About: Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	In this work, we report on the first thorough characterization of the repeat component of the banana (M. acuminata cv. 'Calcutta 4') genome. Analysis of almost 100 Mb of sequence data (0.15x genome coverage) permitted partial sequence reconstruction and characterization of repetitive DNA, making up about 30% of the genome. The results showed that the banana repeats are predominantly made of various types of Ty1/copia and Ty3/gypsy retroelements representing 16 and 7% of the genome respectively. On the other hand, DNA transposons were found to be rare. In addition to new families of transposable elements, two new satellite repeats were discovered and found useful as cytogenetic markers. To help in banana sequence annotation, a specific Musa repeat database was created, and its utility was demonstrated by analyzing the repeat composition of 62 genomic BAC clones. In this work, we report on the first thorough characterization of the repeat component of the banana (M. acuminata cv. 'Calcutta 4') genome. Analysis of almost 100 Mb of sequence data (0.15x genome coverage) permitted partial sequence reconstruction and characterization of repetitive DNA, making up about 30% of the genome. The results showed that the banana repeats are predominantly made of various types of Ty1/copia and Ty3/gypsy retroelements representing 16 and 7% of the genome respectively. On the other hand, DNA transposons were found to be rare. In addition to new families of transposable elements, two new satellite repeats were discovered and found useful as cytogenetic markers. To help in banana sequence annotation, a specific Musa repeat database was created, and its utility was demonstrated by analyzing the repeat composition of 62 genomic BAC clones. (en)
Title	Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing (en)
skos:prefLabel	Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing (en)
skos:notation	RIV/61389030:_____/10:00350031!RIV11-MSM-61389030
http://linked.open...avai/riv/aktivita	P Z
http://linked.open...avai/riv/aktivity	P(IAA600380703), P(KJB500380901), P(LC06004), Z(AV0Z50380511), Z(AV0Z50510513)
http://linked.open...iv/cisloPeriodika	204
http://linked.open...vai/riv/dodaniDat	2011
http://linked.open...aciTvurceVysledku	Hřibová, Eva Doležel, Jaroslav
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Ústav experimentální botaniky AV ČR, v. v. i.
http://linked.open...dnocenehoVysledku	284843
http://linked.open...ai/riv/idVysledku	RIV/61389030:_____/10:00350031
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	IN-SITU HYBRIDIZATION; RIBOSOMAL-RNA GENES; DNA-SEQUENCES (en)
http://linked.open.../riv/klicoveSlovo	IN-SITU HYBRIDIZATION RIBOSOMAL-RNA GENES DNA-SEQUENCES
http://linked.open...odStatuVydavatele	GB - Spojené království Velké Británie a Severního Irska
http://linked.open...ontrolniKodProRIV	[CC7EDD01DE72]
http://linked.open...i/riv/nazevZdroje	BMC Plant Biology
http://linked.open...in/vavai/riv/obor	EB
http://linked.open...ichTvurcuVysledku	2 (xsd:int)
http://linked.open...cetTvurcuVysledku	6 (xsd:int)
http://linked.open...vavai/riv/projekt	Comparative genome analysis in banana (Musa spp.) using 454 sequencing Integration of research activities to study the plant genome Molecular organization and evolution of the 45S rDNA locus in banana (Musa spp.)
http://linked.open...UplatneniVysledku	2010
http://linked.open...v/svazekPeriodika	10
http://linked.open...iv/tvurceVysledku	Doležel, Jaroslav Hřibová, Eva Macas, Jiří Neumann, Pavel Roux, N. Matsumoto, T.
http://linked.open...ain/vavai/riv/wos	000283249100001
http://linked.open...n/vavai/riv/zamer	Mechanismy regulace růstu a vývoje rostlin na úrovni buněk, orgánů a celých organismů: fyziologické, genetické a molekulárně biologické základy Výzkum struktury genetické informace rostlin a jejich patogenů na molekulární úrovni, indukce a analýza cílených změn genomu a plastomu a studium fotosyntetických procesů a projevů dědičnosti v interakci s prostředím a patogeny
issn	1471-2229
number of pages	10 (xsd:int)

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