Flow Sorting and Sequencing Meadow Fescue Chromosome 4F

Kopecký, David; Martis, M.; Čihalíková, Jarmila; Hřibová, Eva; Vrána, Jan; Bartoš, Jan; Kopecká, Jitka; Cattonaro, F.; Stočes, Štěpán; Novák, Petr; Neumann, Pavel; Macas, Jiří; Šimková, Hana; Studer, B.; Asp, T.; Baird, J. H.; Navrátil, Petr; Karafiátová, Miroslava; Kubaláková, Marie; Šafář, Jan; Mayer, K.; Doležel, Jaroslav

doi:https://dx.doi.org/10.1104/pp.113.224105

Počet záznamů: 1

Flow Sorting and Sequencing Meadow Fescue Chromosome 4F

1.

SYSNO ASEP	0422267
Druh ASEP	J - Článek v odborném periodiku
Zařazení RIV	J - Článek v odborném periodiku
Poddruh J	Článek ve WOS
Název	Flow Sorting and Sequencing Meadow Fescue Chromosome 4F
Tvůrce(i)	Kopecký, David (UEB-Q)_{RID, ORCID} Martis, M. (DE) Čihalíková, Jarmila (UEB-Q)_RID Hřibová, Eva (UEB-Q)_{RID, ORCID} Vrána, Jan (UEB-Q)_{RID, ORCID} Bartoš, Jan (UEB-Q)_{RID, ORCID} Kopecká, Jitka (UEB-Q) Cattonaro, F. (IT) Stočes, Štěpán (UEB-Q)_RID Novák, Petr (BC-A)_{RID, ORCID} Neumann, Pavel (BC-A)_{RID, ORCID} Macas, Jiří (BC-A)_{RID, ORCID, SAI} Šimková, Hana (UEB-Q)_{RID, ORCID} Studer, B. (DK) Asp, T. (DK) Baird, J. H. (US) Navrátil, Petr (UEB-Q) Karafiátová, Miroslava (UEB-Q)_{RID, ORCID} Kubaláková, Marie (UEB-Q)_RID Šafář, Jan (UEB-Q)_{RID, ORCID} Mayer, K. (DE) Doležel, Jaroslav (UEB-Q)_{RID, ORCID}
Zdroj.dok.	Plant Physiology. - : Oxford University Press - ISSN 0032-0889 Roč. 163, č. 3 (2013), s. 1323-1337
Poč.str.	15 s.
Jazyk dok.	eng - angličtina
Země vyd.	US - Spojené státy americké
Klíč. slova	SATELLITE DNA-SEQUENCES ; FESTUCA-PRATENSIS ; LOLIUM-MULTIFLORUM
Vědní obor RIV	EB - Genetika a molekulární biologie
CEP	GAP501/11/0504 GA ČR - Grantová agentura ČR
	OC10037 GA MŠMT - Ministerstvo školství, mládeže a tělovýchovy
Institucionální podpora	UEB-Q - RVO:61389030 ; BC-A - RVO:60077344
UT WOS	000326520900020
DOI	10.1104/pp.113.224105
Anotace	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 503 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.
Pracoviště	Ústav experimentální botaniky
Kontakt	David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469
Rok sběru	2014

Počet záznamů: 1