Algebraic approach to optimal clone selection applied in metagenomic projects

Due to the wide diversity of unknown organisms in the environment, 99% of them cannot be grown in traditional culture medium in laboratories. Therefore, metagenomics projects are proposed to study microbial communities present in the environment, from molecular techniques, especially the sequencing. Thereby, for the coming years it is expected an accumulation of sequences produced by these projects. Thus, the sequences produced by genomics and metagenomics projects present several challenges for the treatment, storing and analysis such as: the search for clones containing genes of interest. This work presents the OCI Metagenomics, which allows defines and manages dynamically the rules of clone selection in metagenomic libraries, thought an algebraic approach based on process algebra. Furthermore, a web interface was developed to allow researchers to easily create and execute their own rules to select clones in genomic sequence database. This software has been tested in metagenomic cosmid library and it was able to select clones containing genes of interest. Copyright 2010 ACM.

Optimal clone identifier based on dynamic rules and process algebra

The rule creation to clone selection in different projects is a hard task to perform by using traditional implementations to control all the processes of the system. The use of an algebraic language is an alternative approach to manage all of system flow in a flexible way. In order to increase the power of versatility and consistency in defining the rules for optimal clone selection, this paper presents the software OCI 2 in which uses process algebra in the flow behavior of the system. OCI 2, controlled by an algebraic approach was applied in the rules elaboration for clone selection containing unique genes in the partial genome of the bacterium Bradyrhizobium elkanii Semia 587 and in the whole genome of the bacterium Xanthomonas axonopodis pv. citri. Copyright© (2009) by the International Society for Research in Science and Technology.

Estimativas de parâmetros genéticos para seleção precoce de clones de Eucalyptus para região com ocorrência de geadas

Further to increase the wood yield, is important goal of forest tree breeding the adaptation of clones through diverse environment, especially for soil and climate. Perennial tree species such as eucalypts, have a long life cycle and the frosts can occur and to be their limiting source of cultivation. The aim of the study was to determine the genetic variability and the genetic correlations between selection ages of clones cultivated in the municipality of Palma So la, SC, Brazil, where frosts are common in the winter. A clonal trial was set up in 2008 in Palma So la, by statistical design of randomized complete blocks considering 29 clones, six replications, six plants per plot, and 3.0m x 3.0 m spacing. The silvicultural characters of total plant height, diameter of breast height (dbh), and wood volume were evaluated through 24, 36, 48, and 60 months old. The deviance analysis and estimates of genetic parameters were based on the REML / BLUP genetic statistical procedure. Significant differences were observed for all traits in the deviance analysis. High correlations and statistically significant between characters were observed, indicating that the early selection will provide significant gains. Part of the clones USP/IPEF 64, USP/IPEF 78, USP/IPEF 52, USP/IPEF 68, and USP/IPEF 74) are potential to be used into the breeding programs and in commercial stands into the studied frost regions.

Age-age correlation for early selection of rubber tree genotypes in São Paulo State, Brazil

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Caracterização fitossanitária e seleção de limeiras ácidas 'Tahiti' clone Quebra-galho candidatas a matrizes

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)