19ffdae6849c51eee5b820e578447319 pmc_26760988.pdf 2af8ce6653e638cfe92dc69007adb2d8d6ff5e9e pmc_26760988.pdf f7e0c82fc8e7a86e62f79cffc1daca37c81b81724a6b1cb1bc4e375e8c061f9e pmc_26760988.pdf Title: Genetic Diversity and Association of EST-SSR and SCoT Markers with Rust Traits in Orchardgrass (Dactylis glomerata L.) Subject: Orchardgrass (Dactylis glomerata L.), is a well-known perennial forage species; however, rust diseases have caused a noticeable reduction in the quality and production of orchardgrass. In this study, genetic diversity was assessed and the marker-trait associations for rust were examined using 18 EST-SSR and 21 SCoT markers in 75 orchardgrass accessions. A high level of genetic diversity was detected in orchardgrass with an average genetic diversity index of 0.369. For the EST-SSR and SCoT markers, 164 and 289 total bands were obtained, of which 148 (90.24%) and 272 (94.12%) were polymorphic, respectively. Results from an AMOVA analysis showed that more genetic variance existed within populations (87.57%) than among populations (12.43%). Using a parameter marker index, the efficiencies of the EST-SSR and SCoT markers were compared to show that SCoTs have higher marker efficiency (8.07) than EST-SSRs (4.82). The results of a UPGMA cluster analysis and a STRUCTURE analysis were both correlated with the geographic distribution of the orchardgrass accessions. Linkage disequilibrium analysis revealed an average r2 of 0.1627 across all band pairs, indicating a high extent of linkage disequilibrium in the material. An association analysis between the rust trait and 410 bands from the EST-SSR and SCoT markers using TASSEL software revealed 20 band panels were associated with the rust trait in both 2011 and 2012. The 20 bands obtained from association analysis could be used in breeding programs for lineage selection to prevent great losses of orchardgrass caused by rust, and provide valuable information for further association mapping using this collection of orchardgrass. Keywords: association analysis; EST-SSR; genetic diversity; orchardgrass; rust; SCoT Author: Haidong Yan, Yu Zhang, Bing Zeng, Guohua Yin, Xinquan Zhang, Yang Ji, Linkai Huang, Xiaomei Jiang, Xinchun Liu, Yan Peng, Xiao Ma and Yanhong Yan Creator: LaTeX with hyperref package Producer: pdfTeX-1.40.15 CreationDate: Fri Jan 8 09:50:47 2016 CET ModDate: Fri Jan 8 09:50:47 2016 CET Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 13 Encrypted: no Page size: 595.276 x 841.89 pts (A4) Page rot: 0 File size: 1110573 bytes Optimized: no PDF version: 1.5 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- TYWJFF+URWPalladioL-Ital Type 1 Custom yes yes no 97 0 XMHYUI+URWPalladioL-Bold Type 1 Custom yes yes no 98 0 NIOEVN+URWPalladioL-BoldItal Type 1 Custom yes yes no 99 0 JTFCXU+URWPalladioL-Roma Type 1 Custom yes yes no 100 0 PUSVWS+TimesNewRomanPS-BoldItalicMT Type 1C WinAnsi yes yes no 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0 MOAOYC+TeX-matha8 Type 1 Builtin yes yes no 327 0 OVNEXW+EURM10 Type 1 Builtin yes yes no 328 0 ATWGIK+TeX-matha10 Type 1 Builtin yes yes no 329 0 BYZUPX+TeX-mathx10 Type 1 Builtin yes yes no 344 0 WQXTIH+TeX-matha9 Type 1 Builtin yes yes no 406 0 Jhove (Rel. 1.22.1, 2019-04-17) Date: 2021-04-27 02:35:12 CEST RepresentationInformation: pmc_26760988.pdf ReportingModule: PDF-hul, Rel. 1.12.1 (2019-04-17) LastModified: 2018-12-31 03:36:34 CET Size: 1110573 Format: PDF Version: 1.5 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf PDFMetadata: Objects: 0 FreeObjects: 1 IncrementalUpdates: 0 DocumentCatalog: ViewerPreferences: HideToolbar: false HideMenubar: false HideWindowUI: false FitWindow: true CenterWindow: false DisplayDocTitle: false NonFullScreenPageMode: UseNone Direction: L2R ViewArea: CropBox ViewClip: CropBox PrintArea: CropBox PageClip: CropBox PageLayout: SinglePage PageMode: None Outlines: Item: Title: Introduction Item: Title: Results 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