Cytogenetic and Genome Research

Original Article

Isolation and characterization of the highly repeated fraction of the banana genome

Hřibová E.a · Doleželová M.a · Town C.D.b · Macas J.c · Doležel J.a, d

Author affiliations

aLaboratory of Molecular Cytogenetics and Cytometry, Institute of Experimental Botany, Olomouc (Czech Republic) bThe Institute for Genomic Research, A Division of the J. Craig Venter Institute, Rockville, MD (USA) cInstitute of Plant Molecular Biology, Biological Centre ASCR, České Budějovice, and dDepartment of Cell Biology and Genetics, Palacký University, Olomouc (Czech Republic)

Related Articles for ""
Cytogenet Genome Res 119:268–274 (2007)
https://doi.org/10.1159/000112073

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Article / Publication Details

First-Page Preview
Abstract of Original Article

Accepted: August 14, 2007
Published online: February 01, 2008
Issue release date: February 2008

Number of Print Pages: 7
Number of Figures: 4
Number of Tables: 3

ISSN: 1424-8581 (Print)
eISSN: 1424-859X (Online)

For additional information: https://www.karger.com/CGR

Abstract

Although the nuclear genome of banana (Musa spp.) is relatively small (1C ∼ 610 Mbp for M. acuminata), the results obtained from other sequenced genomes suggest that more than half of the banana genome may be composed of repetitive and non-coding DNA sequences. Knowledge of repetitive DNA can facilitate mapping of important traits, phylogenetic studies, BAC-based physical mapping, and genome sequencing/annotation. However, only a few repetitive DNA sequences have been characterized in banana. In this work, we used DNA reassociation kinetics to isolate the highly repeated fraction of the banana genome (M. acuminata ‘Calcutta 4’). Two libraries, one prepared from Cot ≤0.05 DNA (2,688 clones) and one from Cot ≤0.1 sequences (4,608 clones), were constructed, and 614 DNA clones were chosen randomly for sequencing and further characterization. Dot-plot analysis revealed that 14% of the sequenced clones contained various semi-tandem and palindromic repeated sequences. ‘BLAST’ homology searches showed that, in addition to tandem repeats, the Cot libraries were composed mainly of different types of retrotransposons, the most frequent being the Ty3/gypsy type monkey retrotransposon. Selected sequences displaying tandem organization properties were mapped by PRimed IN Situ DNA labeling (PRINS) to the secondary constriction on metaphase chromosomes of M. acuminata ‘Calcutta 4’. Southern hybridization with selected BAC clones carrying 45S rDNA confirmed the presence of the tandem repeats in the 45S rDNA unit. This work significantly expands the knowledge of the repetitive fraction of the Musa genome and organization of its chromosomes.

© 2008 S. Karger AG, Basel



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Article / Publication Details

First-Page Preview
Abstract of Original Article

Accepted: August 14, 2007
Published online: February 01, 2008
Issue release date: February 2008

Number of Print Pages: 7
Number of Figures: 4
Number of Tables: 3

ISSN: 1424-8581 (Print)
eISSN: 1424-859X (Online)

For additional information: https://www.karger.com/CGR

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2007, Vol.119, No. 3-4

February 2008

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Additional Information

This work was supported by Academy of Sciences of the Czech Republic (grant no. A600380703), Czech Science Foundation (204/04/1207), International Atomic Energy Agency (Research Contract no. 12230) and Generation Challenge Programme (LOA INIB 2006/15).
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