Sergio Gálvez

• Doctor of Engineering
• Professor at University of Malaga

High-throughput phenotyping (HTP) provides new opportunities for efficiently dissecting the genetic basis of drought-adaptive traits, which is essential in current wheat breeding programs. The combined use of HTP and genome-wide association (GWAS) approaches has been useful in the assessment of complex traits such as yield, under field stress condi...

Recent technological advances in next-generation sequencing (NGS) technologies have dramatically reduced the cost of DNA sequencing, allowing species with large and complex genomes to be sequenced. Although bread wheat (Triticum aestivum L.) is one of the world’s most important food crops, efficient exploitation of molecular marker-assisted breedin...

Dehydration proteins (dehydrins, DHNs) confer tolerance to water-stress deficit in plants. We performed a comparative genomics and evolutionary study of DHN genes in four model Brachypodium grass species. Due to limited knowledge on dehydrin expression under water deprivation stress in Brachypodium, we also performed a drought-induced gene expressi...

Dehydration proteins (dehydrins, DHNs) confer tolerance to water-stress deficit to plants, thus playing a fundamental role in plant response and adaptation to water-deprivation stressful environments. We have performed a comparative genomics and evolutionary study of DHN genes in four model Brachypodium grass species, and a drought-induced function...

Recent developments have revolutionized the study of biomolecules. Among them are molecular markers, amplification and sequencing of nucleic acids. The latter is classified into three generations. The first allows to sequence small DNA fragments. The second one increases throughput, reducing turnaround and pricing, and is therefore more convenient...

Bioinformatics has evolved considerably over the past few decades, due to the huge amount of data generated in the omics fields, such as genomics, transcriptomics and proteomics. Biologists face new software applications and tools, published at an increasing rate. Yet, it may be cumbersome to deal with their installation, execution and integration....

Recent technological advances in next-generation sequencing (NGS) technologies have dramatically reduced the cost of DNA sequencing, allowing species with large and complex genomes to be sequenced. Although bread wheat ( Triticum aestivum L.) is one of the world's most important food crops, until very recently efficient exploitation of molecular ma...

Following the elucidation of the critical roles they play in numerous important biological processes, long noncoding RNAs (lncRNAs) have gained vast attention in recent years. Manual annotation of lncRNAs is restricted by known gene annotations and is prone to false prediction due to the incompleteness of available data. However, with the advent of...

New High-Performance Computing architectures have been recently developed for commercial central processing unit (CPU). Yet, that has not improved the execution time of widely used bioinformatics applications, like BLAST+. This is due to a lack of optimization between the bases of the existing algorithms and the internals of the hardware that allow...

Next Generation Sequencing (NGS) techniques have facilitated genome sequencing in a cost-effective way and have impacted the work of geneticists and bioinformaticians. In particular, the study of gene families and transcription factors in plants is among the fields affected by this revolution, and remains a task involving many manual steps and the...

High-resolution melting analysis (HRM) is a resolutive technique, using PCR amplification and in-tube detection, which is based on the PCR product’s melting analysis. It is a promising technique for breeding analysis, as it does not require dedicated sequencing equipment. It can be performed using QRT-PCR equipment that can be available in small-me...

The practical use of molecular markers is facilitated by cost-effective detection techniques. In this work, wheat insertion site-based polymorphisms (ISBP) markers were set up for genotyping using high-resolution melting analysis (HRM). Polymorphic HRM-ISBP assays were developed for wheat chromosomes 4A and 3B and used for wheat variability assessm...

Final grain production and quality in durum wheat are affected by biotic and abiotic stresses. The association mapping (AM) approach is useful for dissecting the genetic control of quantitative traits, with the aim of increasing final wheat production under stress conditions. In this study, we used AM analyses to detect quantitative trait loci (QTL...

Wheat can adapt to most agricultural conditions across temperate regions. This success is the result of phenotypic plasticity conferred by a large and complex genome composed of three homoeologous genomes (A, B, and D). Although drought is a major cause of yield and quality loss in wheat, the adaptive mechanisms and gene networks underlying drought...

Climatic conditions affect the growth, development and final crop production. As wheat is of paramount importance as a staple crop in the human diet, there is a growing need to study its abiotic stress adaptation through the performance of key breeding traits. New and complementary approaches, such as genome-wide association studies (GWAS) and geno...

Site location and agronomical details. (XLSX)

Descriptive statistics of each trait in each environment with key quantiles. (XLSX)

Accession mean values and standard deviation for assessed traits by year and location. (IAS, initial agronomic score; WGP, whole grain protein (%); SW, specific weight (g); YC, yellow colour; GI, gluten index (%); SDS, sedimentation index (cm3); and YIELD, yield (Kg/ha)). Means were calculated for three replications of the durum varieties at the fi...

Analysis of candidate genes found in Glu-A1 and Glu-B1 loci in chromosomes 1A and 1B. Differentially expression was indicated for each gene: SFS—severe stress field conditions; MFS—mild field stress conditions; P1h - osmotic stress as polyethylene glycol (PEG) 1hour; P6h - osmotic stress PEG 6hours. (TIFF)

Relationship between yield and temperature. a) Relation between yield and maximum temperature mean (°C) by location and year for durum wheat varieties for final stages; b) Relation between yield and thermal sum from 1st April to 30th June. (YIELD: mean values by place and year for released lines (Kg/ha); Tmax: maximum temperature (°C); GDD: Growing...

Kindship matrix for DArT markers. (XLSX)

Kindship matrix for SNP markers. (XLSX)

List of durum wheat lines assessed. (XLSX)

Projection of each genotype assessed on all the PCos. (XLSX)

Eigenvalues from the PCo analysis. (XLSX)

BLUP analysis results using DArT markers for assessed traits (gluten index, GI; initial agronomic score, IAS; sedimentation index, SDS; specific weight, SW; whole grain protein, WGP; yellow colour, YC; yield, YIELD). (XLSX)

Meteorological information collected from agroclimatic stations (Junta de Andalucia) (https://www.juntadeandalucia.es/agriculturaypesca/ifapa/ria/servlet/ FrontController). Mean, maximum and minimum values for temperature (maximum temperature (Tmax), average temperature (Tmed) and minimum temperature (Tmin)) (°C), rainfall (Pp) (mm) and evapotransp...

Matrix of correlations between assessed traits across years and environments (yield (Kg/ha), YIELD; yellow colour, YC; whole grain protein (%), WGP; specific weight (g), SW; sedimentation index (cm3), SDS; initial agronomic score, IAS; and gluten index (%), GI). (XLSX)

BLUP analysis results using SNP markers for assessed traits (gluten index, GI; initial agronomic score, IAS; sedimentation index, SDS; specific weight, SW; whole grain protein, WGP; yellow colour, YC; yield, YIELD). (XLSX)

The MC64-Cluster computer platform was designed, based on many-core CPU microprocessors: Tile64. MC64-Cluster architecture was outlined in terms of both hardware and software, including commands available to manage jobs and provided application programming interfaces to communicate and synchronize tiles, making this system easy to use. Massively co...

En este trabajo se aborda la difusión de información relativa a puntos de interés geolocalizados mediante las últimas técnicas de realidad aumentada. En particular, se tratan las 30 reducciones jesuíticas guaraníes que se asentaron en Argentina, Brasil y Paraguay. La información geoespacial y los datos de interés cultural se han fusionado mediante...

The Smith-Waterman algorithm has a great sensitivity when used for biological sequence-database searches, but at the expense of high computing-power requirements. To overcome this problem, there are implementations in literature that exploit the different hardware-architectures available in a standard PC, such as GPU, CPU, and coprocessors. We intr...

We have developed the MC64-ClustalWP2 as a new implementation of the Clustal W algorithm, integrating a novel parallelization strategy and significantly increasing the performance when aligning long sequences in architectures with many cores. It must be stressed that in such a process, the detailed analysis of both the software and hardware feature...

The performance of the many-core Tile64 versus the multi-core Xeon x86 architecture on bioinformatics has been compared. We have used the pairwise algorithm MC64-NW/SW that we have previously developed to align nucleic acid (DNA and RNA) and peptide (protein) sequences for the benchmarking, being an enhanced and parallel implementation of the Needl...

Current trends in computer programming look for solutions in the challenging task of porting and optimizing existing algorithms to many-core architectures with tens of Central Processing Units (CPUs). Yet, the lack of standardized general-purpose parallel programming and porting methodologies represents the main bottleneck on these developments. We...

The current developments in life sciences face a big challenge, with the need of dealing with huge amounts of data and the increasing demand of computational resources, both in hardware and in software, pushing the limits of the available state-of-the-art at an affordable price. This paper introduces a computer cluster whose building blocks are the...

Wheat is the third most important crop for human nutrition in the world. The availability of high-resolution genetic and physical maps and ultimately a complete genome sequence holds great promise for breeding improved varieties to cope with increasing food demand under the conditions of changing global climate. However, the large size of the bread...

Wheat is the third most important crop for human nutrition in the world. The availability of high-resolution genetic and physical maps and ultimately a complete genome sequence holds great promise for breeding improved varieties to cope with increasing food demand under the conditions of changing global climate. However, the large size of the bread...

The new massive DNA sequencing methods demand both computer hardware and bioinformatics software capable of handling huge amounts of data. This paper shows how the many-core processors (in which each core can execute a whole operating system) can be exploited to address problems which previously required expensive supercomputers. Thus, the Needlema...

Current computer engineering evolves at an accelerated pace, with hardware advancing towards new chip multiprocessors (CMP) architectures and with supporting software gearing towards new programming and abstraction paradigms, to obtain the maximum efficiency of the hardware at a low cost. In this context, Tilera Corporation has developed a brand ne...

New analytical methodologies, like the so-called “next-generation sequencing” (NGS), allow the sequencing of full genomes with high speed and reduced price. Yet, such technologies generate huge amounts of data that demand large raw computational power. Many-core technologies can be exploited to overcome the involved bioinformatics bottleneck. Indee...

Motivation: Bioinformatics algorithms and computing power are the main bottlenecks for analyzing huge amount of data generated by the current technologies, such as the 'next-generation' sequencing methodologies. At the same time, most powerful microprocessors are based on many-core chips, yet most applications cannot exploit such power, requiring p...

The recent developments in life sciences and technology have produced large amounts of data in an extremely fast and cost-efficient way which require the development of new algorithms, coupled with massively parallel computing. Besides, biologists are usually non-programmers, thus demanding intuitive computer applications that are easy to use by me...

Resumen El presente trabajo de investigación propone un Modelo de Interacción Estado-Ciudadano con tecnología SMS para optimizar el servicio al paciente. Mediante esta tecnología, los hospitales públicos pueden dar calidad y eficacia a la gestión de turnos para la consulta médica externa. Plantea un nuevo procedimiento, donde presenta la comunicaci...

In this paper, we describe methods for the analysis and design of Cooperative Object-oriented Information Systems. These methods involve users in the development of general Information Systems much more than traditional ones like Metrica or UML. We introduce a set of cooperative tools, based on a powerful and user friendly graphic interface that fa...

Information systems (IS) have evolved and adapted to the advances of hardware and software. However, rather than in the technology itself, the innovations have taken place in two fundamental areas: IS analysis, design and development techniques; and changes in the philosophy of IS. Workflow management is a new IS vision than can be classified into...

Finding out the profile a given city or town has in the eyes of potential tourists is very useful for marketing purposes as it helps to develop strategies and communication actions aimed at promoting the city. It also allows us to identify which elements are more relevant to the evaluation carried out by the different market segments of the place i...

Resumen. En este artículo, tras describir brevemente los fundamentos y componentes básicos de CBD, una herramienta orientada al usuario para su participación en el diseño cooperativo de bases de datos, y del modelo de datos propio que soporta, abordamos la problemática del diseño de su interfaz de usuario y del proceso de interacción del usuario co...

Nowadays, Workflow Management offers many advantages to the tourism industry due to the high degree of competition existing in this field and the need to quickly develop new products, offers, and services. This need for flexibility cannot be achieved without improving the processes involved in the information systems. Workflow technology facilitate...

In this article we present methods for the analysis and design of Cooperative Object-oriented Information Systems. These methods enable companies to achieve competitive advantages, as well as increase the quality of software development. In addition, they involve users much more in the development of Tourist Information Systems. In order to accompl...

Resumen: En la a ctualidad la mayoría d e las empresas tienen implantados s istemas informáticos que gestionan los distintos procesos que realiza. Esta afirmación, en principio, no apo rta nada nuevo, si no fuera po rque también es conocido po r todos el alto g rado de insatisfacción que existe en las organizaciones, debido a que los sistemas de in...

The current work is part of a larger research and development project undertaken by the Department of Computer Languages and Science at the University School of Tourism in Malaga University, in collaboration with certain software development companies plus the support of more than fifteen hotels in Malaga and Almeria, Spain.

In this article we will discuss the best methodologies for assisted database design in which the user is actively involved. This work is part of the research carried out by our development group, whose aim is not only to involve users in design specification tasks within their own company, but also, and much more importantly, make them aware of the...

The aim of this work is to provide a solution to one of the conflicts that arise in communications among the different participants in a cooperative information system. In particular, we focus on the use of specific names or identifiers by the users of this information system to designate each object, datum or process. The solution given in this wo...

La mayor parte del desarrollo de Sistemas de Información se realiza mediante una estructura jerarqui-zada: los usuarios presentan al Departamento de Sistemas sus necesidades este ofrece unas posibles soluciones. En este trabajo presentamos las dificultades relacionadas con el diseño de un interfaz de usuario adecuado a una metodología cooperativa d...

Resumen La construcción de esqueletos básicos de compiladores es una labor que ha sido ampliamente superada tras los estudios teóricos de Chomsky sobre gramáticas, y el desarrollo posterior de multitud de herramientas, llamadas metacompiladores (Yacc, Bison, byacc, PRE-CC Xtended, etc.), cuyo objetivo es el de generar programas que reconozcan si un...

Resumen La construcción de esqueletos básicos de compiladores es una labor que ha sido ampliamente superada tras los estudios teóricos de Chomsky sobre gramáticas, y el desarrollo posterior de multitud de herramientas (Yacc, Bison, byacc, PRE-CC Xtended, etc.) cuyo objetivo es el de generar autómatas que reconozcan los lenguajes generados mediante...

Resumen En este trabajo se presentan los principales aspectos tecnológicos relativos al desarrollo del proyecto realizado por el grupo SICUMA (Sistemas de Información Cooperativos de la Universidad de Málaga) para la empresa pública municipal Turismo de Ronda, S. A. Dicho proyecto consistía en crear un sistema telemático con un doble objetivo: por...

In this article we will discuss the best methodologies for assisted database design in which the user is actively involved. This work is part of the research carried out by our development group, whose aim is not only to involve users in design specification tasks within their own company, but also, and much more importantly, make them aware of the...

En este artículo presentamos una alternativa a las ya tradicionales y tan extendidas interfaces de usuario orientadas a metáforas y controladas mediante manipulación directa con elementos WIMP (Ventanas, Iconos, Menús desplegables y Ratón) y por tanto, también al estilo de interacción en que se basan. Nuestra propuesta, la Interacción conducida o g...

Resumen: La gestión workflow es de gran utilidad para las empresas turísticas, las cuales en la actualidad se enfrentan a una alta competitividad y se encuentran en la necesidad de desarrollar rápidamente nuevos productos, ofertas y servicios. Esta adaptabilidad no se puede conseguir si no mejoran los procesos de los sistemas de información. La tec...

1 Introducción. El problema de la comunicación entre los usuarios necesitados de programas de aplicación para la gestión, y los informáticos que los desarrollan no es, por antiguo, nada trivial [Che94]. Prácticamente todas la metodologías de desarrollo de sistemas de información, comienzan con una fase de captura de requerimientos, en la que los an...

Resumen: Durante los últimos tiempos las nuevas tecnologías están produciendo un cambio radical en las comunicaciones y en la gestión. Las empresas del sector turístico y concretamente, las empresas de gestión hotelera, deben incorporar todas las tecnologías actuales para i ncrementar la calidad de los servicios. El presente artículo realiza un rep...

RESUMEN El presente trabajo está enmarcado dentro de una línea de investigación sobre herramientas CASE, mediante las cuales sean los propios usuarios los que definan de forma cooperativa sus necesidades y métodos de trabajo, de forma que el personal informático coordinador, se dedique a labores de supervisión y afinación. Como última etapa de este...