Pedigree analysis of the Spanish grapevine cultivar 'Hebén'

The use of Single Nucleotide Polymorphism (SNP) markers allows genetic identification and parentage analysis of grapevine cultivars. Ancient cultivars like 'Hebén' were widely cultivated in the Iberian Peninsula along its history and likely contributed to the origin of varieties which are still cultivated today. The goal of our study was to search for possible first-degree relationships between the female variety 'Hebén' and other Iberian and Mediterranean cultivars. For this purpose, we used a set of 261 SNP markers which allowed identifying 23 trios and 37 parent-offspring relationships supported by high overall likelihood ratios (LOD scores). The results shed light on the relationships among several cultivars from Spain and Portugal, and demonstrated that 'Hebén' is a major founder of current varieties in the Iberian Peninsula viticulture, and contributed to spread the chlorotype A in this region

Grapevine cultivar 'Alfrocheiro' or 'Bruñal' plays a primary role in the relationship among Iberian grapevines

The grapevine cultivar known in Portugal as 'Alfrocheiro', and in Spain as 'Bastardo Negro', 'Bruñal' or 'Baboso Negro', plays a central role in the genetic network of the Iberian Peninsula grapevine cultivars. Three sets of different molecular markers, SNPs, nSSRs and cpSSRs, revealed more than twenty parent-offspring links with this cultivar. 'Alfrocheiro' chlorotype is definitely Western European but their parents are still unknown. The distribution of the cultivar, their offspring as well as the two main co-parents direct to a geographic origin around the Portuguese and Spanish border. This cultivar and their progenies represent about 15 % of the total grapevine acreage in Portugal, stressing the importance of 'Alfrocheiro' in the Portuguese wine character

Schinus sección Myrtifolia (Anacardiaceae) en Argentina

Schinus is a well known ecologically and economically important genus in Argentina. A recent molecular phylogenetic study proposed a new infrageneric classification of Schinus in sections. Section Myrtifolia has been defined as a clade of ca. 11 species from the Yungas, five of which occurring in Argentina (S. gracilipes, S. huyngan var. subtridentata, S. meyeri, S. myrtifolia, and S. venturii). The objective of this work was to present an updated synthesis of the diversity of Schinus section Myrtifolia in Argentina. New collections were revised and made. The traditional methodology for taxonomic studies, including morphological observations, was followed. Protologues and types were analyzed, and geographic distributions were recorded. Our results support the existence of only four species in Argentina, because we propose the synonymy of S. meyeri with S. venturii and of S. gracilipes var. pilosa with S. gracilipes. Schinus huyngan var. subtridentata is a new mention. A distribution map of the four species and a taxonomic key are presented. Schinus gracilipes and S. huyngan var. subtridentata are the most easily identified species; S. myrtifolia and S. venturii show the highest leaf morphological variation. Species are differentiated from one another by their latitudinal distribution.Schinus es un género muy conocido, ecológica y económicamente importante en Argentina. Un estudio filogenético molecular reciente propuso una nueva clasificación infragenérica de Schinus en secciones. La sección Myrtifolia se ha definido como un clado de ca. 11 especies de las Yungas, cinco de las cuales se encuentran en Argentina (S. gracilipes, S. huyngan var. subtridentata, S. meyeri, S. myrtifolia y S. venturii). El objetivo de este trabajo fue presentar una síntesis actualizada de la diversidad de Schinus sección Myrtifolia en Argentina. Se revisaron y realizaron nuevas colecciones. La metodología fue la tradicional de estudios taxonómicos, con observaciones morfológicas. Se analizaron protólogos, tipos y se registraron distribuciones geográficas. Nuestros resultados apoyan la existencia de solo cuatro especies en Argentina, porque proponemos la sinonimia de S. meyeri con S. venturii y de S. gracilipes var. pilosa con S. gracilipes. Schinus huyngan var. subtridentata es una nueva cita. Se presenta un mapa de distribución de las cuatro especies y una clave taxonómica. Schinus gracilipes y S. huyngan var. subtridentata son las especies más fáciles de identificar; S. myrtifolia y S. venturii muestran la mayor variación morfológica foliar. Las especies se diferencian entre sí por su distribución latitudinal

Transcript and metabolite analysis in Trincadeira cultivar reveals novel information regarding the dynamics of grape ripening

<p>Abstract</p> <p>Background</p> <p>Grapes (<it>Vitis vinifera </it>L.) are economically the most important fruit crop worldwide. However, the complexity of molecular and biochemical events that lead to the onset of ripening of nonclimacteric fruits is not fully understood which is further complicated in grapes due to seasonal and cultivar specific variation. The Portuguese wine variety Trincadeira gives rise to high quality wines but presents extremely irregular berry ripening among seasons probably due to high susceptibility to abiotic and biotic stresses.</p> <p>Results</p> <p>Ripening of Trincadeira grapes was studied taking into account the transcriptional and metabolic profilings complemented with biochemical data. The mRNA expression profiles of four time points spanning developmental stages from pea size green berries, through <it>véraison </it>and mature berries (EL 32, EL 34, EL 35 and EL 36) and in two seasons (2007 and 2008) were compared using the Affymetrix GrapeGen^®genome array containing 23096 probesets corresponding to 18726 unique sequences. Over 50% of these probesets were significantly differentially expressed (1.5 fold) between at least two developmental stages. A common set of modulated transcripts corresponding to 5877 unigenes indicates the activation of common pathways between years despite the irregular development of Trincadeira grapes. These unigenes were assigned to the functional categories of "metabolism", "development", "cellular process", "diverse/miscellanenous functions", "regulation overview", "response to stimulus, stress", "signaling", "transport overview", "xenoprotein, transposable element" and "unknown". Quantitative RT-PCR validated microarrays results being carried out for eight selected genes and five developmental stages (EL 32, EL 34, EL 35, EL 36 and EL 38). Metabolic profiling using ¹H NMR spectroscopy associated to two-dimensional techniques showed the importance of metabolites related to oxidative stress response, amino acid and sugar metabolism as well as secondary metabolism. These results were integrated with transcriptional profiling obtained using genome array to provide new information regarding the network of events leading to grape ripening.</p> <p>Conclusions</p> <p>Altogether the data obtained provides the most extensive survey obtained so far for gene expression and metabolites accumulated during grape ripening. Moreover, it highlighted information obtained in a poorly known variety exhibiting particular characteristics that may be cultivar specific or dependent upon climatic conditions. Several genes were identified that had not been previously reported in the context of grape ripening namely genes involved in carbohydrate and amino acid metabolisms as well as in growth regulators; metabolism, epigenetic factors and signaling pathways. Some of these genes were annotated as receptors, transcription factors, and kinases and constitute good candidates for functional analysis in order to establish a model for ripening control of a non-climacteric fruit.</p

Challenges of viticulture adaptation to global change: tackling the issue from the roots

Viticulture is facing emerging challenges not only because of the effect of climate change on yield and composition of grapes, but also of a social demand for environmental‐friendly agricultural management. Adaptation to these challenges is essential to guarantee the sustainability of viticulture. The aim of this review is to present adaptation possibilities from the soil‐hidden, and often disregarded, part of the grapevine, the roots. The complexity of soil–root interactions makes necessary a comprehensive approach taking into account physiology, pathology and genetics, in order to outline strategies to improve viticulture adaptation to current and future threats. Rootstocks are the link between soil and scion in grafted crops, and they have played an essential role in viticulture since the introduction of phylloxera into Europe at the end of the 19th century. This review outlines current and future challenges that are threatening the sustainability of the wine sector and the relevant role that rootstocks can play to face these threats. We describe how rootstocks along with soil management can be exploited as an essential tool to deal with the effects of climate change and of emerging soil‐borne pests and pathogens. Moreover, we discuss the possibilities and limitations of diverse genetic strategies for rootstock breeding.info:eu-repo/semantics/publishedVersio

Graphene-based Wireless Agile Interconnects for Massive Heterogeneous Multi-chip Processors

The main design principles in computer architecture have recently shifted from a monolithic scaling-driven approach to the development of heterogeneous architectures that tightly co-integrate multiple specialized processor and memory chiplets. In such data-hungry multi-chip architectures, current Networksin- Package (NiPs) may not be enough to cater to their heterogeneous and fast-changing communication demands. This position paper makes the case for wireless in-package networking as the enabler of efficient and versatile wired-wireless interconnect fabrics for massive heterogeneous processors. To that end, the use of graphene-based antennas and transceivers with unique frequency-beam reconfigurability in the terahertz band is proposed. The feasibility of such a wireless vision and the main research challenges towards its realization are analyzed from the technological, communications, and computer architecture perspectives

Challenges of viticulture adaptation to global change: tackling the issue from the roots

[EN] Viticulture is facing emerging challenges not only because of the effect of climate change on yield and composition of grapes, but also of a social demand for environmental-friendly agricultural management. Adaptation to these challenges is essential to guarantee the sustainability of viticulture. The aim of this review is to present adaptation possibilities from the soil-hidden, and often disregarded, part of the grapevine, the roots. The complexity of soil-root interactions makes necessary a comprehensive approach taking into account physiology, pathology and genetics, in order to outline strategies to improve viticulture adaptation to current and future threats. Rootstocks are the link between soil and scion in grafted crops, and they have played an essential role in viticulture since the introduction of phylloxera into Europe at the end of the 19th century. This review outlines current and future challenges that are threatening the sustainability of the wine sector and the relevant role that rootstocks can play to face these threats. We describe how rootstocks along with soil management can be exploited as an essential tool to deal with the effects of climate change and of emerging soil-borne pests and pathogens. Moreover, we discuss the possibilities and limitations of diverse genetic strategies for rootstock breeding.This work is framed in the networking activities of RedVitis (AGL2015-70931-REDT) and RedVitis 2.0 (AGL2017-90759-REDT), funded by the State Research Agency (AEI) of the Spanish Ministry of Science and Innovation. Ms Diana Marin is beneficiary of postgraduate scholarship funded by Universidad Publica de Navarra (FPI-UPNA-2016). Dr Juan Emilio Palomares-Rius acknowledges the State Research Agency (AEI) of the Spanish Ministry of Science and Innovation for the 'Ramon y Cajal' Fellowship RYC-2017-22228 and Dr David Gramaje acknowledges Spanish Ministry of Economy and Competitiveness for the 'Ramon y Cajal' Fellowship RYC-2017-23098.Marín, D.; Armengol Fortí, J.; Carbonell-Bejerano, P.; Escalona, J.; Gramaje Pérez, D.; Hernández-Montes, E.; Intrigliolo, DS.... (2021). Challenges of viticulture adaptation to global change: tackling the issue from the roots. Australian Journal of Grape and Wine Research. 27(1):8-25. https://doi.org/10.1111/ajgw.12463S825271AGÜERO, C. B., URATSU, S. L., GREVE, C., POWELL, A. L. T., LABAVITCH, J. M., MEREDITH, C. P., & DANDEKAR, A. M. (2005). Evaluation of tolerance to Pierce’s disease andBotrytisin transgenic plants ofVitis viniferaL. expressing the pear PGIP gene. 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Challenges of viticulture adaptation to global change: tackling the issue from the roots

Viticulture is facing emerging challenges not only because of the effect of climate change on yield and composition of grapes, but also of a social demand for environmental-friendly agricultural management. Adaptation to these challenges is essential to guarantee the sustainability of viticulture. The aim of this review is to present adaptation possibilities from the soil-hidden, and often disregarded, part of the grapevine, the roots. The complexity of soil-root interactions makes necessary a comprehensive approach taking into account physiology, pathology and genetics, in order to outline strategies to improve viticulture adaptation to current and future threats. Rootstocks are the link between soil and scion in grafted crops, and they have played an essential role in viticulture since the introduction of phylloxera into Europe at the end of the 19th century. This review outlines current and future challenges that are threatening the sustainability of the wine sector and the relevant role that rootstocks can play to face these threats. We describe how rootstocks along with soil management can be exploited as an essential tool to deal with the effects of climate change and of emerging soil-borne pests and pathogens. Moreover, we discuss the possibilities and limitations of diverse genetic strategies for rootstock breeding.This work is framed in the networking activities of RedVitis (AGL2015-70931-REDT) and RedVitis 2.0 (AGL2017-90759-REDT), funded by the State Research Agency (AEI) of the Spanish Ministry of Science and Innovation. Ms Diana Marin is beneficiary of postgraduate scholarship funded by Universidad Publica de Navarra (FPI-UPNA-2016). Dr Juan Emilio Palomares-Rius acknowledges the State Research Agency (AEI) of the Spanish Ministry of Science and Innovation for the 'Ramon y Cajal' Fellowship RYC-2017-22228 and Dr David Gramaje acknowledges Spanish Ministry of Economy and Competitiveness for the 'Ramon y Cajal' Fellowship RYC-2017-23098

Functional proteomics outlines the complexity of breast cancer molecular subtypes

Breast cancer is a heterogeneous disease comprising a variety of entities with various genetic backgrounds. Estrogen receptor-positive, human epidermal growth factor receptor 2-negative tumors typically have a favorable outcome; however, some patients eventually relapse, which suggests some heterogeneity within this category. In the present study, we used proteomics and miRNA profiling techniques to characterize a set of 102 either estrogen receptor-positive (ER+)/progesterone receptorpositive (PR+) or triple-negative formalin-fixed, paraffin-embedded breast tumors. Protein expressionbased probabilistic graphical models and flux balance analyses revealed that some ER+/PR+ samples had a protein expression profile similar to that of triple-negative samples and had a clinical outcome similar to those with triple-negative disease. This probabilistic graphical model-based classification had prognostic value in patients with luminal A breast cancer. This prognostic information was independent of that provided by standard genomic tests for breast cancer, such as MammaPrint, OncoType Dx and the 8-gene Score

Peripheral neuropathy predicts nuclear gene defect in patients with mitochondrial ophthalmoplegia.

Progressive external ophthalmoplegia is a common clinical feature in mitochondrial disease caused by nuclear DNA defects and single, large-scale mitochondrial DNA deletions and is less frequently associated with point mutations of mitochondrial DNA. Peripheral neuropathy is also a frequent manifestation of mitochondrial disease, although its prevalence and characteristics varies considerably among the different syndromes and genetic aetiologies. Based on clinical observations, we systematically investigated whether the presence of peripheral neuropathy could predict the underlying genetic defect in patients with progressive external ophthalmoplegia. We analysed detailed demographic, clinical and neurophysiological data from 116 patients with genetically-defined mitochondrial disease and progressive external ophthalmoplegia. Seventy-eight patients (67%) had a single mitochondrial DNA deletion, 12 (10%) had a point mutation of mitochondrial DNA and 26 (22%) had mutations in either POLG, C10orf2 or RRM2B, or had multiple mitochondrial DNA deletions in muscle without an identified nuclear gene defect. Seventy-seven patients had neurophysiological studies; of these, 16 patients (21%) had a large-fibre peripheral neuropathy. The prevalence of peripheral neuropathy was significantly lower in patients with a single mitochondrial DNA deletion (2%) as compared to those with a point mutation of mitochondrial DNA or with a nuclear DNA defect (44% and 52%, respectively; P<0.001). Univariate analyses revealed significant differences in the distribution of other clinical features between genotypes, including age at disease onset, gender, family history, progressive external ophthalmoplegia at clinical presentation, hearing loss, pigmentary retinopathy and extrapyramidal features. However, binomial logistic regression analysis identified peripheral neuropathy as the only independent predictor associated with a nuclear DNA defect (P=0.002; odds ratio 8.43, 95% confidence interval 2.24-31.76). Multinomial logistic regression analysis identified peripheral neuropathy, family history and hearing loss as significant predictors of the genotype, and the same three variables showed the highest performance in genotype classification in a decision tree analysis. Of these variables, peripheral neuropathy had the highest specificity (91%), negative predictive value (83%) and positive likelihood ratio (5.87) for the diagnosis of a nuclear DNA defect. These results indicate that peripheral neuropathy is a rare finding in patients with single mitochondrial DNA deletions but that it is highly predictive of an underlying nuclear DNA defect. This observation may facilitate the development of diagnostic algorithms. We suggest that nuclear gene testing may enable a more rapid diagnosis and avoid muscle biopsy in patients with progressive external ophthalmoplegia and peripheral neuropathy