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Ietvaru salīdzināšana tīmekļa lietotnes ģenerēšanai no datu modeļa
2018
Tīmekļa vietņu apjoms visā pasaulē arvien palielinās, tāpēc ir nepieciešams pēc dažādu sarežģītību veidu tīmekļa vietnēm. Lai ātri un ērti izveidotu tīmekļa vietni, ar vai bez noteiktām biznesa prasībām, nepieciešams ņemt vērā dažādi faktori kā tiks veidota tīmekļa vietne. Darba mērķis ir salīdzināt programmu ietvarus tīmekļa vietņu ģenerēšanai, balstoties uz iepriekš izveidotas datu bāzes. Tiks izpētīts ietvaru rīku funkcionālās iespējas un pielāgošana noteiktām vajadzībām. Svarīgs vērtēšanas kritērijs ir ietvaru piedāvātie palīgrīki izstrādes gaitas paātrināšanai. Pēc šiem kritērijiem izvēlētie ietvari tiks salīdzināti un iegūti secinājumi.
A Metabarcoding Survey on the Fungal Microbiota Associated to the Olive Fruit Fly.
2017
The occurrence of interaction between insects and fungi is interesting from an ecological point of view, particularly when these interactions involve insect pests and plant pathogens within an agroecosystem. In this study, we aimed to perform an accurate analysis on the fungal microbiota associated to Bactrocera oleae (Rossi) through a metabarcoding approach based on 454 pyrosequencing. From this analysis, we retrieved 43,549 reads that clustered into 128 operational taxonomic units (OTUs), of which 29 resulted in the “core” associate fungi of B. oleae. This fungal community was mainly represented by sooty mould fungi, such as Cladosporium spp., Alternaria spp. and Aureobasidium spp., by pl…
Chloroplast genomes of Rubiaceae: Comparative genomics and molecular phylogeny in subfamily Ixoroideae.
2020
In Rubiaceae phylogenetics, the number of markers often proved a limitation with authors failing to provide well-supported trees at tribal and generic levels. A robust phylogeny is a prerequisite to study the evolutionary patterns of traits at different taxonomic levels. Advances in next-generation sequencing technologies have revolutionized biology by providing, at reduced cost, huge amounts of data for an increased number of species. Due to their highly conserved structure, generally recombination-free, and mostly uniparental inheritance, chloroplast DNA sequences have long been used as choice markers for plant phylogeny reconstruction. The main objectives of this study are: 1) to gain in…
Identification of Stress Associated microRNAs in Solanum lycopersicum by High-Throughput Sequencing
2019
Tomato (Solanum lycopersicum) is one of the most important crops around the world and also a model plant to study response to stress. High-throughput sequencing was used to analyse the microRNA (miRNA) profile of tomato plants undergoing five biotic and abiotic stress conditions (drought, heat, P. syringae infection, B. cinerea infection, and herbivore insect attack with Leptinotarsa decemlineata larvae) and one chemical treatment with a plant defence inducer, hexanoic acid. We identified 104 conserved miRNAs belonging to 37 families and we predicted 61 novel tomato miRNAs. Among those 165 miRNAs, 41 were stress-responsive. Reverse transcription quantitative PCR (RT-qPCR) was used to valida…
Ancient DNA reveals the Arctic origin of Viking Age cod from Haithabu, Germany
2017
Knowledge of the range and chronology of historic trade and long-distance transport of natural resources is essential for determining the impacts of past human activities on marine environments. However, the specific biological sources of imported fauna are often difficult to identify, in particular if species have a wide spatial distribution and lack clear osteological or isotopic differentiation between populations. Here, we report that ancient fish-bone remains, despite being porous, brittle, and light, provide an excellent source of endogenous DNA (15-46%) of sufficient quality for whole-genome reconstruction. By comparing ancient sequence data to that of modern specimens, we determine …
The nucleotide sequence of a recombinant tomato yellow leaf curl virus strain frequently detected in Sicily isolated from tomato plants carrying the …
2017
In July 2016, an aggressive syndrome of tomato yellow leaf curl disease was reported in Sicily in tomato plants carrying the Ty-1 resistance gene. A total of 34 samples were collected and analyzed. Twenty-seven out of the 34 samples analyzed appeared to contain only recombinant molecules. One full sequence was obtained after cloning. Alignments and plot similarity analysis showed that the genome of the recombinant, named TYLCV-IL[IT:Sic23:16], was mostly derived from tomato yellow leaf curl virus (TYLCV), with a small region of 132 nucleotides in the non-coding region between the stem-loop and the start of the V2 ORF replaced by 124 nucleotides derived from a virus of a different species, t…
Editorial: Exploring Plant Rhizosphere, Phyllosphere and Endosphere Microbial Communities to Improve the Management of Polluted Sites
2021
International audience
How challenging RADseq data turned out to favor coalescent-based species tree inference. A case study in Aichryson (Crassulaceae)
2022
Analysing multiple genomic regions while incorporating detection and qualification of discordance among regions has become standard for understanding phylogenetic relationships. In plants, which usually have comparatively large genomes, this is feasible by the combination of reduced-representation library (RRL) methods and high-throughput sequencing enabling the cost effective acquisition of genomic data for thousands of loci from hundreds of samples. One popular RRL method is RADseq. A major disadvantage of established RADseq approaches is the rather short fragment and sequencing range, leading to loci of little individual phylogenetic information. This issue hampers the application of coa…
Phylogenomics Identifies an Ancestral Burst of Gene Duplications Predating the Diversification of Aphidomorpha
2019
Aphids (Aphidoidea) are a diverse group of hemipteran insects that feed on plant phloem sap. A common finding in studies of aphid genomes is the presence of a large number of duplicated genes. However, when these duplications occurred remains unclear, partly due to the high relatedness of sequenced species. To better understand the origin of aphid duplications we sequenced and assembled the genome of Cinara cedri, an early branching lineage (Lachninae) of the Aphididae family. We performed a phylogenomic comparison of this genome with 20 other sequenced genomes, including the available genomes of five other aphids, along with the transcriptomes of two species belonging to Adelgidae (a close…
Anti-Bacterial Activity and Online HPLC-DPPH Based Antiradical Kinetics of Medicinal Plant Extracts of High Relevance for Cosmetics Production
2018
The present study provides an assessment of extracts of six medicinal plants for their applicability in cosmetic formulations aimed at anti-UV protection and anti-acne treatment. Ethanol extracts of Chelidonium majus L., Myrtus communis L., Hamamelis virginiana L., Juniperus communis L., Alchemilla vulgaris and Ilex paraguariensis are analysed for the phytochemical content, antimicrobial activity, antiradical activity and antiradical kinetics. The phytochemical composition of the plants is investigated by LC-MS analysis and the most active antioxidants in plant extracts are determined by online HPLC-DPPH assay. The kinetic parameters of the antiradical reaction are determined both for the s…