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

SYSNO ASEP	0350031
Document Type	J - Journal Article
R&D Document Type	Journal Article
Subsidiary J	Článek ve WOS
Title	Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing
Author(s)	Hřibová, Eva (UEB-Q)_{RID, ORCID} Neumann, Pavel (BC-A)_{RID, ORCID} Matsumoto, T. (JP) Roux, N. (FR) Macas, Jiří (BC-A)_{RID, ORCID, SAI} Doležel, Jaroslav (UEB-Q)_{RID, ORCID}
Source Title	BMC Plant Biology. - : BioMed Central - ISSN 1471-2229 Roč. 10, č. 204 (2010), s. 1-10
Number of pages	10 s.
Language	eng - English
Country	GB - United Kingdom
Keywords	IN-SITU HYBRIDIZATION ; RIBOSOMAL-RNA GENES ; DNA-SEQUENCES
Subject RIV	EB - Genetics ; Molecular Biology
R&D Projects	KJB500380901 GA AV ČR - Academy of Sciences of the Czech Republic (AV ČR)
	IAA600380703 GA AV ČR - Academy of Sciences of the Czech Republic (AV ČR)
	LC06004 GA MŠMT - Ministry of Education, Youth and Sports (MEYS)
CEZ	AV0Z50380511 - UEB-Q (2005-2011)
	AV0Z50510513 - UMBR-M, BC-A (2005-2011)
UT WOS	000283249100001
DOI	10.1186/1471-2229-10-204
Annotation	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.
Workplace	Institute of Experimental Botany
Contact	David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469
Year of Publishing	2011

Number of the records: 1