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| Web URL(s): | http://www.grasslandoregon.com/assets/molecular-breeding-of-forage-and-turf.pdf#page=87
Last checked: 09/02/2016
Requires: PDF Reader
Notes: Item is within a single large file |
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| Publication Type:
| Report |
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| Author(s): | Cogan, Noel O. I.;
Shinozuka, Hiroshi;
Sawbridge, Timothy I.;
Spangenberg, German C.;
Forster, John W. |
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| Author Affiliation: | Dairy Futures Co-operative Research Centre and Department of Primary Industries, Biosciences Research Division; Sawbridge, Spangenberg, and Forster: La Trobe University, Bundoora, Victoria, Australia |
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| Title: | Whole genome sequencing of perennial ryegrass (Lolium perenne L.) supports exome assembly for gene and SNP catalogue development |
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| Section: | Poster abstracts
Other records with the "Poster abstracts" Section
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| Meeting Info.: | Salt Lake City, Utah: June 4-7, 2012 |
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| Source: | Proceedings of the 7th International Symposium on the Molecular Breeding of Forage and Turf. 2012, p. 87. |
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| Publishing Information: | s.l.: s.n. |
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| # of Pages: | 1 |
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| Keywords: | TIC Keywords: Brachypodium distachyon; Genetic analysis; Lolium perenne; Sequence-related amplified polymorphism
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| Abstract/Contents: | "The current generation of DNA sequencing platforms enables significant resources and data to be generated rapidly at relatively low cost. Although determination of whole genome sequence for a complex plant genome is still a significant undertaking, generation and assembly of the exome (gene-encoding) component is possible with the use of more modest resources. A single plant genotype of perennial ryegrass has been sequenced to approximately 70 X coverage, with c. 2 billion sequencing reads of 100 bp paired-end sequence reads on the Illumina HiSeq2000 platform. The generated sequence data has been assembled using the SOAP de novo software package v 1.05. The sequence assembly has been empirically optimised through iterative assessment of performance based on a range of input kmer sizes, in terms of number of bases assembled, and the average length of assembled contigs and scaffolds. An optimal assembly has generated 1.9 million scaffolds covering c. 1.7 Gb, while all contigs and singletons cover c. 3.5 Gb. Comparison of the contigs and scaffolds to the coding sequences from Brachypodium distachyon L. has permitted identification of putative perennial ryegrass orthologues to c. 86% of all predicted genes and alternate transcripts from the model grass species. Development of this exome sequence library has enabled assembly and identification of a large collection of genic contigs, along with the corresponding regulatory elements. The collection is accessible to interrogation to characterise and document complete sets of gene families, along with provision of reference assemblies to identify sequence polymorphisms." |
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| Language: | English |
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| References: | 0 |
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| Note: | This item is an abstract only!
"ISBN: 978-1-4675-4762-8"
"MBFT2012" |
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| ASA/CSSA/SSSA Citation (Crop Science-Like - may be incomplete):
Cogan, N. O. I., H. Shinozuka, T. I. Sawbridge, G. C. Spangenberg, and J. W. Forster. 2012. Whole genome sequencing of perennial ryegrass (Lolium perenne L.) supports exome assembly for gene and SNP catalogue development. Proceedings of the 7th International Symposium on the Molecular Breeding of Forage and Turf. p. 87. |
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| Web URL(s):
http://www.grasslandoregon.com/assets/molecular-breeding-of-forage-and-turf.pdf#page=87
Last checked: 09/02/2016
Requires: PDF Reader
Notes: Item is within a single large file |
| Find from within TIC:
Digitally in TIC by file name: mbfat2012 |
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