Full TGIF Record # 249022
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DOI:10.1104/pp.113.224105
Web URL(s):http://www.plantphysiol.org/content/163/3/1323.full
    Last checked: 01/29/2016
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http://www.plantphysiol.org/content/163/3/1323.full.pdf
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Publication Type:
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Refereed
Author(s):Kopecký, David; Martis, Mihaela; Číhalíková, Jarmila; Hřibová, Eva; Vrána, Jan; Bartoš, Jan; Kopecká, Jitka; Cattonaro, Federica; Stočes, Štěpán; Novák, Petr; Neumann, Pavel; Macas, Jiří; Šimková, Hana; Studer, Bruno; Asp, Torben; Baird, James H.; Navrátil, Petr; Karafiátová, Miroslava; Kubaláková, Marie; Šafář, Jan; Mayer, Klaus; Doležel, Jaroslav
Author Affiliation:Kopeckÿ, Číhalíková, Hřibová, Vrána, Bartoš, Kopecká, Stočes, Šimková, Navrátil, Karafiátová, Kubaláková, Šafář, and Doložel: Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc; Novák, Neumann, and Macas: Biology Centre Academy of Sciences of the Czech Republic, Institute of Plant Molecular Biology, Ceske Budejovice, Czech Republic; Martis and Mayer: Munich Information Center for Protein Sequences/Institute of Bioinformatics and Systems Biology, Helmholtz Center Munich, Neuherberg, Germany; Cattonaro: Istituto di Genomica Applicata and Istituto di Genomica Applicata Technology Services, Udine, Italy; Studer: Institute for Agricultural Sciences, Zurich, Switzerland; Asp: Department of Molecular Biology and Genetics, Research Center Flakkebjerg Aarhus University, Slagelse, Denmark; Baird: Department of Botany and Plant Sciences, University of California, Riverside, California
Title:Flow sorting and sequencing meadow fescue chromosome 4F1
Section:Genes, development, and evolution
Other records with the "Genes, development, and evolution" Section
Source:Plant Physiology. Vol. 163, No. 3, November 2013, p. 1323-1337.
Publishing Information:Rockville, MD: American Society of Plant Biologists
# of Pages:15
Related Web URL:http://www.plantphysiol.org/content/163/3/1323.abstract
    Last checked: 01/29/2016
    Notes: Abstract only
http://www.plantphysiol.org/content/163/3/1323/suppl/DC1
    Last checked: 01/29/2016
    Access conditions: Item is within a limited-access website
    Notes: Guide page to supplemental material
http://www.plantphysiol.org/powerpoint/163/3/1323
    Last checked: 01/29/2016
    Requires: Microsoft Powerpoint
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    Notes: Figures only
Keywords:TIC Keywords: Brachypodium distachyon; Breeding improvement; Festuca pratensis; Gene mapping; Genomes; Hordeum vulgare; Sorghum bicolor
Abstract/Contents:"The analysis of large genomes is hampered by a high proportion of repetitive DNA, which makes the assembly of short sequence reads difficult. This is also the case in meadow fescue (Festuca pratensis), which is known for good abiotic stress resistance and has been used in intergeneric hybridization with ryegrasses (Lolium spp.) to produce Festulolium cultivars. In this work, we describe a new approach to analyze the large genome of meadow fescue, which involves the reduction of sample complexity without compromising information content. This is achieved by dissecting the genome to smaller parts: individual chromosomes and groups of chromosomes. As the first step, we flow sorted chromosome 4F and sequenced it by Illumina with approximately 50× coverage. This provided, to our knowledge, the first insight into the composition of the fescue genome, enabled the construction of the virtual gene order of the chromosome, and facilitated detailed comparative analysis with the sequenced genomes of rice (Oryza sativa), Brachypodium distachyon, sorghum (Sorghum bicolor), and barley (Hordeum vulgare). Using GenomeZipper, we were able to confirm the collinearity of chromosome 4F with barley chromosome 4H and the long arm of chromosome 5H. Several new tandem repeats were identified and physically mapped using fluorescence in situ hybridization. They were found as robust cytogenetic markers for karyotyping of meadow fescue and ryegrass species and their hybrids. The ability to purify chromosome 4F opens the way for more efficient analysis of genomic loci on this chromosome underlying important traits, including freezing tolerance. Our results confirm that next-generation sequencing of flow-sorted chromosomes enables an overview of chromosome structure and evolution at a resolution never achieved before."
Language:English
References:63
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ASA/CSSA/SSSA Citation (Crop Science-Like - may be incomplete):
Kopecký, D., M. Martis, J. Číhalíková, E. Hřibová, J. Vrána, J. Bartoš, et al. 2013. Flow sorting and sequencing meadow fescue chromosome 4F1. Plant Physiol. 163(3):p. 1323-1337.
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DOI: 10.1104/pp.113.224105
Web URL(s):
http://www.plantphysiol.org/content/163/3/1323.full
    Last checked: 01/29/2016
    Access conditions: Item is within a limited-access website
http://www.plantphysiol.org/content/163/3/1323.full.pdf
    Last checked: 01/29/2016
    Requires: PDF Reader
    Access conditions: Item is within a limited-access website
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