A new species of Galipea (Rutaceae) from Nicaragua and Costa Rica

Galipea granulosa from Nicaragua and adjacent Costa Rica is described and illustrated and its similarities toG. longiflora are discussed.     

Distribution and diversity of begomoviruses in tomato and sweet pepper plants in Costa Rica

Begomoviruses (genus Begomovirus, family Geminiviridae) have emerged as important plant pathogens in tropical and subtropical regions worldwide. Although these viruses were reported during the 1970s in Costa Rica, they are still poorly known. Therefore, the objective of this study was to analyse the diversity and distribution of begomoviruses in commercial tomato and sweet pepper fields from different agricultural production systems of the major growing regions of Costa Rica. A total of 651 plants were randomly sampled from greenhouses and open field crops during 2011 and 2012 in three different geographical locations. The bipartite begomoviruses Tomato yellow mottle virus, Tomato leaf curl Sinaloa virus and Pepper golden mosaic virus, and the monopartite begomovirus Tomato yellow leaf curl virus were detected in the collected samples. The complete genome of isolates from each species was cloned and sequenced. The frequency of detection of these four begomoviruses in the analysed samples ranged from 0 to 9%, the presence, and the prevalent virus varied largely according to the geographical location, the host (tomato and pepper), and the production system (greenhouses or open fields). An association between geographical region and begomovirus species was observed suggesting that in Costa Rica the heterogeneity on climate, topography and agricultural system might influence the distribution of begomovirus species in the country. A broader survey needs to be conducted to confirm it, although these preliminary results may contribute to the management of begomoviruses in Costa Rica.     

History of leukemia research in Costa Rica

A review of leukemia worldwide is discussed, focusing on etiology, diagnosis and treatment. The history of research of this type of cancer in Costa Rica is presented through the first hospital diagnosis, the arrival of clinical and laboratory hematologists, the establishment of specialized laboratories, the local hematology teaching programs and the voluntary associations that help patients with leukemia. A brief review of Costa Rican publications in this area and the future of this problem in our country is also shown.     

Current estate of biotechnology in Costa Rica

A study was carried out on the construction of indicators in biotechnology in Costa Rica as part of the project "SYMBIOSIS, Cooperative Program for the Construction of Indicators in Biotechnology adapted to Latin American and Caribbean countries, to motivate the application and transference of industrial technologies". The study focused on two units: researchers and research projects developed in Costa Rica, between 1998 and 2002. For researchers, information was collected about indicators related to sex, age, teaching activities, number of projects, academic degree, area of speciality and number of publications. For research projects we obtained information about: speciality, sector of application, duration of projects and number of researchers per project. Very interesting results include the high participation of the women in this area of investigation (54%); the low participation of young researchers (13% younger than 30), and a high proportion of the investigators that are responsible for 4 or more projects (42%). With relation to the specialities of the projects, the majority are in the category Bio-Agro (39%) whereas in Acuaculture only 1% was found. The sectors of application with the most number of projects are: Agriculture and Livestock (37%) and Human Health (35%). The main strengthts and limitatations for the development of biotechnology in Costa Rica are discussed.     

Distribution and ecology of myxomycetes in the high-elevation oak forests of Cerro Bellavista, Costa Rica

Myxomycetes associated with a high-elevation (>3000 m) oak forest in the Talamanca Range of Costa Rica were studied for 7 mo. Field collections were supplemented with collections obtained from moist chamber cultures prepared with samples of bark and ground litter of Quercus costaricensis. Various microenvironmental parameters including pH, substrate moisture and diameter, height above the ground and canopy openness were recorded for each field collection, whereas macroenvironmental data for temperature and precipitation were obtained from a meteorological station near the study area. Niche breadth and niche overlap indices were calculated to assess possible resource partitioning by myxomycetes. Thirty-seven species were recorded, including 11 new records for Costa Rica, eight for Central America and one for the neotropics. Both PCA and NMS multivariate analyses indicated that pH and height above the ground explained most of the observed variation, although substrate diameter also seemed to be an important factor. Precipitation showed an inverse correlation with the number of fruitings, confirming its importance as a macroenvironmental factor. Niche overlap values were not higher for closely related species and values for niche breadths were similar for most of the more common species, suggesting that most members of the assemblage of myxomycetes present in the study site are ecological generalists.     

Basic limnology of fifty-one lakes in Costa Rica

We visited 51 lakes in Costa Rica as part of a broad-based survey to document their physical and chemical characteristics and how these relate to the mode of formation and geographical distribution of the lakes. The four oxbow lakes were low in elevation and tended to be turbid, high in conductivity and CO2, but low in dissolved O2; one of these, L. Gandoca, had a hypolimnion essentially composed of sea water. These were similar to the four wetland lakes, but the latter instead had low conductivities and pH, and turbidity was often due to tannins rather than suspended sediments. The thirteen artificial lakes formed a very heterogenous group, whose features varied depending on local factors. The thirteen lakes dammed by landslides, lava flows, or lahars occurred in areas with steep slopes, and were more likely to be stratified than most other types of lakes. The eight lakes that occupy volcanic craters tended to be deep, stratified, clear, and cool; two of these, L. Hule and L. Río Cuarto, appeared to be oligomictic (tending toward meromictic). The nine glacial lakes, all located above 3440 m elevation near Cerro Chirripó, were clear, cold, dilute, and are probably polymictic. Cluster analysis resulted in three significant groups of lakes. Cluster 1 included four calcium-rich lakes (average 48 mg l-1), Cluster 2 included fourteen lakes with more Si than Ca+2 and higher Cl- than the other clusters, and Cluster 3 included the remaining thirty-three lakes that were generally less concentrated. Each cluster included lakes of various origins located in different geographical regions; these data indicate that, apart from the high-altitude glacial lakes and lakes in the Miravalles area, similarity in lake chemistry is independent of lake distribution.     

Prenatal diagnosis of chromosomic defects in Costa Rica

This is an historical overview of prenatal cytogenetic diagnosis in Costa Rica. It started in 1984 at the Institute for Health Research of the University of Costa Rica. This is the only fetal cytogenetic diagnosis facility in the country and serves social security as well as private patients. Perinatologists send amniotic fluid and fetal blood samples from high risk pregnancies, mainly due to abnormal ultrasound assessment, sonographic markers of aneuploidy and advanced maternal age. Second and third trimester diagnosis allows the development of coping strategies for the families of affected fetuses, since pregnancy interruption is not permitted. Normal fetal cytogenetic results provide reassurance to the parents.     

Functional aspects of the postcranial anatomy of the Permian dicynodont Diictodon and their ecological implications

The postcranial skeleton of the Permian dicynodont Diictodon is described, major skeletal muscles restored and functional aspects of the skeleton analyzed. The humerus was caudolaterally oriented and articulated in a near sagittal plane. This reduced the transverse component of thrust during locomotion. Throughout the stride, the femur, which is relatively longer than the humerus, was held in a parasagittal position. Diictodon probably had a hindlimb gait similar to the high walk of crocodilians. Comparisons between several dicynodont genera, including Diictodon, reveal considerable variation in the limb orientations, articulations, posture and gait among these taxa. Expansion of the preacetabular iliac process and the overall iliac length with respect to its height among these dicynodonts may be correlated with the increase in the number of the sacral vertebrae. Diictodon does not show the cranial and forelimb modifications suitable for digging as seen in Cistecephalus, Kawingasaurus and extant burrowers such as a broad skull, rounded occiput for considerable neck musculature, a robust humerus and a prominent olecranon process. However, a cylindrical body, short limbs with well–developed limb elevators and depressors and a long wide manus with long, blunt claws probably helped in digging. In addition, the hindlimb with well–developed retractors and short, blunt claws participated in soil removal. The caudolaterally oriented humerus and a laterally flexible vertebral column facilitated movement in the narrow confines of the burrows. Forelimb articulation and morphology indicate that its method of digging was probably rotation–thrust, where humeral excursion and not forearm extension played a dominant role. The close associations of articulated paired skeletons of adult individuals suggest that Diictodon was gregarious. A large number of unconnected burrow–casts in a small area of about 500 m², indicates that although the animals lived close together, they did not share a single large communal structure.     

The nutrient status of epiphytes and their host trees along an elevational gradient in Costa Rica

Vascular epiphytes are a conspicuous and highly diverse group in tropical wet forests; yet, we understand little about their mineral nutrition across sites. In this study, we examined the mineral nutrition of three dominant vascular epiphyte groups: ferns, orchids, and bromeliads, and their host trees from samples collected along a 2600 m elevational gradient in the tropical wet forests of Costa Rica. We predicted that the mineral nutrition of ferns, orchids, and bromeliads would differ because of their putative differences in nutrient acquisition mechanisms and nutrient sources—atmospherically dependent, foliar feeding bromeliads would have lower nitrogen (N) and phosphorous (P) concentrations and more depleted δ¹⁵N values than those in canopy soil-rooted ferns because canopy soil is higher in available N, and more enriched in δ¹⁵N than the atmospheric sources of precipitation and throughfall. We also predicted that epiphyte foliar chemistry would mirror that of host trees because of the likely contribution of host trees to the nutrient cycle of epiphytes via foliar leaching and litter contributions to canopy soil. In the same vein, we predicted that epiphyte and host tree foliar chemistry would vary with elevation reflecting ecosystem-level nutrients—soil N availability increases and P availability decreases with increasing elevation. Our results confirmed that canopy soil-rooted epiphytes had higher N concentrations than atmospheric epiphytes; however, our predictions were not confirmed with respect to P which did not vary among groups indicating fixed P availability within sites. In addition, foliar δ¹⁵N values did not match our prediction in that canopy soil-rooted as well as atmospheric epiphytes had variable signatures. Discriminant function analysis (DFA) on foliar measurements determined that ferns, orchids, and bromeliads are statistically distinct in mineral nutrition. We also found that P concentrations of ferns and orchids, but not bromeliads, were significantly correlated with those of host trees indicating a possible link in their mineral nutrition’s via canopy soil. Interestingly, we did not find any patterns of epiphyte foliar chemistry with elevation. These data indicate that the mineral nutrition of the studied epiphyte groups are distinct and highly variable within sites and the diverse uptake mechanisms of these epiphyte groups enhance resource partitioning which may be a mechanism for species richness maintenance in tropical forest canopies.     

Genetic admixture and population substructure in Guanacaste Costa Rica

The population of Costa Rica (CR) represents an admixture of major continental populations. An investigation of the CR population structure would provide an important foundation for mapping genetic variants underlying common diseases and traits. We conducted an analysis of 1,301 women from the Guanacaste region of CR using 27,904 single nucleotide polymorphisms (SNPs) genotyped on a custom Illumina InfiniumII iSelect chip. The program STRUCTURE was used to compare the CR Guanacaste sample with four continental reference samples, including HapMap Europeans (CEU), East Asians (JPT+CHB), West African Yoruba (YRI), as well as Native Americans (NA) from the Illumina iControl database. Our results show that the CR Guanacaste sample comprises a three-way admixture estimated to be 43% European, 38% Native American and 15% West African. An estimated 4% residual Asian ancestry may be within the error range. Results from principal components analysis reveal a correlation between genetic and geographic distance. The magnitude of linkage disequilibrium (LD) measured by the number of tagging SNPs required to cover the same region in the genome in the CR Guanacaste sample appeared to be weaker than that observed in CEU, JPT+CHB and NA reference samples but stronger than that of the HapMap YRI sample. Based on the clustering pattern observed in both STRUCTURE and principal components analysis, two subpopulations were identified that differ by approximately 20% in LD block size averaged over all LD blocks identified by Haploview. We also show in a simulated association study conducted within the two subpopulations, that the failure to account for population stratification (PS) could lead to a noticeable inflation in the false positive rate. However, we further demonstrate that existing PS adjustment approaches can reduce the inflation to an acceptable level for gene discovery.     

Social Capital and Sustainable Coffee Certifications in Costa Rica

Social capital has many applications in the adoption and management of voluntary certifications such as Fair trade, Rainforest Alliance, Utz, and CAFE Practices. We used a mixed-methods approach to assess social capital in five Costa Rican coffee cooperatives. We applied this information to its effects on the management of sustainable coffee certifications We found that the level of social capital affects the manner in which cooperatives manage certifications in terms of incentivizing certified members, distributing the profits from certification, and cooperating with outside organizations. Generalized trust was found to have an important link with voluntary participation in Rainforest Alliance certification when no financial incentive was provided. However, given the small differences among the cooperatives in micro-scale social capital, we conclude that certifications have not or have not yet made great impacts on the social capital on the micro-scale. This research presents important considerations for employing certifications and other sustainable development projects in different national contexts.     

Past, present and future of cytogenetics in Costa Rica

This is an overview of the past, present and future of human Cytogenetics in Costa Rica. It started in 1965 at the University of Costa Rica where it has been developed slowly but steadily. There is only one overloaded clinical cytogenetic laboratory in the social security system. The tests currently performed are peripheral blood and blood marrow karyotypes, prenatal cytogenetic diagnosis (amniotic fluid and fetal blood) and less frequently skin biopsies. The task now is to standardize molecular cytogenetic techniques, we are actually working with PRINS in order to study submicroscopic subtelomeric rearrangements associated with mental retardation and other microdeletion syndromes as well.     

Handling and aflatoxin contamination of white maize in Costa Rica

Projects funded by International Development Research Centre (IDRC) of Canada and the European Commission have enabled the examination of more than 3000 samples of maize collected from all regions of Costa Rica at different stages, from the growing crop through storage to final sale, and at different water contents. Contamination with Aspergillus flavus was frequent and about 80% of samples contained more than 20 ng aflatoxins g-1 grain. Average contamination with aflatoxins in the Brunca Region was > 274 ng g -1 while that in other regions was < 70 ng g -1. Except in Brunca region, where it averaged 376 ng g -1, contamination of grain from commercial sources was slightly less than of that from farms (≤15 ng g-1). It appeared that samples kept on the cob after harvest contained almost no aflatoxin while shelled samples were frequently highly contaminated. Experiments were therefore done in Brunca and Huetar Atlantic Regions, utilising 34 experimental maize crops to study in detail the development of A. flavus and aflatoxin from before harvest, through postharvest treatment before drying and through storage for six months. A. flavus was isolated more frequently from maize shelled immediately after harvest than from that kept on the cob until it could be dried, and from more samples from the Brunca Region than from the Huetar Atlantic Region. Samples harvested with ≥18% water content often contained >70% of grains infected with A. flavus but sometimes there were few grains infected. As found in the initial survey, more aflatoxin contamination developed in shelled maize than in that handled on the cob during the period from harvesting to drying, especially if the delay was more than 5 days, and more in Brunca than in Huetar. Shelled grain contained 400–800 ng aflatoxin g -1 in Brunca but <100 ng g-1 in Huetar while grain kept on the cob contained <30 ng g-1, even with >18% water content. Incidence of Fusarium spp. exceeded 50% except where A. flavus colonized more than 80% of grains. This revised version was published online in June 2006 with corrections to the Cover Date.     

Carbon sequestration in freshwater wetlands in Costa Rica and Botswana

Tropical wetlands are typically productive ecosystems that can introduce large amounts of carbon into the soil. However, high temperatures and seasonal water availability can hinder the ability of wetland soils to sequester carbon efficiently. We determined the carbon sequestration rate of 12 wetland communities in four different tropical wetlands—an isolated depressional wetland in a rainforest, and a slow flowing rainforest swamp, a riverine flow-through wetland with a marked wet and dry season, a seasonal floodplain of an inland delta—with the intention of finding conditions that favor soil carbon accumulation in tropical wetlands. Triplicate soil cores were extracted in these communities and analyzed for total carbon content to determine the wetland soil carbon pool. We found that the humid tropic wetlands had greater carbon content (P ≤ 0.05) than the tropical dry ones (96.5 and 34.8 g C kg^?1, respectively). While the dry tropic wetlands had similar sequestration rates (63 ± 10 g Cm^?2 y^?1 on average), the humid tropic ones differed significantly (P < 0.001), with high rates in a slow-flowing slough (306 ± 77 g Cm^?2 y^?1) and low rates in a tropical rain forest depressional wetland (84 ± 23 g Cm^?2 y^?1). The carbon accumulating in all of these wetlands was mostly organic (92–100%). These results suggest the importance of differentiating between types of wetland communities and their hydrology when estimating overall rates at which tropical wetlands sequester carbon, and the need to include tropical wetland carbon sequestration in global carbon budgets.     

Sixty-Seven Years of Land-Use Change in Southern Costa Rica

Habitat loss and fragmentation of forests are among the biggest threats to biodiversity and associated ecosystem services in tropical landscapes. We use the vicinity of the Las Cruces Biological Station in southern Costa Rica as a regional case study to document seven decades of land-use change in one of the most intensively studied sites in the Neotropics. Though the premontane wet forest was largely intact in 1947, a wave of immigration in 1952 initiated rapid changes over a short period. Overall forest cover was reduced during each time interval analyzed (1947–1960, 1960–1980, 1980–1997, 1997–2014), although the vast majority of forest loss (>90%) occurred during the first two time intervals (1947–1960, 1960–1980) with an annual deforestation rate of 2.14% and 3.86%, respectively. The rate dropped to <2% thereafter and has been offset by forest recovery in fallow areas more recently, but overall forest cover has continued to decline. Approximately 27.9% of the study area is forested currently. Concomitantly, the region shifted from a single contiguous forest to a series of progressively smaller forest fragments with each successive survey. A strong reduction in the amount of core habitat was paralleled by an increased proportion of edge habitat, due to the irregular shape of many forest fragments. Structural connectivity, however, remains high, with an expansive network of >100 km of linear strips of vegetation within a 3 km radius of the station, which may facilitate landscape-level movement for some species. Despite the extent of forest loss, a substantial number of regional landscape-level studies over the past two decades have demonstrated the persistence of many groups of organisms such as birds and mammals. Nonetheless, the continued decline in the quantity and quality of remaining habitat (~30% of remaining forest is secondary), as well as the threat of an extinction debt (or time lag in species loss), may result in the extirpation of additional species if more proactive conservation measures are not taken to reverse current trends–a pattern that reflects many other tropical regions the world over.