ALBERT

Description: Background: REPs (Repetitive Extragenic Palindromes) are small (20--40 bp) palindromic repeats found in high copies in some prokaryotic genomes, hypothesized to play a role in DNA supercoiling, transcription termination, mRNA stabilization. Results: We have monitored a large number of REP elements in prokaryotic genomes, and found that most can be sorted into two large DNA super-families, as they feature at one end unpaired motifs fitting either the GTAG or the CGTC consensus. Tagged REPs have been identified in 〉80 species in 8 different phyla. GTAG and CGTC repeats reside predominantly in microorganisms of the gamma and alpha division of Proteobacteria, respectively. However, the identification of members of both super- families in deeper branching phyla such Cyanobacteria and Planctomycetes supports the notion that REPs are old components of the bacterial chromosome. On the basis of sequence content and overall structure, GTAG and CGTC repeats have been assigned to 24 and 4 families, respectively. Of these, some are species-specific, others reside in multiple species, and several organisms contain different REP types. In many families, most units are close to each other in opposite orientation, and may potentially fold into larger secondary structures. In different REP-rich genomes the repeats are predominantly located between unidirectionally and convergently transcribed ORFs. REPs are predominantly located downstream from coding regions, and many are plausibly transcribed and function as RNA elements. REPs located inside genes have been identified in several species. Many lie within replication and global genome repair genes. It has been hypothesized that GTAG REPs are miniature transposons mobilized by specific transposases known as RAYTs (REP associated tyrosine transposases). RAYT genes are flanked either by GTAG repeats or by long terminal inverted repeats (TIRs) unrelated to GTAG repeats. Moderately abundant families of TIRs have been identified in multiple species. Conclusions: CGTC REPs apparently lack a dedicated transposase. Future work will clarify whether these elements may be mobilized by RAYTs or other transposases, and assess if de-novo formation of either GTAG or CGTC repeats type still occurs.

Description: The amount of Earth observation images available to the public has been the main source of information, helping governments and decision-makers tackling the current world’s most pressing global challenge. However, a number of highly skilled and qualified personnel are still needed to fill the gap and help turn these data into intelligence. In addition, the accuracy of this intelligence relies on the quality of these images in times of temporal, spatial, and spectral resolution. For the purpose of contributing to the global effort aiming at monitoring natural and anthropic processes affecting coastal areas, we proposed a framework for image processing to extract the shoreline and the shallow water depth on GeoEye-1 satellite image and orthomosaic image acquired by an unmanned aerial vehicle (UAV) on the coast of San Vito Lo Capo, with image preprocessing steps involving orthorectification, atmospheric correction, pan sharpening, and binary imaging for water and non-water pixels analysis. Binary imaging analysis step was followed by automatic instantaneous shoreline extraction on a digital image and satellite-derived bathymetry (SDB) mapping on GeoEye-1 water pixels. The extraction of instantaneous shoreline was conducted automatically in ENVI software using a raster to vector (R2V) algorithm, whereas the SDB was computed in ArcGIS software using a log-band ratio method applied on the satellite image and available field data for calibration and vertical referencing. The results obtained from these very high spatial resolution images demonstrated the ability of remote sensing techniques in providing information where techniques using traditional methods present some limitations, especially due to their inability to map hard-to-reach areas and very dynamic near shoreline waters. We noticed that for the period of 5 years, the shoreline of San Vito Lo Capo sand beach migrated about 15 m inland, indicating the high dynamism of this coastal area. The bathymetric information obtained on the GeoEye-1 satellite image provided water depth until 10 m deep with R2 = 0.753. In this paper, we presented cost-effective and practical methods for automatic shoreline extraction and bathymetric mapping of shallow water, which can be adopted for the management and the monitoring of coastal areas.

Description: Within an E.U.-funded project, BESS (Pocket Beach Management and Remote Surveillance System), the notion of a geographic information system is an indispensable tool for managing the dynamics of georeferenced data and information for any form of territorial planning. This notion was further explored with the creation of a WebGIS portal that will allow local and regional stakeholders/authorities obtain an easy remote access tool to monitor the status of pocket beaches (PB) in the Maltese Archipelago and Sicily. In this paper, we provide a methodological approach for the implementation of a WebGIS necessary for very detailed dynamic mapping and visualization of geospatial coastal data; the description of the dataset necessary for the monitoring of coastal areas, especially the PBs; and a demonstration of a case study for the PBs of Sicily and Malta by using the methodology and the dataset used during the BESS project. Detailed steps involved in the creation of the WebGIS are presented. These include data preparation, data storage, and data publication and transformation into geo-services. With the help of different Open Geospatial Consortium protocols, the WebGIS displays different layers of information for 134 PBs including orthophotos, sedimentological/geomorphological beach characteristics, shoreline evolution, geometric and morphological parameters, shallow water bathymetry, and photographs of pocket beaches. The WebGIS allows not only for identifying, evaluating, and directing potential solutions to present and arising issues, but also enables public access and involvement. It reflects a platform for future local and regional coastal zone monitoring and management, by promoting public/private involvement in addressing coastal issues and providing local public administrations with an improved technology to monitor coastal changes and help better plan suitable interventions.

Description: Within an E.U.-funded project, BESS (Pocket BeachManagement and Remote Surveillance System), the notion of a geographic information system is an indispensable tool for managing the dynamics of georeferenced data and information for any form of territorial planning. This notion was further explored with the creation of aWebGIS portal that will allow local and regional stakeholders/authorities obtain an easy remote access tool tomonitor the status of pocket beaches (PB) in theMaltese Archipelago and Sicily. In this paper, we provide a methodological approach for the implementation of aWebGIS necessary for very detailed dynamic mapping and visualization of geospatial coastal data; the description of the dataset necessary for the monitoring of coastal areas, especially the PBs; and a demonstration of a case study for the PBs of Sicily andMalta by using the methodology and the dataset used during the BESS project. Detailed steps involved in the creation of theWebGIS are presented. These include data preparation, data storage, and data publication and transformation into geo-services. With the help of different Open Geospatial Consortium protocols, theWebGIS displays different layers of information for 134 PBs including orthophotos, sedimentological/geomorphological beach characteristics, shoreline evolution, geometric and morphological parameters, shallow water bathymetry, and photographs of pocket beaches. TheWebGIS allows not only for identifying, evaluating, and directing potential solutions to present and arising issues, but also enables public access and involvement. It reflects a platform for future local and regional coastal zone monitoring and management, by promoting public/private involvement in addressing coastal issues and providing local public administrations with an improved technology to monitor coastal changes and help better plan suitable interventions.

Description: Published

Description: 8233

Description: 7SR AMBIENTE – Servizi e ricerca per la società

Description: JCR Journal