Twig-Nesting Ants: The Hidden Predators of the Coffee Berry Borer in Chiapas,Mexico

Coffee is a globally important crop that is subject to numerous pest problems, many of which are partially controlled by predatory ants. Yet several studies have proposed that these ecosystem services may be reduced where agricultural systems are more intensively managed. Here we investigate the predatory ability of twig-nesting ants on the main pest of coffee, the coffee berry borer (Hypothenemus hampei) under different management systems in southwest Chiapas, Mexico. We conducted both laboratory and field experiments to examine which twig-nesting ant species, if any, can prey on free-living borers or can remove borers embedded in coffee fruits and whether the effects of the twig-nesting ant community differ with habitat type. Results indicate that several species of twig-nesting ants are effective predators of both free-living borers and those embedded in coffee fruits. In the lab, Pseudomyrmex ejectus, Pseudomyrmex simplex, and Pseudomyrmex PSW-53 effectively removed free-living and embedded borers. In the field, abundance, but not diversity, of twig-nesting ant colonies was influenced by shade management techniques, with the highest colony abundance present in the sites where shade trees were recently pruned. However, borer removal rates in the field were significant only in the shadiest site, but not in more intensively managed sites. This study provides evidence that twig-nesting ants can act as predators of the coffee berry borer and that the presence of twig-nesting ants may not be strongly linked to shade management intensity, as has been suggested for other arthropod predators of the borer.     

Emergent spatial structure and pathogen epidemics: the influence of management and stochasticity in agroecosystems

Organisms susceptible to disease, from humans to crops, inevitably have spatial geometry that influence disease dynamics. Understanding how spatial structure emerges through time in ecological systems and how that structure influences disease dynamics is of practical importance for natural and human management systems. Here we use the perennial crop, coffee, Coffea arabica, along with its pathogen, the coffee leaf rust, Hemileia vastatrix, as a model system to understand how spatial structure is created in agroecosystems and its subsequent influence on the dynamics of the system. Here, we create a simple null model of the socio-ecological process of death and stochastic replanting of coffee plants on a plot. We then use spatial networks to quantify the spatial structures and make comparisons of our stochastic null model to empirically observed spatial distributions of coffee. We then present a simple model of pathogen spread on spatial networks across a range of spatial geometries emerging from our null model and show how both local and regional management of agroecosystems interact with space and time to alter disease dynamics. Our results suggest that our null model of evolving spatial structure can capture many critical features of how the spatial arrangement of plants changes through time in coffee agroecosystems. Additionally, we find small changes in management factors that can influence the scale of pathogen transmission, such as shade tree removal, and result in a rapid transition to epidemics with lattice-like spatial arrangements but not with irregular planting geometries. The results presented here may have practical implications for farmers in Latin America who are in the process of replanting and overhauling management of their coffee farms in response to a coffee leaf rust epidemic in 2013. We suggest that shade reduction in conjunction with more lattice-like planting schemes may result in coffee being more prone to epidemic-like dynamics of the coffee leaf rust in the future.     

Effects of forest management on mating patterns,pollen flow and intergenerational transfer of genetic diversity in wild Arabica coffee (Coffea arabica L.) from Afromontane rainforests

Coffea arabica, the wild ancestor of all commercial Arabica coffee cultivars worldwide, is endemic to the montane rainforests of Ethiopia. These forests, which harbour the most important C. arabica gene pool, are threatened by increasing anthropogenic disturbance, potentially altering the mating patterns, pollen dispersal and maintenance of genetic diversity in C. arabica understorey populations. We genotyped 376 adult coffee shrubs and 418 progenies from three natural unmanaged, and three highly managed coffee populations, using 24 microsatellite markers. Mating system analysis of C. arabica yielded an overall multilocus outcrossing rate of 76%, which contrasts with the common knowledge that C. arabica is a predominantly selfing species. In highly managed coffee populations, paternity could be assigned to 78% of the progenies, whereas in the unmanaged natural coffee populations, only 57% of the progenies could be assigned to a father, indicating reduced long‐distance pollen dispersal in managed forests. Furthermore, the fraction of selfed progenies was significantly higher in managed (23%) than unmanaged (10%) coffee forests. Finally, the lack of spatial genetic structure in all studied populations suggests high seed dispersal in unmanaged populations, and intense berry harvesting and coffee planting in the managed populations. Our results imply that in situ conservation of the wild gene pool of C. arabica must focus on limiting intensification of coffee forest management, as decreased pollen dispersal and increased selfing in C. arabica in intensively managed populations may increase the risk of genetic erosion. © 2014 The Linnean Society of London, Biological Journal of the Linnean Society, 2014, 112 , 76–88.     

Habitat Selection of Female Turkeys in a Managed Pine Landscape in Mississippi

Abstract: Intensive pine (Pinus spp.) management is a dominant form of forest management in the southeastern United States. Previous research has shown that managed pine forests provide suitable habitat for eastern wild turkeys (Meleagris gallopavo silvestris), but little research has examined seasonal habitat selection for female wild turkeys from a landscape perspective, particularly within managed pine landscapes. Therefore, we used a long-term (1986-1993) data set to describe seasonal habitat selection by female wild turkeys, using an information-theoretic approach from a landscape perspective, on an intensively managed pine landscape. Habitat use patterns during preincubation and autumn-winter were indicative of female wild turkeys moving between a bottomland hardwood-agricultural field complex during autumn-winter and upland managed pine stands during the remainder of the year. During spring and summer, female wild turkeys used landscapes primarily composed of intensively managed pine, including thinned and burned stands and roadsides. Our results confirm results of short-term, stand-based habitat analyses on our study area. We recommend variable fire return intervals of 3 to 7 years to improve habitat conditions for wild turkeys within intensively managed pine forests. Further research is needed to examine management actions, such as thinning, prescribed fire, and herbicide use, within the context of wild turkey use of intensively managed pine landscapes.     

Abundance of Coffee berry borer in feral,abandoned and managed coffee on Hawaii Island

Coffee berry borer (Hypothenemus hampei Ferrari), the most damaging insect pest of coffee worldwide, was first detected on Hawaii Island in 2010. Poorly managed, abandoned and feral coffee sites on the island have since been thought to harbour coffee berry borer (CBB) populations, which then negatively impact neighbouring coffee farms. In the present study, we sought to quantify CBB abundance in these sites, which vary in management intensity and vegetation structure and diversity. We collected data on trap catch as a measure of CBB flight activity, fruit production and fruit infestation by CBB in eight well-managed farms and sites that were either poorly managed, abandoned or feral (wild) coffee. Sites were sampled bi-weekly over a period of 2 years from 2016 to 2017. We found that CBB flight activity was significantly higher in poorly managed sites relative to abandoned and feral sites, but was not significantly different from well-managed sites. Coffee production in well-managed farms was significantly higher than in abandoned and feral sites, but was not significantly different from poorly managed farms. CBB infestation in poorly managed sites was significantly higher than that observed in well-managed, abandoned and feral sites. We estimated an average load of 11–25 CBB per branch at poorly managed sites, compared to 3–9 per branch at well-managed sites, 1–16 per branch at abandoned sites and 1–3 per branch at feral sites. Our findings suggest that poorly managed sites should be prioritized for implementation of CBB control measures as part of a landscape-level integrated pest management (IPM) programme.     

Local and Regional Variation in Local Frequency of Multiple Coffee Pests Across a Mosaic Landscape in Coffea arabica's Native Range

Shaded coffee has been highlighted for its potential to conserve biodiversity, and thus perhaps also a diversity of natural enemies that could control pest organisms. In southwestern Ethiopia, coffee is grown in shade both in contiguous forests and in forest patches with native trees surrounded by open fields. We hypothesized that coffee grown in contiguous forests, which is the natural habitat for coffee (Coffea arabica) and its interacting organisms, would have less pest damage due to high protection by natural enemies. We surveyed pests on coffee plants in plots within contiguous forests (10 sites) and in forest patches (21 sites). In general, the variation in number of damaged or attacked leaves by individual insect or fungal pests was larger between plants than between plots, which suggests that very local conditions or processes are important. The spatial signals were generally weak. Coffee rust and coffee blotch miner tended to have lower infestation rates in accordance with our hypothesis, while fruit flies in ripe berries were more abundant in forest patches closer to contiguous forest. Based on interviews, olive baboons showed a clear dependency on contiguous forest habitat and were regarded as a problem only in contiguous forests and forest patches close to contiguous forests. In conclusion, we found no support for a generally stronger top‐down control on coffee pests in sites within, or with connectivity to, contiguous moist afromontane forests in the native range of coffee.     

Ricoseius loxocheles,a phytoseiid mite that feeds on coffee leaf rust

One of the most important diseases of coffee plants is the coffee leaf rust fungus Hemileia vastatrix Berkeley and Broome (Uredinales). It can cause 30 % yield loss in some varieties of Coffea arabica (L.). Besides fungus, the coffee plants are attacked by phytophagous mites. The most common species is the coffee red mite, Oligonychus ilicis McGregor (Acari: Tetranychidae). Predatory mites of the Phytoseiidae family are well-known for their potential to control herbivorous mites and insects, but they can also develop and reproduce on various other food sources, such as plant pathogenic fungi. In a field survey, we found Ricoseius loxocheles (De Leon) (Acari: Phytoseiidae) on the necrotic areas caused by the coffee leaf rust fungus during the reproductive phase of the pathogen. We therefore assessed the development, survivorship and reproduction of R. loxocheles feeding on coffee leaf rust fungus and measured predation and oviposition of this phytoseiid having coffee red mite as prey under laboratory conditions. The mite fed, survived, developed and reproduced successfully on this pathogen but it was not able to prey on O. ilicis. Survival and oviposition with only prey were the same as without food. This phytoseiid mite does not really use O. ilicis as food. It is suggested that R. loxocheles is one phytoseiid that uses fungi as a main food source.     

Altitude and coffee production systems influence extent of infestation and bean damage by the coffee berry borer

The coffee berry borer (CBB), Hypothenemus hampei Ferrari (Coleoptera: Curculionidae: Scolytinae), is one of the major insect pests of coffee worldwide. The present study was designed to assess the level of infestation of coffee berries at different developmental stages across different altitudes and coffee management systems. The experiment was carried out at three locations in southwestern Ethiopia under two coffee management systems and four coffee berry development stages with three replications. Results of the study showed significantly highest proportion of damaged berries (37.5%), number of holes per berry (10.88) and number of adult CBB per berry (7.55) on dried leftover berries at low-altitude study sites. On the other hand, the lowest mean percent damaged berries, number of holes per berry and number of adults were recorded at mid- and high-altitude study sites. The study also showed that, CBB caused significantly highest damage in plantation coffee management system than garden coffee. Results of this study highlight proper harvesting at red ripe stage in order to minimise incidence of CBB. It is also important to design integrated management strategies to mitigate CBB damage especially in lowland plantation coffee production systems.     

Epicatechin and catechin may prevent coffee berry disease by inhibition of appressorial melanization of Colletotrichum kahawae

Colletotrichum kahawae is the causal agent of coffee berry disease. Appressorial melanization is essential for the fungal penetration of plant cuticle. Epicatechin is abundant in green coffee berry pericarp. Inoculation of C. kahawae conidial suspension containing 1.2 mg epicatechin or catechin/ml did not affect conidial germination or appressorial formation but appressorial melanization was completely inhibited and infection by the treated conidia was less than 30% of the untreated control. Epicatechin and catechin may, therefore, prevent coffee berry disease by inhibition of the appressorial melanization of C. kahawae.     

Effects of Agricultural Intensification on the Assemblage of Leaf-Nosed Bats (Phyllostomidae) in a Coffee Landscape in Chiapas,Mexico

The agricultural matrix surrounding forested areas serves critical functions as dispersal corridors and alternate habitat for wildlife. Agricultural intensification, however, can reduce the conservation value of these areas. To evaluate the effects of agroecosystem management on bat assemblages, we studied the abundance and diversity of leaf-nosed bats (family: Phyllostomidae) in southwestern Chiapas, Mexico, a landscape dominated by shade coffee agroforestry. During 2104 mist-net hour (MNH), we captured 3167 bats of 27 phyllostomid species. Total species richness in each land-use type varied from 24 species in forest fragments to 22 species in commercial shade polycultures. Although the cumulative observed species richness showed little change in response to management intensity, the number of bats captured per MNH declined significantly in the more intensively managed (i.e., low-shade monocultures) plantations. Intensively managed coffee plantations had lower phyllostomid diversity and species similarity, and had lower proportions of nectarivorous and animalivorous bats. Among frugivores, the proportion of large (>25 g) frugivores captured increased with management intensity. Recapture frequency was significantly higher than expected in forest fragments, and lower than expected in more intensively managed coffee. Our results suggest that less intensively managed coffee agroforests can serve as valuable feeding and commuting areas for most leaf-nosed bats, and that maintaining forest fragments in agricultural landscapes contributes to bat diversity. Declines in populations of gleaning insectivores, however, could compromise natural suppression of insect pests in these agricultural areas.     

Simplification of a coffee foliage-dwelling beetle community under low-shade management

Coffee agroforests may be structurally and floristically complex and may contain a significant fraction of species from biodiverse and threatened tropical montane forest biotas; hence, understanding the dynamics of tropical forest biodiversity in coffee agroecosystems has emerged as a centrally important area of tropical conservation biology research. We conducted a morphospecies analysis on foliage-dwelling beetles collected from coffee plants on four coffee farms in southern Chiapas, Mexico, to characterize variation in the abundance, species richness, and species composition of this mega-diverse taxon in relation to coffee cultivation system, spatio-temporal variation, and predator removal. We constructed thirty-two cages to exclude birds and bats on four farms, each enclosing 7–10 coffee plants and paired with an adjacent uncaged control plot, and then collected beetles from coffee foliage with D-Vac aspirators in each plot once every 3 months for one year.We classified the 2662 beetles collected into 293 morphospecies, representing 42 families of beetles. Extrapolation and interpolation analyses revealed a very high level of species richness, with no plateau and only a slight leveling trend observed in our species accumulation curves. We found that low-shade systems contain equal or higher beetle abundance, lower species richness, more highly homogenized species composition, and higher abundance of coffee berry borer pests on coffee foliage than do high-shade systems. We observed no effect of flying vertebrate exclusion on the coffee foliage beetle assemblage, but did find significant variation in abundance, species richness, and species composition of coffee foliage beetles across seasons and study sites.The increased beetle biodiversity of high-shade coffee cultivation systems has important implications both for the preservation of native biodiversity in coffee growing regions and for the control of agricultural pests such as the coffee berry borer.     

Suppression of Rust and Brown Eye Spot Diseases on Coffee by Phosphites and By‐products of Coffee and Citrus Industries

The rust and brown eye spot, caused by Hemileia vastatrix and Cercospora coffeicola, respectively, are the most important fungal diseases on coffee in South America. Their management is mainly by chemical treatment, and there is no genetic resistance to brown eye spot known so far. Considering the need for developing alternative products for their control, the goal of this work was to evaluate the effects of phosphites and by‐products of coffee and citrus industries on rust and brown eye spot. Formulations of coffee and citrus industry by‐products, phosphites and their combination with fungicide were evaluated in field experiments, and their effect on fungal urediniospores and conidia was evaluated in vitro. In the field, treatments were applied individually or in combination and the in vitro assays were performed with manganese phosphite (Reforce Mn), potassium phosphite and citrus industry by‐product (Fortaleza), copper phosphite and coffee industry by‐product (Fitoforce Full), and fungicide. The severity and incidence of rust and brown eye spot on coffee leaves, yield, and leaf retention were evaluated in the field. Percentage of spore germination was evaluated in vitro for both fungi, whereas mycelial growth was evaluated for C. coffeicola only. The treatments Fortaleza, Reforce Mn and Fitoforce Full suppressed both diseases with a reduction in defoliation. In the year 2012, the plants treated with Reforce Mn and Reforce Mn + Fortaleza showed a yield increase of 72 and 88%, respectively, which was similar to the results shown by the fungicide treatment. In vitro inhibition of germination of H. vastatrix urediniospores and of C. coffeicola conidia was observed and suggests that the products exert some toxic effects to both fungi. Finally, the results observed indicate that the combined use of by‐products of plant‐processing industries and phosphites is an alternative and can be added efficiently to the management of coffee diseases.     

Resistance inducers applied alone or in association with fungicide for the management of leaf rust and brown eye spot of coffee under field conditions

The use of resistance inducers is a promising development in the management of plant diseases, owing to their ability to control a broad spectrum of pathogens and improve the efficacy of fungicides. This study evaluates different sources of phosphonates (potassium, manganese, copper), a formulation prepared from the by‐products of the coffee industry (Greenforce CuCa), as well as the effects of their application, alone or in association with fungicide, in the management of two important coffee fungal diseases in Brazil: leaf rust and brown eye spot, caused by Hemileia vastatrix and Cercospora coffeicola, respectively. The effect of these products on defoliation, productivity and chemical composition of coffee beans (content of trigonelline, chlorogenic acid, caffeine and total soluble solids) was evaluated. Among all the alternative products tested individually, potassium phosphonate (P₂O₅—33.6% + K₂O—29%) stood out, particularly for rust control, which was similar to the results of fungicide treatments. Treatments with fungicide, Greenforce CuCa and cuprous oxide, individually, caused less plant defoliation. Regarding the chemical composition of the coffee beans, the manganese phosphonate treatment showed the highest values for trigonelline, chlorogenic acid, caffeine and total soluble solid content. The results of this study show that resistance inducers can be useful in disease management, may come to eventually replace traditional fungicides and can also contribute to the beverage quality.     

Sterile males of Ceratitis capitata (Diptera: Tephritidae) as disseminators of Beauveria bassiana conidia for IPM strategies

Sterile Mediterranean fruit fly, Ceratitis capitata (Wied.), males were evaluated as vectors to spread Beauveria bassiana (Bals) conidia to wild C. capitata populations under field conditions. The inoculated sterile males were released by air, using the chilled adult technique over 7000 ha of coffee growing in Chimaltenango, Guatemala, Central America. The impact of releases was determined using dry traps baited with a food attractant. The effects of these releases on Apis mellifera, Linnaeus (honey bee), Hypothenemus hampei, Ferrari (coffee berry borer) and the parasitic mite Varroa destructor (Oudeman) were also evaluated. Inoculated sterile males were able to transmit fungal spores to 44% of the wild C. capitata flies captured in traps, which likely were infected through intra- and intersexual interactions during leks, mating or mating attempts. There was no transmission of the fungal spores to non-target insect species such as coffee berry borer, honey bees or varroa. We conclude that sterile males of Mediterranean fruit fly inoculated with B. bassiana can act as effective vectors of conidia to wild populations, constituting a safe, environmentally friendly and selective alternative for suppressing the medfly under a Sterile Insect Technique-based IPM approach.     

Influence of Forest Management on the Species Richness and Composition of Wood-inhabiting Basidiomycetes in Swiss Forests

In order to investigate the diversity of wood-inhabiting aphyllophoroid basidiomycetes in Swiss forests, 86 plots of 50 m ² were established. They harboured a total of 3339 samples of woody debris, classified according to three categories (coarse, fine, and very fine woody debris), yielding 238 species of wood-inhabiting fungi. The selected sites cover the main forest types of Switzerland and various degrees of management intensity. A multiple linear regression analysis showed that substrate variation, i.e. differences in the quality of dead wood, including volume, age, degree of decomposition and host tree species, are the most important factors influencing diversity of wood-inhabiting fungi. In addition, a Principle Coordinate Analysis highlighted differences in the fungal communities in the different forest types. The greatest fungal species richness is found on thermophilic deciduous tree and woody shrub species. Fine and very fine woody debris, even present in intensively managed forests, often serve as important refuges for many species. Forests with a recent management intervention were found to be either species poor or species rich. Possible reasons for these differences may lay in forest size and landscape fragmentation, the distance to the nearest species pool or microclimatic factors. In Switzerland intensively managed forests harbour significantly less wood-inhabiting, aphyllophoroid fungi than non-managed or extensively managed forests. This is the case in both deciduous forests and in conifer forests. However, occasionally intensively managed forest will also harbour rare and endangered species.     

Inoculum sources for coffee berry disease*

Isolates of Colletotrichum spp. from coffee berries and bark in Kenya fell into four categories, distinguishable by their cultural characteristics on agar. Three of these proved non-pathogenic; the fourth invariably infected both wounded and unwounded berries and caused coffee berry disease. The sporulating capacity on bark of the various Colletotrichum strains showed peaks in the periods before both the long and the short rains. The pathogenic strain made up only a very small proportion of the whole Colletotrichum complex on the bark and its sporulating capacity never exceeded twenty spores/cm²/h. By contrast, a green berry with an active coffee berry disease lesion produced 5×10⁴conidia/h and an infected ripe berry twice as many. It is concluded that in any year, regardless of cropping pattern, diseased berries are likely to play an important role in the development of coffee berry disease.     

Cryptosexuality and the genetic diversity paradox in coffee rust, Hemileia vastatrix

Background

Despite the fact that coffee rust was first investigated scientifically more than a century ago, and that the disease is one of the major constraints to coffee production - constantly changing the socio-economic and historical landscape of the crop - critical aspects of the life cycle of the pathogen, Hemileia vastatrix, remain unclear. The asexual urediniospores are regarded as the only functional propagule: theoretically, making H. vastatrix a clonal species. However, the well-documented emergence of new rust pathotypes and the breakdown in genetic resistance of coffee cultivars, present a paradox.

Methods and Results

Here, using computer-assisted DNA image cytometry, following a modified nuclear stoichiometric staining technique with Feulgen, we show that meiosis occurs within the urediniospores. Stages of spore development were categorised based on morphology, from the spore-mother cell through to the germinating spore, and the relative nuclear DNA content was quantified statistically at each stage.

Conclusions

Hidden sexual reproduction disguised within the asexual spore (cryptosexuality) could explain why new physiological races have arisen so often and so quickly in Hemileia vastatrix. This could have considerable implications for coffee breeding strategies and may be a common event in rust fungi, especially in related genera occupying the same basal phylogenetic lineages.     

Spiroacetals in the Colonization Behaviour of the Coffee Berry Borer: A ‘Push-Pull’ System

Coffee berries are known to release several volatile organic compounds, among which is the spiroacetal, conophthorin, an attractant for the coffee berry borer Hypothenemus hampei. Elucidating the effects of other spiroacetals released by coffee berries is critical to understanding their chemo-ecological roles in the host discrimination and colonization process of the coffee berry borer, and also for their potential use in the management of this pest. Here, we show that the coffee berry spiroacetals frontalin and 1,6-dioxaspiro [4.5] decane (referred thereafter as brocain), are also used as semiochemicals by the coffee berry borer for host colonization. Bioassays and chemical analyses showed that crowding coffee berry borers from 2 to 6 females per berry, reduced borer fecundity, which appeared to correlate with a decrease in the emission rates of conophthorin and frontalin over time. In contrast, the level of brocain did not vary significantly between borer- uninfested and infested berries. Brocain was attractive at lower doses, but repellent at higher doses while frontalin alone or in a blend was critical for avoidance. Field assays with a commercial attractant comprising a mixture of ethanol and methanol (1∶1), combined with frontalin, confirmed the repellent effect of this compound by disrupting capture rates of H. hampei females by 77% in a coffee plantation. Overall, our results suggest that the levels of frontalin and conophthorin released by coffee berries determine the host colonization behaviour of H. hampei, possibly through a ‘push-pull’ system, whereby frontalin acts as the ‘push’ (repellent) and conophthorin acting as the ‘pull’ (attractant). Furthermore, our results reveal the potential use of frontalin as a repellent for management of this coffee pest.     

A landscape ecology approach identifies important drivers of urban biodiversity

Cities are growing rapidly worldwide, yet a mechanistic understanding of the impact of urbanization on biodiversity is lacking. We assessed the impact of urbanization on arthropod diversity (species richness and evenness) and abundance in a study of six cities and nearby intensively managed agricultural areas. Within the urban ecosystem, we disentangled the relative importance of two key landscape factors affecting biodiversity, namely the amount of vegetated area and patch isolation. To do so, we a priori selected sites that independently varied in the amount of vegetated area in the surrounding landscape at the 500‐m scale and patch isolation at the 100‐m scale, and we hold local patch characteristics constant. As indicator groups, we used bugs, beetles, leafhoppers, and spiders. Compared to intensively managed agricultural ecosystems, urban ecosystems supported a higher abundance of most indicator groups, a higher number of bug species, and a lower evenness of bug and beetle species. Within cities, a high amount of vegetated area increased species richness and abundance of most arthropod groups, whereas evenness showed no clear pattern. Patch isolation played only a limited role in urban ecosystems, which contrasts findings from agro‐ecological studies. Our results show that urban areas can harbor a similar arthropod diversity and abundance compared to intensively managed agricultural ecosystems. Further, negative consequences of urbanization on arthropod diversity can be mitigated by providing sufficient vegetated space in the urban area, while patch connectivity is less important in an urban context. This highlights the need for applying a landscape ecological approach to understand the mechanisms shaping urban biodiversity and underlines the potential of appropriate urban planning for mitigating biodiversity loss.     

Partial resistance to leaf rust (Hemileia vastatrix) in coffee (Coffea arabica L.): genetic analysis and molecular characterization of putative candidate genes

One of the major production limiting diseases in coffee is the orange leaf rust caused by the fungus Hemileia vastatrix (Berkeley and Broome). Little is known about the inheritance and genetic determinism of partial resistance in coffee (C. arabica L.) to H. vastatrix. This information would be useful to breed durable resistant cultivars efficiently. In this report, a genetic analysis of partial resistance to leaf rust in Coffea arabica was performed using nine segregating progenies from a cross between the susceptible variety Caturra and the resistant introgressed line DI200. Evolution of partial resistance was evaluated under field conditions by measuring rust incidence (RI) and defoliation (DEF) in two separate regions of productive branches per tree and during four successive years (2003–2006). Genetic components of rust resistance were estimated using the Means and Variance Generation Method, under an additive-dominant model. The most important genetic effect was the additive one, while resistance heritability estimates ranged from 73 to 53% for broad and narrow sense heritabilities, respectively. Genetic estimates for the number of segregating genes showed that at least five independent genes or genetic regions are implicated in the partial resistance to rust. We further analyzed the presence of resistance (RGC) and defense (DGC) gene candidates in the resistant and susceptible parents by using a degenerated-primer PCR approach. A total of 40 different genomic coffee sequences were isolated exhibiting strong similarity to known RGC or DGC homologous. Phylogenetic analysis clustered these sequences into nine families. One family exhibited the TIR protein element, representing the first TIR class proteins identified in coffee. While genetic analysis suggest a predictable success in the processes to improve the selection of resistant lines for future varieties with durable resistance, the molecular characterization of candidate genes represent a primary approach towards the identification of mechanisms involved in partial resistance to coffee leaf rust.