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35 results for “ryegrass”
Dataset accompanying Nölke et al. 2022. The choice of the white clover population alters overyielding of mixtures with perennial ryegrass and chicory and underlying processes. Scientific Reports
<p>This repository contains biomass and nitrogen yield data as well as data on diversity effects used by Nölke et al. in an article published in Scientific Reports (2022).</p> <p>Metadata are provided in the first excel worksheet ('explanation_overview'). For further details please see the original research article.</p>
Dataset for "Combination of ryegrass (Lolium perenne L.) and tall fescue (Festuca aurundinacea Schreb.) improve yields in a low P soil."
<p>Dataset for the study "Combination of ryegrass (Lolium perenne L.) and tall fescue (Festuca aurundinacea Schreb.) improve yields in a low P soil."</p>
Orthology guided transcriptome assembly of Italian ryegrass and meadow fescue for single nucleotide polymorphisms discovery (data set)
<p>Transcriptome sequencing was performed on ten samples (corresponding to six genotypes) of <em>Festuca pratensis</em> and ten samples (corresponding to six genotypes) of <em>Lolium multiflorum</em> and fourteen samples of<em> Lolium perenne</em> (corresponding to fourteen genotypes). Using the OGA approach, 18,952 non-redundant <em>F. pratensis</em> transcripts were assembled by combining the contigs of all six genotypes based on orthology with the <em>Brachypodium distachyon </em>proteome. Similarly, <em>19,036</em> non-redundant<em> L. multiflorum</em> transcripts were assembled and annotated. In total, 17,455 orthologous transcripts were shared between the transcriptomes of the two species. Out of these, 16,613 orthologous transcripts overlap with the previously published<em> L. perenne</em> transcriptome containing 19,279 non-redundant transcripts(fasta files). We identified SNPs, the following criteria were used to classify it as one of following three classes (1) intraspecific SNPs (INTRA), (2) interspecific SNPs in two-way comparison (INTER-2W) and (3) interspecific SNPs in three-way comparison (INTER-3W) (GFF files).</p>
Orthology guided transcriptome assembly of Italian ryegrass and meadow fescue (update data set)
<p>Transcriptome sequencing was performed on ten samples (corresponding to six genotypes) of <em>Festuca pratensis</em> and ten samples (corresponding to six genotypes) of <em>Lolium multiflorum</em> and fourteen samples of<em> Lolium perenne</em> (corresponding to fourteen genotypes). Using the OGA approach, 18,952 non-redundant <em>F. pratensis</em> transcripts were assembled by combining the contigs of all six genotypes based on orthology with the <em>Brachypodium distachyon </em>proteome. Similarly, <em>19,036</em> non-redundant<em> L. multiflorum</em> transcripts were assembled and annotated. In total, 17,455 orthologous transcripts were shared between the transcriptomes of the two species. Out of these, 16,613 orthologous transcripts overlap with the previously published<em> L. perenne</em> transcriptome containing 19,279 non-redundant transcripts(fasta files). We identified SNPs, the following criteria were used to classify it as one of following three classes (1) intraspecific SNPs (INTRA), (2) interspecific SNPs in two-way comparison (INTER-2W) and (3) interspecific SNPs in three-way comparison (INTER-3W) (GFF files).</p>
Raw Data: Higher seed yield through selection for reduced seed shattering in Italian ryegrass
<p>Raw data used for publication "Higher seed yield through selection for reduced seed shattering in Italian ryegrass (<em>Lolium multiflorum</em> Lam.)"</p> <p>This dataset accompanies the article with the same title published on bioRxiv https://doi.org/10.1101/2023.12.01.569550</p>
Data for the Manuscript 'Phenotypic Variation from Waterlogging in Multiple Perennial Ryegrass Varieties under Climate Change Conditions'
<p>Experimental data supporting the findings of the manuscript 'Phenotypic Variation from Waterlogging in Multiple Perennial Ryegrass Varieties under Climate Change Conditions'. This dataset will be made publicly available when the manuscript has been accepted for journal publication unless exceptional conditions become apparent. </p>
Fig. 1 in Infection of perennial ryegrass (Lolium perenne) by an endophyte fungus (Neotyphodium lolii) decreases the abundance and diversity of predators and parasitoids
Fig. 1. Total number of predators collected from Jumbo (E-) and Alto AR1 (E+) perennial ryegrass. A) Number of spiders and B) the number of insects. * indicates significant differences according to the chi-square test.
Pooled DNA sequencing to identify SNPs associated with a major QTL for bacterial wilt resistance in Italian ryegrass (Lolium multiflorum Lam.)
<p>We used pooled DNA sequencing to characterize a major QTL for bacterial wilt resistance of Italian ryegrass and to develop inexpensive sequence-based markers to efficiently target resistance alleles for marker-assisted recurrent selection. From the mapping population segregating for the QTL, DNA of 44 of the most resistant and 44 of the most susceptible F<sub>1</sub> individuals were pooled and sequenced using the Illumina HiSeq2000 platform. Allele frequencies of 18 x 10<sup>6</sup> single nucleotide polymorphisms (SNP) were determined in the resistant and susceptible pool. A total of 271 SNPs on 140 scaffold sequences of the reference parental genome showed significantly different allele frequencies in both pools. We converted 44 selected SNPs to KASP markers, genetically mapped these proximal to the major QTL and thus validated their association with bacterial wilt resistance.</p>
Still-air olfactometer responses of Argentine Stem Weevil to odours from ryegrass, frass, and conspecifics in New Zealand
<p>This dataset contains data from two still-air olfactometer trials, one on diapausing Argentine stem weevils (Listronotus bonariensis) and one on reproductive, gravid, weevils. It also contains dissection data on the weevils that made a choice in the olfactometer. This data set is associated with the manuscript:</p> <p><span>Vereijssen J, Rosta´ s M, van Tol R, van Koten C and Goldson S (2024) Olfactometer-measured responses of Listronotus bonariensis (Kuschel) (Coleoptera: Curculionidae) to feeding-induced grass volatiles and conspecific frass as influenced by the weevil’s seasonality. Front. Ecol. Evol. 12:1470023. doi: 10.3389/fevo.2024.1470023</span></p>
Data for: Leveraging spatio-temporal genomic breeding value estimates of dry matter yield and herbage quality in ryegrass via random regression models
<p>Joint modeling of correlated multi-environment and multi-harvest data of perennial crop species may offer advantages in prediction schemes and a better understanding of the underlying dynamics in space and time. The goal of the present study was to investigate the relevance of incorporating the longitudinal dimension of within-season multiple measurements of forage perennial ryegrass traits in a reaction norm model setup that additionally accounts for genotype-environment interactions (G×E). Genetic parameters and accuracy of genomic breeding value (gEBV) predictions were investigated by fitting three random regression models (gRRM) using Legendre polynomial functions to the data. Genomic DNA sequencing of family pools of diploid perennial ryegrass was performed using DNA nanoball-based technology and yielded 56,645 single nucleotide polymorphisms which were used to calculate the allele frequency-based genomic relationship matrix. Biomass yield's estimated additive genetic variance and heritability values were higher in later harvests. The additive genetic correlations were moderate to low in early measurements and peaked at intermediates, with fairly stable values across the environmental gradient, except for the initial harvest data collection. This led to the conclusion that complex (G×E) arises from spatial and temporal dimensions in the early season, with lower re-ranking trends thereafter. In general, modeling the temporal dimension with a second-order orthogonal polynomial improved the accuracy of gEBV prediction for nutritive quality traits, but no gain in prediction accuracy was detected for dry matter yield. This study leverages the flexibility and usefulness of gRRM models for perennial ryegrass breeding and can be readily extended to other multi-harvest crops.</p>
Single nucleotide Polymorphism (SNP) identification, genetic diversity, and population structure of Ryegrass from the northeastern highlands of Peru
Open the record for dataset details and reuse information.
Data for: Leveraging spatio-temporal genomic breeding value estimates of dry matter yield and herbage quality in ryegrass via random regression models
Open the record for dataset details and reuse information.
The Fungal Endophyte Epichloë festucae var. lolii Plays a Limited Role in Mediating Crown Rust Severity in Perennial Ryegrass
<p>Perennial ryegrass (Lolium perenne L.) is an important turf and forage species that often becomes infected with Puccinia coronata f. sp. lolii, the causal pathogen of crown rust. Disease control through clavicipitaceous endophytes has been proposed as a potential biocontrol. Two field experiments were designed to determine the influence of native Epichloë endophyte infection on natural rust development across a diverse panel of perennial ryegrass germplasm. Experiment 1 used an isogenic population design in which infected (E+) or endophyte-free (E−) clonal plants were nested within 14 perennial ryegrass entries. Experiment 2 consisted of isofrequent E+ and E− progeny from isogenic parents. Results showed the endophyte had no consistent main effect on crown rust severity across or within entries; however, several isogenic host pairs did show either favorable or antagonistic effects. Despite these sporadic effects, no differences were found between isofrequent family pairs, indicating the presence of a host endophyte interaction. Genotypic and phenotypic data revealed that endophyte isolates were similar within entry, indicating that host genotype could be responsible for the highly specific endophyte effect on crown rust. The preponderance of host resistance in mediating rust severity was supported by large broad (>.75) and narrow-sense (.76) heritability estimates. These findings support the conclusion that endophyte infection does not play a substantial role in mediating crown rust severity on a population scale in perennial ryegrass.</p>
Data from: Population structure, genetic variation and linkage disequilibrium in perennial ryegrass populations divergently selected for freezing tolerance
Low temperature is one of the abiotic stresses seriously affecting the growth of perennial ryegrass (Lolium perenne L. Understanding the genetic control of freezing tolerance would aid in the development of cultivars of perennial ryegrass with improved adaptation to frost. A total number of 80 individuals (24 of High frost [HF]; 29 of Low frost [LF] and 27 of Unselected [US]) from the second generation of the two divergently selected populations and an unselected control population were genotyped using 278 genome-wide SNPs derived from Lolium perenne L. transcriptome sequence. Our studies showed that the HF and LF populations are very divergent after selection for freezing tolerance, whereas the HF and US populations are more similar. Linkage disequilibrium (LD) decay varied across the seven chromosomes and the conspicuous pattern of LD between the HF and LF population confirmed their divergence in freezing tolerance. Furthermore, two Fst outlier methods; finite island model (fdist) by LOSITAN and hierarchical structure model using ARLEQUIN detected six loci under directional selection. These outlier loci are most probably linked to genes involved in freezing tolerance, cold adaptation and abiotic stress and might be the potential marker resources for breeding perennial ryegrass cultivars with improved freezing tolerance.
Data from: Global transcriptome changes in perennial ryegrass during early infection by pink snow mould
Lack of resistance to pink snow mould (Microdochium nivale) is a major constraint for adaptation of perennial ryegrass (Lolium perenne L.) to continental regions with long-lasting snow cover at higher latitudes. Almost all investigations of genetic variation in resistance have been performed using cold acclimated plants. However, there may be variation in resistance mechanisms that are functioning independently of cold acclimation. In this study our aim was to identify candidate genes involved in such resistance mechanisms. We first characterized variation in resistance to M. nivale among non-acclimated genotypes from the Norwegian cultivar 'Fagerlin' based on relative regrowth and fungal quantification by real-time qPCR. One resistant and one susceptible genotype were selected for transcriptome analysis using paired-end sequencing by Illumina Hiseq 2000. Transcriptome profiles, GO enrichment and KEGG pathway analysis indicate that defense response related genes are differentially expressed between the resistant and the susceptible genotype. A significant up-regulation of defense related genes, as well as genes involved in cell wall cellulose metabolic processes and aryl-alcohol dehydrogenase (NADP+) activity, was observed in the resistant genotype. The candidate genes identified in this study might be potential molecular marker resources for breeding perennial ryegrass cultivars with improved resistance to pink snow mould.
Data from: Annual ryegrass (Lolium multiflorum Lam.) growth response to nitrogen in a sandy soil amended with acidified manure and municipal sludge after "Quick Wash" treatment
<p>The Quick Wash (QW) treatment extracts phosphorus (P) from manure and municipal sludge (MS), producing an organic acidified by-product with adequate nitrogen (N):P ratio to meet crop N requirements. Yet, data on crop response to N using QW by-products are lacking. We evaluated the response of annual ryegrass (<span class="html-italic">Lolium multiflorum</span> Lam.) and potential N leaching in sandy soil to N applications using raw wastes, their corresponding QW by-products, and ammonium sulfate (AMS) fertilizer. Treatments included a control (no amendment added), raw and acid-washed chicken litter, dairy and swine manure, MS, and AMS at 100, 200, and 400 kg N ha<sup>−1</sup>.</p>
FIGURE 6 in Assessment of SCoT and ISSR molecular markers in genetic diversity of rigid ryegrass (Lolium rigidum Gaud.) in Iran
FIGURE 6. STRUCTURE analysis of L. rigidum populations (A: the relationship between k and Delta k; the grouping based on k=18 (top) and k=17 (below) (The population code is according to Table 1).
FIGURE 3 in Assessment of SCoT and ISSR molecular markers in genetic diversity of rigid ryegrass (Lolium rigidum Gaud.) in Iran
FIGURE 3. TCS Network of L. rigidum studied populations based on ISSR data (The population code is according to Table 1) (Numbers of branches reveal number of different loci among studied populations).
FIGURE 5 in Assessment of SCoT and ISSR molecular markers in genetic diversity of rigid ryegrass (Lolium rigidum Gaud.) in Iran
FIGURE 5. NeighborNet diagram of L. rigidum studied populations based on SCoT data (The population code is according to Table 1).
FIGURE 2 in Assessment of SCoT and ISSR molecular markers in genetic diversity of rigid ryegrass (Lolium rigidum Gaud.) in Iran
FIGURE 2. UPGMA dendrogram of L. rigidum specimens showing genetic differences of the studied populations based on ISSR data (The population code is according to Table 1).
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OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.