Orthology Guided Transcriptome Assembly of Italian Ryegrass and Meadow Fescue for Single-Nucleotide Polymorphism Discovery
| العنوان: | Orthology Guided Transcriptome Assembly of Italian Ryegrass and Meadow Fescue for Single-Nucleotide Polymorphism Discovery |
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| المؤلفون: | Tom Ruttink, Michael Abrouk, Bruno Studer, Štěpán Stočes, Jan Bartoš, David Kopecký, Isabel Roldán-Ruiz, Steven Yates, Tomasz Książczyk, Elodie Rey, Jaroslav Doležel, Zbigniew Zwierzykowski |
| المصدر: | The Plant Genome, 9 (3) PLANT GENOME The Plant Genome The Plant Genome, Vol 9, Iss 3 (2016) |
| بيانات النشر: | Crop Science Society of America, 2016. |
| سنة النشر: | 2016 |
| مصطلحات موضوعية: | 0106 biological sciences, 0301 basic medicine, Festuca, FESTUCA-PRATENSIS HUDS, lcsh:QH426-470, Genetic Linkage, DNA-SEQUENCING DATA, RECOMBINATION, Single-nucleotide polymorphism, Plant Science, lcsh:Plant culture, 01 natural sciences, Polymorphism, Single Nucleotide, LOLIUM-PERENNE L, Transcriptome, 03 medical and health sciences, Botany, Genetics, Lolium, FESTULOLIUM, lcsh:SB1-1110, Genetic variability, Hybrid, Genetic association, biology, Biology and Life Sciences, food and beverages, Lolium multiflorum, Sequence Analysis, DNA, biology.organism_classification, CULTIVARS, GENOME, lcsh:Genetics, 030104 developmental biology, Italy, MULTIFLORUM, RNA-SEQ DATA, HYBRID, Agronomy and Crop Science, 010606 plant biology & botany, Genome-Wide Association Study |
| الوصف: | Single-nucleotide polymorphisms (SNPs) represent natural DNA sequence variation. They can be used for various applications in-cluding the construction of high-density genetic maps, analysis of genetic variability, genome-wide association studies, and map-based cloning. Here we report on transcriptome sequencing in the two forage grasses, meadow fescue (Festuca pratensis Huds.) and Italian ryegrass (Lolium multiflorum Lam.), and identification of various classes of SNPs. Using the Orthology Guided Assembly (OGA) strategy, we assembled and annotated a total of 18,952 and 19,036 transcripts for Italian ryegrass and meadow fescue, respectively. In addition, we used transcriptome sequence data of perennial ryegrass (L. perenne L.) from a previous study to identify 16,613 transcripts shared across all three species. Large numbers of intraspecific SNPs were identified in all three species: 248,000 in meadow fescue, 715,000 in Italian ryegrass, and 529,000 in perennial ryegrass. Moreover, we identified almost 25,000 interspecific SNPs located in 5343 genes that can dis-tinguish meadow fescue from Italian ryegrass and 15,000 SNPs located in 3976 genes that discriminate meadow fescue from both Lolium species. All identified SNPs were positioned in silico on the seven linkage groups (LGs) of L. perenne using the Geno-meZipper approach. With the identification and positioning of interspecific SNPs, our study provides a valuable resource for the grass research and breeding community and will enable detailed characterization of genomic composition and gene expression analysis in prospective Festuca x Lolium hybrids. ISSN:1940-3372 |
| وصف الملف: | application/application/pdf; application/pdf |
| اللغة: | English |
| تدمد: | 1940-3372 |
| الوصول الحر: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b856ca7851dd9a7d56199912264dc07aTest https://hdl.handle.net/20.500.11850/119874Test |
| حقوق: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....b856ca7851dd9a7d56199912264dc07a |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 19403372 |
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