Genetic characterization of Ethiopian Teff diversity panel
Ontology highlight
ABSTRACT: We assembled and characterized the genetic diversity of a representative collection of Ethiopian teff (Eragrostis tef) genotypes developed from landraces and breeding materials.
INSTRUMENT(S): -
ORGANISM(S): Eragrostis Tef
SUBMITTER: Center of Plant Sciences - Scuola Superiore Sant'Anna
Project description:We have generated a collection of patient-derived xenograft (PDX) tumor models and characterized them at the molecular level to facilitate precision oncology.
Project description:The close relationship between diet and health is generally recognized and the growing wellness and consciousness, especially in developed countries, have led to increasing interest for old wheat genotypes, based on perceived health benefits. Although nutritional comparison between old and modern wheat varieties is still controversial, it is generally accepted that old wheat genotypes remained unchanged over the last hundred years. By contrast, modern wheat genotypes are derived by modification of old wheats during the so-called “Green-Revolution” in the second half of the 20th century focusing on obtaining properties in terms of higher grain yield. The present work reports the first comprehensive proteomic profiling and qualitative comparison at the molecular level of metabolic and Chloroform-Methanol (CM)-like protein fractions extracted from mature kernels of two old Sicilian durum wheat landraces, Russello and Timilia Reste Bianche, and Simeto, an improved durum wheat variety widespread in Italy and other Mediterranean countries and chosen as representative of the most widely commercial cultivars. The results obtained reveal that metabolic and CM-like protein fractions of old and modern genotypes present remarkably high similarity with only minor differences. This leads to the conclusion that from a food and nutritional perspective there is a substantial equivalence of the protein composition of the old and modern cultivars.
Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the peduncle tissue samples.
Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the inflorescence tissue samples.
Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the root tissue samples.
Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the crown tissue samples.
Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the grain tissue samples.
Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the spikelet tissue samples.
Project description:Transcriptional profiling of three mexican maize landraces under 10, and 17 days stress and recovery irrigation A dye balanced modified loop design was implemented. Two biological replicates (pooling five representative plants) representing each sampling point for each genotype were obtained for purified RNA from 120 randomly chosen seedlings. This experiment involved a total of forty-eight (24 sets) of microarray hybridizations, including direct and dye swap comparisons between treatments as well as across the three landraces. This design allowed us to determine differences in gene expression between the three different landraces under drought stress (10 and 17 days) and at recovery irrigation compared to irrigated controls.
Project description:Reference materials are vital to benchmarking the reproducibility of clinical tests and essential for monitoring laboratory performance for clinical proteomics. The reference material utilized for mass spectrometric analysis of the human proteome would ideally contain enough proteins to be suitably representative of the human proteome, as well as exhibit a stable protein composition in different batches of sample regeneration. Previously, The Clinical Proteomic Tumor Analysis Consortium (CPTAC) utilized PDX-derived comparative reference (CompRef) materials for the longitudinal assessment of proteomic performance, however, inherent drawbacks of PDX-derived material has resulted in efforts to identify a new source of CompRef material. In this study, we examined the utility of using a panel of seven cancer cell lines, NCI-7 Cell Line Panel, as a reference material for mass spectrometric analysis of the human proteome. Our results showed that not only is the NCI-7 material suitable for benchmarking laboratory sample preparation methods, but NCI-7 sample generation is highly reproducible at both the global and phosphoprotein levels. In addition, the predicted genomic and experimental coverage of the NCI-7 proteome suggests the NCI-7 material may also have applications as a universal standard proteomic reference.