Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Turkish hazelnut ddRAD-seq

ABSTRACT: Analysis of genome-wide genetic diversity in Turkish and reference Corylus (hazelnut) accessions

PROVIDER: PRJEB32239 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3299090_1.fastq.gz	Fastqsanger.gz
	ERR3299090_2.fastq.gz	Fastqsanger.gz
	ERR3299100_1.fastq.gz	Fastqsanger.gz
	ERR3299100_2.fastq.gz	Fastqsanger.gz
	ERR3299110_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 576

Similar Datasets

Hazelnut Genetic Diversity

Project description:Genetic Diversity and Selection Signatures in a global Collection of Hazelnut

| PRJEB82325 | ENA

Turkish white cheese

Project description:Turkish white cheese Metagenome

| PRJNA769956 | ENA

aspergillus from turkish pistacho

Project description:aspergillus from turkish pistacho

| PRJEB65959 | ENA

Gastrointestinal digestion of hazelnut allergens on molecular level: Elucidation of degradation kinetics and resistant immunoactive peptides using mass spectrometry

Project description:Allergy to hazelnut seeds ranks among the most prevalent food allergies in Europe. The aim of this study was to elucidate the gastrointestinal digestion of hazelnut allergens on molecular level. Hazelnut flour was digested in vitro following the Infogest consensus model. For six allergenic proteins, the time-dependent course of digestion was monitored by SDS-PAGE and HPLC−MS/MS, and degradation products were characterized by a bottom-up proteomics approach. Depending on the molecular structure, a specific biochemical fate was observed for each allergen, and degradation kinetics were traced back to the peptide level. 1183 peptides were characterized, including 130 peptides that carry known IgE-binding epitopes and may represent sensitizers for hazelnut allergy. The kinetics of peptide formation and degradation were determined by label free quantification and follow a complex multi-stage mechanism.

2017-07-11 | PXD006412 | Pride

Project description:Genetic differentiation of beaked hazelnut (Corylus cornuta) in western North America

| PRJNA1138710 | ENA

Genome-wide association study of Behcet's disease in the Turkish population

Project description:Genome-wide association study of Behcet's disease in the Turkish population

| PRJNA75609 | ENA

Top-down venomics of 12 turkish viper species

Project description:Top-down venom proteome analysis of reduced (TCEP) and native venom samples from twelve turkish viper species.

2022-04-04 | MSV000089193 | MassIVE

The HADES Yield Prediction System - A Case Study on the Turkish Hazelnut Sector.

Project description:Crop yield forecasting activities are essential to support decision making of farmers, private companies and public entities. While standard systems use georeferenced agro-climatic data as input to process-based simulation models, new trends entail the application of machine learning for yield prediction. In this paper we present HADES (HAzelnut yielD forEcaSt), a hazelnut yield prediction system, in which process-based modeling and machine learning techniques are hybridized and applied in Turkey. Official yields in the top hazelnut producing municipalities in 2004-2019 are used as reference data, whereas ground observations of phenology and weather data represent the main HADES inputs. A statistical analysis allows inferring the occurrence and magnitude of biennial bearing in official yields and is used to aid the calibration of a process-based hazelnut simulation model. Then, a Random Forest algorithm is deployed in regression mode using the outputs of the process-based model as predictors, together with information on hazelnut varieties, the presence of alternate bearing in the yield series, and agro-meteorological indicators. HADES predictive ability in calibration and validation was balanced, with relative root mean square error below 20%, and R2 and Nash-Sutcliffe modeling efficiency above 0.7 considering all municipalities together. HADES paves the way for a next-generation yield prediction system, to deliver timely and robust information and enhance the sustainability of the hazelnut sector across the globe.

| S-EPMC8216502 | biostudies-literature

Epigenetic variability among saffron crocus (Crocus sativus L.) accessions characterised by different phenotypes

Project description:This work represents the first epigenomic study carried out on saffron crocus. Five accessions of saffron, showing differences in tepal pigmentation, yield of saffron and flowering time, were analysed at the epigenetic level by applying a methylation-sensitive restriction enzyme-sequencing (MRE-seq) approach. Five accession-specific hypomethylomes plus a reference hypomethylome, generated by combining the sequence data from the single accessions, were obtained. Assembled sequences were annotated against existing online databases. In the absence of the Crocus genome, the rice genome was mainly used as the reference as it is the best annotated genome among monocot plants. Comparison of the hypomethylomes revealed many differentially methylated regions, confirming the high epigenetic variability present among saffron accessions, including sequences encoding for proteins that could be good candidates to explain the accessions’ alternative phenotypes. In particular, transcription factors involved in flowering process (MADS-box and TFL) and for the production of pigments (MYB) were detected. Finally, by comparing the generated sequences of the different accessions, a high number of SNPs, likely having arisen as a consequence of the prolonged vegetative propagation, were detected, demonstrating surprisingly high genetic variability. Gene ontology (GO) was performed to map and visualise sequence polymorphisms located within the GOs and to compare their distributions among different accessions. As well as suggesting the possible existence of alternative phenotypes with a genetic basis, a clear difference in polymorphic GO is present among accessions based on their geographic origin, supporting a possible signature of selection in the Indian accession with respect to the Spanish ones.

2021-03-24 | GSE166350 | GEO

Project description:Sequencing of a Fusarium Endophytic Isolate from Hazelnut (Corylus avellana L.)

| PRJNA1210087 | ENA