP markers were used to characterize them and resolve their genetic origins. Results. The evaluated cacao trees had a narrow genetic background, mainly composed of hybrids with Amelonado (36 %), Criollo (17 %) and Iquitos (15 %) origins. A set of trees with high genetic diversity that could be incorporated into a selection and breeding program was identified. Conclusion. Fingerprinting with SNP markers was a useful tool for evaluating the genetic links of cultivated cacao and can be used for varietal identity test at the farm level. The study provided the basis for developing both a breeding program and a traceability system of cacao planting material in Nicaragua.

Coffee is deemed to be a high-risk crop in light of upcoming climate changes. Agroforestry practices have been proposed as a nature-based strategy for coffee farmers to mitigate and adapt to future climates. However, with agroforestry systems comes shade, a highly contentious factor for coffee production in terms of potential yield reduction, as well as additional management needs and interactions between shade trees and pest and disease. In this review, we summarize recent research relating to the effects of shade on (i) farmers' use and perceptions, (ii) the coffee microenvironment, (iii) pest and disease incidence, (iv) carbon assimilation and phenology of coffee plants, (v) coffee quality attributes (evaluated by coffee bean size, biochemical compounds, and cup quality tests), (vi) breeding of new Arabica coffee F1 hybrids and Robusta clones for future agroforestry systems, and (vii) coffee production under climate change. Through this work, we begin to decipher whether shaded systems are a feasible strategy to improve the coffee crop sustainability in anticipation of challenging climate conditions. Further research is proposed for developing new coffee varieties adapted to agroforestry systems (exhibiting traits suitable for climate stressors), refining extension tools by selecting locally-adapted shade trees species and developing policy and economic incentives enabling the adoption of sustainable agroforestry practices.

Cocoa cultivation is labeled as a driver of both deforestation and reforestation, yet the extent of the phenomena varies at farm and landscape level and as a response to national and local contexts. In this study, we documented the main pathways and contexts behind cocoa cultivation in two sites with different histories of cocoa cultivation. We combined official statistics, land-use trajectory, satellite imagery, and the Q-analysis to explore the discourses of country experts in Nicaragua and Peru. The Q-statements were based on an analysis of a set of legal, institutional, social, and technical guidelines that the cocoa cultivation/sector influences or is influenced by. Based on the responses of national experts to 31 statements we found four discourses linking cocoa cultivation and reforestation and deforestation in each country-case study. The enabling and limiting conditions driving tree cover change were a combination of landscape configuration, governance, management/commercialization models, and farmer's knowledge. Overall, between 60 and 64% of the variance was explained by four discourse factors in each country. In Nicaragua, the conditions associated with reforestation were the cocoa-agroforestry model promoted by local organizations/NGOs, the existence of incentives, degree of technical knowledge, access to safe market, and availability of improved genetic material. The circumstances associated with deforestation were the age of the farmers, fluctuation of cocoa beans prices, low productivity of cocoa plantations, and weak legal environmental frameworks. Whereas, in Peru, the main factors connecting cocoa cultivation to reforestation were access to market, degree of experimentation in cocoa, the economic weight of cocoa on family's income, certification processes, the existence of incentives, and the level of organization/association of cocoa farmers. The elements linking cocoa farming to deforestation were the influence of stakeholders in the cocoa value chain, weak legal environmental frameworks, fluctuation of cocoa prices, the existence of private investors, and insecure land tenure rights. This article demonstrated the utility of discourse analysis, through its application to two contrasting country case-studies, to elucidate the conditions that might minimize the deforestation footprint of cocoa cultivation and maximize its role as an agent for reforestation/restoration in the agricultural landscape of cocoa-growing areas in Latin America.

Abstract Background The fruity aromatic bouquet of coffee has attracted recent interest to differentiate high value market produce as specialty coffee. Although the volatile compounds present in green and roasted coffee beans have been extensively described, no study has yet linked varietal molecular differences to the greater abundance of specific substances and support the aroma specificity of specialty coffees. Results This study compared four Arabica genotypes including one, Geisha Especial, suggested to generate specialty coffee. Formal sensory evaluations of coffee beverages stressed the importance of coffee genotype in aroma perception and that Geisha Especial-made coffee stood out by having fine fruity, and floral, aromas and a more balanced acidity. Comparative SPME–GC–MS analyses of green and roasted bean volatile compounds indicated that those of Geisha Especial differed by having greater amounts of limonene and 3-methylbutanoic acid in agreement with the coffee cup aroma perception. A search for gene ontology differences of ripening beans transcriptomes of the four varieties revealed that they differed by metabolic processes linked to terpene biosynthesis due to the greater gene expression of prenyl-pyrophosphate biosynthetic genes and terpene synthases. Only one terpene synthase (CaTPS10-like) had an expression pattern that paralleled limonene loss during the final stage of berry ripening and limonene content in the studied four varieties beans. Its functional expression in tobacco leaves confirmed its functioning as a limonene synthase. Conclusions Taken together, these data indicate that coffee variety genotypic specificities may influence ripe berry chemotype and final coffee aroma unicity. For the specialty coffee variety Geisha Especial, greater expression of terpene biosynthetic genes including CaTPS10-like, a limonene synthase, resulted in the greater abundance of limonene in green beans, roasted beans and a unique citrus note of the coffee drink.

In the present paper, we evaluated the implementation of a seed production system based on the exploitation of male sterility on coffee. We studied specifically the combination between CIR-SM01 and Marsellesa® (a Sarchimor line), which provides a hybrid population called Starmaya. We demonstrated that the establishment of seed garden under natural pollination is possible and produces a sufficient amount of hybrid seeds to be multiplied efficiently and economically. As expected for F1 hybrid, the performances of Starmaya are highly superior to conventional cultivars. However, we observed some heterogeneity on Starmaya cultivar in the field. We confirmed by genetic marker analysis that the off-types were partly related to the heterozygosity of the CIR-SM01 clone and could not be modified. Regarding the level of rust resistance of Starmaya cv., we saw that it could be improved if Marsellesa was more fully fixed genetically. If so, we should be able to decrease significantly the percentage of rust incidence of Starmaya from 15 to 5%, which would be quite acceptable at a commercial level. Starmaya represents the proof of concept for the mass propagation of Arabica F1 hybrid seeds using male sterility. Finally, we discuss the possibility to increase the number of hybrid varieties produced by seed, exploring some initiatives to identify male sterility markers to induce male sterility on any conventional cultivar. This would definitively open up the universe of known Arabica cultivars to be used in breeding new F1 hybrids.

Phenolic compounds are involved in plant response to environmental conditions and are highly present in leaves of Coffea arabica L., originally an understory shrub. To increase knowledge of C. arabica leaf phenolic compounds and their patterns in adaptation to light intensity, mature leaves of Ethiopian wild accessions, American pure lines and their relative F1 hybrids were sampled in full sun or under 50% shade field plots in Mexico and at two contrasting elevations in Nicaragua and Colombia. Twenty-one phenolic compounds were identified by LC-DAD-MS2 and sixteen were quantified by HPLC-DAD. Four of them appeared to be involved in C. arabica response to light intensity. They were consistently more accumulated in full sun, presenting a stable ratio of leaf content in the sun vs. shade for all the studied genotypes: 1.6 for 5-CQA, F-dihex and mangiferin and 2.8 for rutin. Moreover, 5-CQA and mangiferin contents, in full sun and shade, allowed for differentiating the two genetic groups of Ethiopian wild accessions (higher contents) vs. cultivated American pure lines. They appear, therefore, to be potential biomarkers of adaptation of C. arabica to light intensity for breeding programs. We hypothesize that low 5-CQA and mangiferin leaf contents should be searched for adaptation to full-sun cropping systems and high contents used for agroforestry systems.