The TIGR Gene Indices: analysis of gene transcript sequences in highly sampled eukaryotic species

While genome sequencing projects are advancing rapidly, EST sequencing and analysis remains a primary research tool for the identification and categorization of gene sequences in a wide variety of species and an important resource for annotation of genomic sequence. The TIGR Gene Indices (http://www.tigr.org/tdb/tgi.shtml) are a collection of species-specific databases that use a highly refined protocol to analyze EST sequences in an attempt to identify the genes represented by that data and to provide additional information regarding those genes. Gene Indices are constructed by first clustering, then assembling EST and annotated gene sequences from GenBank for the targeted species. This process produces a set of unique, high-fidelity virtual transcripts, or Tentative Consensus (TC) sequences. The TC sequences can be used to provide putative genes with functional annotation, to link the transcripts to mapping and genomic sequence data, to provide links between orthologous and paralogous genes and as a resource for comparative sequence analysis.

Histoire et archéologie de la transition en al‐Andalus: les indices matériels de l’islamisation à Tudmīr

El objetivo de este trabajo es el reconocimiento material de la islamización en la Cora o provincia de Tudmīr, a partir de la investigación arqueológica. Se realiza un balance crítico de una década de investigaciones individuales y colectivas, presentando las últimas novedades sobre el poblamiento y las formas de implantación territorial en el sudeste de al-Andalus. La arqueología, entendida como una de las fuentes históricas más innovadoras en la discusión sobre la formación de al-Andalus, se convierte en un valioso instrumento de caracterización material de la sociedad islámica y permite reconocer los indicadores sociales (urbanismo y espacios domésticos), culturales (islamización religiosa y arabización lingüística) y cronológicos (moneda, cerámica, etc.) del proceso de islamización.

Checking the concurrence among macrobenthic organism distribution patterns at different taxonomic scales in relation to environmental factors

The interaction of both natural conditions and anthropogenic environmental impacts can lead to different soft-bottom macrobenthic distribution patterns. Soft-bottom macrobenthic community was analysed at different taxonomic scales in order to evaluate whether diverse subset of organisms respond to the variability of the environmental pressures (natural and human induced) showing or not similar distribution patterns. Therefore, this long-term survey had been focused on a heterogeneous area, where both anthropogenic and natural stress may affect the community. Three perpendicular transects to the coast were established and stations at 4, 10 and 15 m depths were sampled at each transect twice a year (summer- winter) from 2004 to 2009. Non-parametric multivariate techniques were used to analyse soft-bottom macrobenthic community distribution and its relation to the environmental factors. Similar distribution patterns between investigated taxonomic levels were detected and they were mainly related to depth.

Screening Subclinical Keratoconus With Placido-Based Corneal Indices

Purpose. To assess in a sample of normal, keratoconic, and keratoconus (KC) suspect eyes the performance of a set of new topographic indices computed directly from the digitized images of the Placido rings. Methods. This comparative study was composed of a total of 124 eyes of 106 patients from the ophthalmic clinics Vissum Alicante and Vissum Almería (Spain) divided into three groups: control group (50 eyes), KC group (50 eyes), and KC suspect group (24 eyes). In all cases, a comprehensive examination was performed, including the corneal topography with a Placidobased CSO topography system. Clinical outcomes were compared among groups, along with the discriminating performance of the proposed irregularity indices. Results. Significant differences at level 0.05 were found on the values of the indices among groups by means of Mann-Whitney-Wilcoxon nonparametric test and Fisher exact test. Additional statistical methods, such as receiver operating characteristic analysis and K-fold cross validation, confirmed the capability of the indices to discriminate between the three groups. Conclusions. Direct analysis of the digitized images of the Placido mires projected on the cornea is a valid and effective tool for detection of corneal irregularities. Although based only on the data from the anterior surface of the cornea, the new indices performed well even when applied to the KC suspect eyes. They have the advantage of simplicity of calculation combined with high sensitivity in corneal irregularity detection and thus can be used as supplementary criteria for diagnosing and grading KC that can be added to the current keratometric classifications.