Organização genômima e análise da expressão do gene hnRNP Q-like (Heterogeneous nuclear ribonucleoprotein A-like) retroinserido no cromossomo B de Astatotilapia latifasciata

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Novel and cross-amplified microsatellite loci for the critically endangered São Paulo marsh antwren Formicivora paludicola (Aves: Thamnophilidae)

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

Microsatellite loci in the oceanic whitetip shark and cross-species amplification using pyrosequencing technology

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

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.

Thermophilic fungi in the new age of fungal taxonomy

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

The evolution of phylogeographic data sets

Empirical phylogeographic studies have progressively sampled greater numbers of loci over time, in part motivated by theoretical papers showing that estimates of key demographic parameters improve as the number of loci increases. Recently, next-generation sequencing has been applied to questions about organismal history, with the promise of revolutionizing the field. However, no systematic assessment of how phylogeographic data sets have changed over time with respect to overall size and information content has been performed. Here, we quantify the changing nature of these genetic data sets over the past 20years, focusing on papers published in Molecular Ecology. We found that the number of independent loci, the total number of alleles sampled and the total number of single nucleotide polymorphisms (SNPs) per data set has improved over time, with particularly dramatic increases within the past 5years. Interestingly, uniparentally inherited organellar markers (e.g. animal mitochondrial and plant chloroplast DNA) continue to represent an important component of phylogeographic data. Single-species studies (cf. comparative studies) that focus on vertebrates (particularly fish and to some extent, birds) represent the gold standard of phylogeographic data collection. Based on the current trajectory seen in our survey data, forecast modelling indicates that the median number of SNPs per data set for studies published by the end of the year 2016 may approach similar to 20000. This survey provides baseline information for understanding the evolution of phylogeographic data sets and underscores the fact that development of analytical methods for handling very large genetic data sets will be critical for facilitating growth of the field.

Sequence characterization and comparative analysis of the gastrotropin gene in buffalo (Bubalus bubalis)

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

Quartic anomalous couplings in eγ colliders

We study the production of gauge-boson pairs at the next generation of linear e+e- colliders operating in the eγ mode. The processes eγ → VV′F (V,V′ = W,Z, or γ and F = e or ν) can give valuable information on possible deviations of the quartic vector-boson couplings from the Standard Model predictions. We establish the range of the new couplings that can be explored in these colliders based on a 3σ effect in the total cross section. We also present several kinematical distributions of the final state particles that could manifest the underlying new dynamics. Our results show that an eγ collider can extend considerably the bounds on anomalous interactions coming from oblique radiative corrections and from direct searches in e+e- colliders.

Excited leptonic states in polarized e(-)gamma and e(+)e(-) collisions

We analyze the capability of the next generation of linear electron-positron colliders to unravel the spin and couplings of excited leptons predicted by composite models. Assuming that these machines will be able to operate both in the e+e- and e-γ modes, we study the effects of the excited electrons of spin 1/2 and 3/2 in the reactions e-γ → e-γ and e+e- → γγ. We show how the use of polarized beams is able not only to increase the reach of these machines, but also to determine the spin and couplings of the excited states.

Isosinglet neutral heavy lepton production in high energy e-γ collisions

We evaluate the potential for searching for isosinglet neutral heavy leptons (N), such as right-handed neutrinos, in the next generation of e+e- linear colliders, paying special attention to contributions from the reaction γe→WN initiated by photons from beamstrahlung and laser back-scattering. We find that these mechanisms are both competitive and complementary to the standard e+e-→vN annihilation process for producing neutral heavy leptons in these machines and greatly extends the search range over HERA and LEP200.

ITScan: a web-based analysis tool for Internal Transcribed Spacer (ITS) sequences

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

Future e(+)e(-) colliders' sensitivity to Hb(b)over-bar coupling and CP violation

A complete analysis of the sensitivity to new Hbb̄ couplings from the process e+e- → bb̄vv̄ at the next generation of linear colliders was performed. These new couplings were predicted by many extensions of the Standard Model. The results are comparable to the study performed previously where a global fit analysis for L=500 fb-1 and √s=500 GeV resulted in a relative accuracy of 2.2% in the gHbb Yukawa coupling.

Epidemiologia molecular do vírus da Hepatite C: análise comparativa de diferentes regiões subgenômicas aplicadas a estudos de associação genética

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Caracterização transcriptômica de vias metabólicas na formiga Attini Atta sexdens rubropilosa Forel, 1908 (Hymenoptera, Formicidae)

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Estado da arte do sequenciamento genômico na pecuária

There has been a lot of advance in genomics since 1975 when the possibility to determine the nucleotide sequence of a genome was described. In the 90’s the human genome sequencing was started and it was greatly favored by advances in computer technologies. In the last ten years the development of next generation sequencing technologies allowed the sequencing of millions of bases at low cost and in a shorter time compared to the previous technologies. After the conclusion of the human genome project, several initiatives to sequence the genome of domestic animal species were taken, resulting in a large amount of data that is redirecting the goals of genetic studies in domestic animals. The aim of this review was to describe the present situation of the sequencing initiatives on the main domestic animal species of economical interest as well as to list the most important tools available to access the genomic information.