Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution

Background: Centromeres are essential for chromosome segregation, yet their DNA sequences evolve rapidly. In most animals and plants that have been studied, centromeres contain megabase-scale arrays of tandem repeats. Despite their importance, very little is known about the degree to which centromere tandem repeats share common properties between different species across different phyla. We used bioinformatic methods to identify high-copy tandem repeats from 282 species using publicly available genomic sequence and our own data.Results: Our methods are compatible with all current sequencing technologies. Long Pacific Biosciences sequence reads allowed us to find tandem repeat monomers up to 1,419 bp. We assumed that the most abundant tandem repeat is the centromere DNA, which was true for most species whose centromeres have been previously characterized, suggesting this is a general property of genomes. High-copy centromere tandem repeats were found in almost all animal and plant genomes, but repeat monomers were highly variable in sequence composition and length. Furthermore, phylogenetic analysis of sequence homology showed little evidence of sequence conservation beyond approximately 50 million years of divergence. We find that despite an overall lack of sequence conservation, centromere tandem repeats from diverse species showed similar modes of evolution.Conclusions: While centromere position in most eukaryotes is epigenetically determined, our results indicate that tandem repeats are highly prevalent at centromeres of both animal and plant genomes. This suggests a functional role for such repeats, perhaps in promoting concerted evolution of centromere DNA across chromosomes.

Crude Glycerin associated with starch or fiber-based energy ingredients at two levels of concentrate for beef cattle

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Temporary occlusion of the inferior lacrimal punctum and canaliculi of dogs with n-butyl-cyanoacrylate and 2-octyl-cyanoacrylate

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Building the sugarcane genome for biotechnology and identifying evolutionary trends

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Fácies e associação de fácies da formação Pirambóia na região de Descalvado/SP

The Pirambóia Formation is a lithostratigraphic unit of the Paraná Basin, positioned between the Corumbataí (lower) and Botucatu (upper) Formations on the eastern edge of the basin. This unit is focused by many studies due to its great importance as an essential component in the Guarani Aquifer System (SAG) and the petroleum system “Irati-Pirambóia”, as excellent reservoirs. The Pirambóia Formation is historically the subject of several controversies on issues like age, contact relationships with the upper unit and depositional paleoenvironment. Despite these aspects, the Pirambóia Formation is commonly taken to be of Triassic age and is considered a product of wet aeolian systems, with plenty of wet interdunes and subordinate fluvial facies. In this work, by using techniques such as facies analysis, depositional architecture and facies association, facies of this unit were characterized and their depositional paleoenvironment was inferred particularly in Jundu Mining, region of Descalvado in northeastern São Paulo. Techniques such as grain size and petrographic analyses, aimed to characterize this unit as a potential reservoir rock. Five facies were described for the Pirambóia Formation in the studied region: St, Sh, Sm, Sr and Gt facies, generated by sedimentary processes of the bottom load type, mostly under low flow regime (with exception for the Sh facies, which is formed by upper flow regime processes). In addition to that, four facies associations were recognized from the architectural elements, primarily contained within the main channel: complex channel bars, composed by foreset macroforms (FM), sandy bedforms (SB) and gravel bars and bedforms (GB); flood deposits, constituted by laminated sand sheets (LS); deposits of hyperconcentrated flows and eolian deposits. It was interpreted that the Pirambóia Formation in Descalvado (SP) is the record of the sedimentation of braided rivers, with dunes and interdunes deposits...

Vitamina B12 exerce um efeito benéfico sobre a espermatogênese após depleção de espermatogônias causada pelo Busulfan®

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Avaliação morfológica e morfométrica dos túbulos seminíferos de ratos tratados com o antineoplásico busulfan e suplementados com vitamina b12

O busulfan, um antineoplásico utilizado no tratamento de leucemia mieloide, apresenta como mecanismo de ação a alquilação do DNA, impedindo, portanto, a replicação desse ácido nucleico. Dessa maneira, um dos efeitos adversos desse fármaco consiste em danos aos tecidos de intensa atividade proliferativa, incluindo o epitélio seminífero. A vitamina B12 desempenha um papel importante na síntese de DNA, contribuindo no processo de divisão celular. Portanto, neste estudo, foi proposto avaliar a ação do busulfan sobre o epitélio seminífero de ratos e verificar se as alterações provocadas por esse fármaco são amenizadas pela suplementação com vitamina B12 durante o tratamento. Foi também proposto avaliar o hemograma dos animais a fim de verificar se o suplemento vitamínico minimiza a leucopenia e a trombocitopenia, causadas pelo busulfan. Foram utilizados 25 ratos distribuídos em 5 grupos: grupo controle (GC), grupo busulfan (GB), grupo veículo (GV), grupo busulfan+vitamina (GB/B12) e grupo vitamina (GB12). Os tratamentos foram realizados no período de 10 dias da seguinte maneira: os animais do grupo GB receberam duas doses de busulfan (10 mg/kg) no 1º e 4º dias de tratamento. Os animais do grupo veículo (GV) receberam uma solução contendo polietilenoglicol em duas doses de 0,1 ml/100 g de peso corpóreo, semelhantemente ao grupo GB. Os animais de ambos os grupos receberam doses de salina nos demais dias de tratamento. Os animais dos grupos GB/B12 e GB12 receberam busulfan+vitamina B12 e vitamina B12, respectivamente, no 1º e 4º dias de tratamento. Esses animais receberam vitamina B12 durante os demais dias de tratamento. Os animais do grupo GC receberam solução salina em todos os dias do tratamento. Após o tratamento, os animais foram eutanasiados e, por meio de punção cardíaca, o sangue foi coletado para análise do hemograma... (Resumo completo, clicar acesso eletrônico abaixo)

Glicerina bruta substituindo o milho em dietas de baixo amido na terminação de cordeiros

Pós-graduação em Zootecnia - FCAV

Endodontics pastes formulated with copaiba oil: action on oral microbiota and dentin bridge formation in dogs

This study analysed the effect of pastes formulated with calcium hydroxide P.A. and different vehicles (saline solution - paste A and Copaifera langsdorffii Desfon oil - paste B) on oral microorganisms and dentin bridge formation in dogs. The antimicrobial action of the pastes and their components was analysed by the minimum inhibitory concentration in agar gel technique. The components were diluted and tested on fifteen standard strains of microorganisms associated with endodontic diseases. The microorganisms were cultivated and after incubation data was analysed using One-Way ANOVA and Turkey's test (P≤0.05). Four superior incisors of ten animals were used to evaluate dentin bridge formation. Two incisors were capped with paste A (GA) and two with paste B (GB). After 90 days, the teeth were extracted for histological analysis and the degree of dentin bridge formation evaluated. Data was analysed by the Kruskal-Wallis test (P<0.05). The pastes and their components were classified in the following decreasing order of antimicrobial action: calcium hydroxide P.A., paste A, paste B and Copaifera langsdorffii Desfon oil. Calcium hydroxide P.A. showed significantly higher antimicrobial action than the pastes or their vehicles. No significant difference was observed between the two pastes in dentin bridge formation. Based on the microorganisms studied, it can be concluded that the pastes analysed showed similar antimicrobial potential but differed significantly from their individual components. No significant difference was observed in dentin bridge formation between the different pastes tested.

Avaliação in vitro do efeito das tinturas de Camellia sinensis e de Aloe arborescens na remineralização de lesão de cárie artificial em esmalte dentário humano

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

A step to the gigantic genome of the desert locust: chromosome sizes and repeated DNAs

The desert locust (Schistocerca gregaria) has been used as material for numerous cytogenetic studies. Its genome size is estimated to be 8.55 Gb of DNA comprised in 11 autosomes and the X chromosome. Its X0/XX sex chromosome determinism therefore results in females having 24 chromosomes whereas males have 23. Surprisingly, little is known about the DNA content of this locust's huge chromosomes. Here, we use the Feulgen Image Analysis Densitometry and C-banding techniques to respectively estimate the DNA quantity and heterochromatin content of each chromosome. We also identify three satellite DNAs using both restriction endonucleases and next-generation sequencing. We then use fluorescent in situ hybridization to determine the chromosomal location of these satellite DNAs as well as that of six tandem repeat DNA gene families. The combination of the results obtained in this work allows distinguishing between the different chromosomes not only by size, but also by the kind of repetitive DNAs that they contain. The recent publication of the draft genome of the migratory locust (Locusta migratoria), the largest animal genome hitherto sequenced, invites for sequencing even larger genomes. S. gregaria is a pest that causes high economic losses. It is thus among the primary candidates for genome sequencing. But this species genome is about 50 % larger than that of L. migratoria, and although next-generation sequencing currently allows sequencing large genomes, sequencing it would mean a greater challenge. The chromosome sizes and markers provided here should not only help planning the sequencing project and guide the assembly but would also facilitate assigning assembled linkage groups to actual chromosomes.

De novo transcriptome assembly for a non-model species, the blood-sucking bug Triatoma brasiliensis, a vector of Chagas disease

High throughput sequencing (HTS) provides new research opportunities for work on non-model organisms, such as differential expression studies between populations exposed to different environmental conditions. However, such transcriptomic studies first require the production of a reference assembly. The choice of sampling procedure, sequencing strategy and assembly workflow is crucial. To develop a reliable reference transcriptome for Triatoma brasiliensis, the major Chagas disease vector in Northeastern Brazil, different de novo assembly protocols were generated using various datasets and software. Both 454 and Illumina sequencing technologies were applied on RNA extracted from antennae and mouthparts from single or pooled individuals. The 454 library yielded 278 Mb. Fifteen Illumina libraries were constructed and yielded nearly 360 million RNA-seq single reads and 46 million RNA-seq paired-end reads for nearly 45 Gb. For the 454 reads, we used three assemblers, Newbler, CAP3 and/or MIRA and for the Illumina reads, the Trinity assembler. Ten assembly workflows were compared using these programs separately or in combination. To compare the assemblies obtained, quantitative and qualitative criteria were used, including contig length, N50, contig number and the percentage of chimeric contigs. Completeness of the assemblies was estimated using the CEGMA pipeline. The best assembly (57,657 contigs, completeness of 80 %, < 1 % chimeric contigs) was a hybrid assembly leading to recommend the use of (1) a single individual with large representation of biological tissues, (2) merging both long reads and short paired-end Illumina reads, (3) several assemblers in order to combine the specific advantages of each.

Utilização de sistemas de refrigeração de sêmen equino na estabilização das amostras seminais previamente à congelação

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)