Sugarcane (Saccharum X officinarum): A Reference Study for the Regulation of Genetically Modified Cultivars in Brazil

Global interest in sugarcane has increased significantly in recent years due to its economic impact on sustainable energy production. Sugarcane breeding and better agronomic practices have contributed to a huge increase in sugarcane yield in the last 30?years. Additional increases in sugarcane yield are expected to result from the use of biotechnology tools in the near future. Genetically modified (GM) sugarcane that incorporates genes to increase resistance to biotic and abiotic stresses could play a major role in achieving this goal. However, to bring GM sugarcane to the market, it is necessary to follow a regulatory process that will evaluate the environmental and health impacts of this crop. The regulatory review process is usually accomplished through a comparison of the biology and composition of the GM cultivar and a non-GM counterpart. This review intends to provide information on non-GM sugarcane biology, genetics, breeding, agronomic management, processing, products and byproducts, as well as the current technologies used to develop GM sugarcane, with the aim of assisting regulators in the decision-making process regarding the commercial release of GM sugarcane cultivars.     

A new species of <Emphasis Type="Italic">Symplocos</Emphasis> (Symplocaceae) from the Itatiaia Plateau of Brazil

Symplocos minima, a new species of Symplocos section Hopea from the Itatiaia Plateau in the Atlantic Rain Forest biome of southeastern Brazil, is described and illustrated. This species is distinguished by its densely compact shrubby habit, ascending leaves, fasciculate inflorescences with several persistent bracts, corolla with five to six erect lobes, pistillate flowers with the disc not thickened along the margin, fruiting calyx lobes obscuring the disc, and seeds sub-orbicular in cross section. The new species is morphologically related to S. itatiaiae and S. pentandra, but can be differenciated from them mainly due to the tree habit and fruiting calyx lobes not obscuring the disc in S. itatiaiae and the pistillate flowers with a disc that is thickened along the margin in S. pentandra.     

Ecological specialization and niche overlap of subterranean rodents inferred from DNA metabarcoding diet analysis

Knowledge of how animal species use food resources available in the environment can increase our understanding of many ecological processes. However, obtaining this information using traditional methods is difficult for species feeding on a large variety of food items in highly diverse environments. We amplified the DNA of plants for 306 scat and 40 soil samples, and applied an environmental DNA metabarcoding approach to investigate food preferences, degree of diet specialization and diet overlap of seven herbivore rodent species of the genus Ctenomys distributed in southern and midwestern Brazil. The metabarcoding approach revealed that these species consume more than 60% of the plant families recovered in soil samples, indicating generalist feeding habits of ctenomyids. The family Poaceae was the most common food resource retrieved in scats of all species as well in soil samples. Niche overlap analysis indicated high overlap in the plant families and molecular operational taxonomic units consumed, mainly among the southern species. Interspecific differences in diet composition were influenced, among other factors, by the availability of resources in the environment. In addition, our results provide support for the hypothesis that the allopatric distributions of ctenomyids allow them to exploit the same range of resources when available, possibly because of the absence of interspecific competition.     

Do closely related species share of feeding niche along growth? Diets of three sympatric species of the mojarras (Actinopterygii: Gerreidae) in a tropical bay in southeastern Brazil

Understanding the trophic relationships among closely related species is a way to obtain subsidies for their management and conservation of their habitats. The diets of three co-occurring abundant fish species of the Gerreidae family (Diapterus rhombeus, Eucinostomus argenteus and Eucinostomus gula) in a tropical bay were described. The tested hypothesis was that the three sympatric species present shifts in their use of resource during the ontogenetic development to facilitate their coexistence. Size groups for each species were categorized according to breakpoints in the morphological structures determined by piecewise regression models. Significant overlapping in diets was found for all size classes of D. rhombeus but not for size classes of the Eucinostomus genus. Furthermore, different size classes of D. rhombeus did not overlap diet with size classes of the Eucinostomus genus. The specialization in feeding niches corresponding to growth seems to bring benefits for this group of fish rather than a generalist feeding strategy. The hypothesis of the available resources partitioning was accepted only between the two genera (Diapterus and Eucinostomus), and among size classes of the Eucinostomus genus that seemed to follow the principle of limiting similarity. However, different size classes of D. rhombeus exhibited strong evidence of an intraspecific overlapping of the trophic niche. It seems that different processes related to use of the trophic niche dimension are structuring these closely related fish species.     

Cryptic diversity and diversification processes in three cis-Andean Rhamdia species (Siluriformes: Heptapteridae) revealed by DNA barcoding

The wide distribution of the Neotropical freshwater catfish Rhamdia offers an excellent opportunity to investigate the historical processes responsible for modeling South America’s hydrogeological structure. We used sequences from cis-Andean and Mesoamerican Rhamdia species to reconstruct and estimate divergence times among cis-Andean lineages, correlating the results with known geological events. Species delimitation methods based on distance (DNA barcoding and BIN) and coalescence (GMYC) approaches identified nine well-supported lineages from the cis-Andean region from sequences available in the BOLD dataset. The cis-Andean Rhamdia lineages diversification process began in Eocene and represented the split between cis-Andean and Mesoamerican clades. The cis-Andean clade contains two principal groups: Northwest clade (MOTUs from Amazon, Essequibo, Paraguay, and Itapecuru basins) and Southeast clade (Eastern Brazilian shield basins (Paraná, Uruguay, Iguaçu, and São Francisco) plus eastern coastal basins). The diversification of the cis-Andean Rhamdia lineages results from vicariance and geodispersion events, which played a key role in the current intricate distribution pattern of the Rhamdia lineages. The wide geographical distribution and large size of the specimens make it attractive to cultivate in different countries of the Neotropical region. The lineages delimitation minimizes identification mistakes, unintentional crossings by aquaculture, and reduces natural stocks contamination.     

Evaluating,partitioning, and mapping the spatial autocorrelation component in ecological niche modeling: a new approach based on environmentally equidistant records

Most species data display spatial autocorrelation that can affect ecological niche models (ENMs) accuracy‐statistics, affecting its ability to infer geographic distributions. Here we evaluate whether the spatial autocorrelation underlying species data affects accuracy‐statistics and map the uncertainties due to spatial autocorrelation effects on species range predictions under past and future climate models. As an example, ENMs were fitted to Qualea grandiflora (Vochysiaceae), a widely distributed plant from Brazilian Cerrado. We corrected for spatial autocorrelation in ENMs by selecting sampling sites equidistant in geographical (GEO) and environmental (ENV) spaces. Distributions were modelled using 13 ENMs evaluated by two accuracy‐statistics (TSS and AUC), which were compared with uncorrected ENMs. Null models and the similarity statistics I were used to evaluate the effects of spatial autocorrelation. Moreover, we applied a hierarchical ANOVA to partition and map the uncertainties from the time (across last glacial maximum, pre‐insustrial, and 2080 time periods) and methodological components (ENMs and autocorrelation corrections). The GEO and ENV models had the highest accuracy‐statistics values, although only the ENV model had values higher than expected by chance alone for most of the 13 ENMs. Uncertainties from time component were higher in the core region of the Brazilian Cerrado where Q. grandiflora occurs, whereas methodological components presented higher uncertainties in the extreme northern and southern regions of South America (i.e. outside of Brazilian Cerrado). Our findings show that accounting for autocorrelation in environmental space is more efficient than doing so in geographical space. Methodological uncertainties were concentrated in outside the core region of Q. grandiflora's habitat. Conversely, uncertainty due to time component in the Brazilian Cerrado reveals that ENMs were able to capture climate change effects on Q. grandiflora distributions.     

Palynofacies and TOC analysis of marine and non-marine sediments across the Middle–Upper Jurassic boundary in the central-northern Lusitanian Basin (Portugal)

The Middle–Upper Jurassic transition is a geodynamic benchmark in the evolutionary history of several peri-Atlantic basins. Contrary to the vast Tethyan and peri-Tethyan areas, in the Lusitanian Basin (Portugal), this interval corresponds to a major basin-wide disconformity preceded by a complex forced regression that induced sharp facies variations across the depositional systems. The Middle Jurassic units below are fully marine, whereas the Upper Jurassic sediments (Lower?-Middle Oxfordian), correspond to freshwater/brackish lacustrine, grading into punctuated brackish-restricted lagoonal and shallow-marine paleoenvironments. This study presents total organic carbon and palynofacies data of 34 samples (total analyzed thickness about 85 m) collected from three key sections encompassing the Middle–Upper Jurassic transition in the central-northern sector of the Lusitanian Basin. The palynofacies of the analyzed part of Middle Jurassic units (Cabo Mondego Formation) are characteristic of marine environments at their base, evidencing upwards a regressive trend of the depositional systems. Total organic carbon content is generally low, reaching up to 1.94 wt%. The Upper Jurassic Cabaços Formation presents kerogen assemblages mostly of continental origin, although punctuated by minor intervals of marine influence. Total organic carbon content is more variable, reaching up to 30.56 wt%. Intraclasts of re-deposited fragments of microbial mats were found incorporated in the kerogen assemblages, which point to highly dynamic erosional and depositional processes. Diversity of Botryococcus sp. occurrences was confirmed as an indicator of the degree of paleoenvironmental stability. The vertical distribution and comparison of the kerogen assemblages of the different sections indicate major changes of these parameters among relatively close settings and along narrow vertical intervals, attesting to the high sedimentary dynamics observed in the Lusitanian Basin.     

Aspidosperma (Apocynaceae) plant cytotoxicity and activity towards malaria parasites. Part II: experimental studies with Aspidosperma ramiflorum in vivo and in vitro

Several species of Aspidosperma plants are used to treat diseases in the tropics, including Aspidosperma ramiflorum, which acts against leishmaniasis, an activity that is experimentally confirmed. The species, known as guatambu-yellow, yellow peroba, coffee-peroba andmatiambu, grows in the Atlantic Forest of Brazil in the South to the Southeast regions. Through a guided biofractionation of A. ramiflorum extracts, the plant activity against Plasmodium falciparum was evaluated in vitro for toxicity towards human hepatoma G2 cells, normal monkey kidney cells and nonimmortalised human monocytes isolated from peripheral blood. Six of the seven extracts tested were active at low doses (half-maximal drug inhibitory concentration < 3.8 µg/mL); the aqueous extract was inactive. Overall, the plant extracts and the purified compounds displayed low toxicity in vitro. A nonsoluble extract fraction and one purified alkaloid isositsirikine (compound 5) displayed high selectivity indexes (SI) (= 56 and 113, respectively), whereas compounds 2 and 3 were toxic (SI < 10). The structure, activity and low toxicity of isositsirikine in vitro are described here for the first time in A. ramiflorum, but only the neutral and precipitate plant fractions were tested for activity, which caused up to 53% parasitaemia inhibition of Plasmodium berghei in mice with blood-induced malaria. This plant species is likely to be useful in the further development of an antimalarial drug, but its pharmacological evaluation is still required.     

Purification of Xylitol from Fermented Hemicellulosic Hydrolyzate Using Liquid–Liquid Extraction and Precipitation Techniques

Xylitol was produced by Candida guilliermondii by fermentation of sugarcane bagasse hemicellulosic hydrolysate. Undesirable impurities were extracted from the broth using either ethyl acetate, chloroform or dichloromethane. The best results on clarification of the broth without xylitol loss were obtained with ethyl acetate. When ethanol, acetone or tetrahydrofuran were used for precipitation of impurities, only tetrahydrofuran clarified the fermented broth, but a high xylitol loss (~30%) was observed.     

Histological characterization of in vitro adventitious organogenesis in Citrus sinensis

The adventitious bud development was induced in epicotyl segments of Valencia sweet orange (Citrus sinensis L. Osbeck). Seeds were cultured in vitro for three weeks in the dark, followed by one week at a 16-h photoperiod. Epicotyl segments were cultured horizontally for the induction of organogenesis in Murashige and Tucker (1969, MT) culture medium supplemented with 1.0 mg dm⁻³ benzylaminopurine. Samples were observed by light and scanning electron microscopy from day zero to day 25, when buds were well grown. It was shown that the adventitious buds originated directly from the cambial region on the cut ends of the explants.