In silico analysis of cytochrome p450 genes involved in the metabolism of diterpenes in Coffea.

Brazil is the largest world producer and exporter of coffee, being also the second largest consumer market. Among the main goals of coffee breeders, studies aiming the improvement of cup quality and plant tolerance to biotic and abiotic stresses have extreme importance. Beverage nutraceutical properties and plant defense mechanisms are directly linked to diterpenes present in the lipid fraction of coffee beans, such as cafestol (Caf ) and caveol (Cav). Many members of P 450 gene family are involved in plant secondary metabolism, including diterpenes synthesis. In order to depict biochemical and genetic aspects of diterpenes byosinthesis, we did an in silico characterization of p450 gene family in Coffea spp., and we also quantified Caf and Cav in coffee fruit tissues for further gene expression studies involving diterpens metabolism. Using keyword and Blast search, 1396 ESTs related to Cyt p450 were selected from the Brazilian Coffee Genome Project (http://www.lge.ibi. unicamp.br/cafe). After assembling, we observed 157 putative unigenes, distributed in 92 contigs and 65 singlets. The contigs were analyzed using BLAST X versus public sequences databases (GenBank and Harvest Coffea), confirming their identity to 91 Cyt P450 genes. Expression profiles were inferred by electronic Northern blot of all contigs, allowing the selection of 7 candidate genes for transcriptional analysis based in fruit cDNA library expression. Caf and Cav were measured using HPLC in two different fruit developmental stages: 90 DAF (Days After Flowering) vs 120 DAF and in fruits (120 DAF) treated with 2?M methyl Jasmonate (MJ). Fruits at 120 DAF had an increase of 42% in Cav and 19% in Caf levels in relation to 90DAF fruits. MJ treatment resulted in samples with an average increase of 18% of Cav and 35% of Caf. RNAs were extracted from these samples for future transcriptional analyses. This study establish a platform for expression analysis of cyt P450 candidate genes in RNA samples from tissues with contrasting accumulation of Cav and Caf. (Texte intégral

Computational and Complex Network Modeling for Analysis of Sprinter Athletes’ Performance in Track Field Tests

The article of record as published may be located at https://doi.org/10.3389/fphys.2018.00843Sports and exercise today are popular for both amateurs and athletes. However, we continue to seek the best ways to analyze best athlete performances and develop specific tools that may help scientists and people in general to analyze athletic achievement. Standard statistics and cause-and-effect research, when applied in isolation, typically do not answer most scientific questions. The human body is a complex holistic system exchanging data during activities, as has been shown in the emerging field of network physiology. However, the literature lacks studies regarding sports performance, running, exercise, and more specifically, sprinter athletes analyzed mathematically through complex network modeling. Here, we propose complex models to jointly analyze distinct tests and variables from track sprinter athletes in an untargeted manner. Through complex propositions, we have incorporated mathematical and computational modeling to analyze anthropometric, biomechanics, and physiological interactions in running exercise conditions. Exercise testing associated with complex network and mathematical outputs make it possible to identify which responses may be critical during running. The physiological basis, aerobic, and biomechanics variables together may play a crucial role in performance. Coaches, trainers, and runners can focus on improving specific outputs that together help toward individuals’ goals. Moreover, our type of analysis can inspire the study and analysis of other complex sport scenarios

Transcriptional activity, chromosomal distribution and expression effects of transposable elements in Coffea genomes

Plant genomes are massively invaded by transposable elements (TEs), many of which are located near host genes and can thus impact gene expression. In flowering plants, TE expression can be activated (de-repressed) under certain stressful conditions, both biotic and abiotic, as well as by genome stress caused by hybridization. In this study, we examined the effects of these stress agents on TE expression in two diploid species of coffee, Coffea canephora and C. eugenioides, and their allotetraploid hybrid C. arabica. We also explored the relationship of TE repression mechanisms to host gene regulation via the effects of exonized TE sequences. Similar to what has been seen for other plants, overall TE expression levels are low in Coffea plant cultivars, consistent with the existence of effective TE repression mechanisms. TE expression patterns are highly dynamic across the species and conditions assayed here are unrelated to their classification at the level of TE class or family. In contrast to previous results, cell culture conditions per se do not lead to the de-repression of TE expression in C. arabica. Results obtained here indicate that differing plant drought stress levels relate strongly to TE repression mechanisms. TEs tend to be expressed at significantly higher levels in non-irrigated samples for the drought tolerant cultivars but in drought sensitive cultivars the opposite pattern was shown with irrigated samples showing significantly higher TE expression. Thus, TE genome repression mechanisms may be finely tuned to the ideal growth and/or regulatory conditions of the specific plant cultivars in which they are active. Analysis of TE expression levels in cell culture conditions underscored the importance of nonsense-mediated mRNA decay (NMD) pathways in the repression of Coffea TEs. These same NMD mechanisms can also regulate plant host gene expression via the repression of genes that bear exonized TE sequences. (Résumé d'auteur