ArticlePloS one2014
Genome-wide analysis of repeat diversity across the family Musaceae.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed.
- Patterns of base chromosome numbers, genome size and rDNA loci evolution in the genusFrontiers in plant science · 2026Article
- First insight into the genomes of the Pulmonaria officinalis group (Boraginaceae) provided by repeatome analysis and comparative karyotyping.BMC plant biology · 2024Article
- Article
- Ancient hybridization and repetitive element proliferation in the evolutionary history of the monocot genusFrontiers in plant science · 2024Article
- Discovering the Repeatome of Five Species Belonging to the Asteraceae Family: A Computational Study.Plants (Basel, Switzerland) · 2023Article
- Genome assembly of Musa beccarii shows extensive chromosomal rearrangements and genome expansion during evolution of Musaceae genomes.GigaScience · 2022Article
- Identification of 45S rDNA in Passiflora using low coverage sequencing: analysis of GC content and chromosomal localization.Molecular biology reports · 2022Article
- Advances in the Molecular Cytogenetics of Bananas, Family Musaceae.Plants (Basel, Switzerland) · 2022Review
- The Singular Evolution ofFrontiers in plant science · 2022Article
- Comparative Analysis the Complete Chloroplast Genomes of NineFrontiers in plant science · 2022Article
- Chromosome and Genome Diversity in the GenusPlants (Basel, Switzerland) · 2021Review
- Sequencing and de Novo Assembly of Abaca (Genes · 2021Article
- Phytochemical Composition, Antioxidant Activity, and Enzyme Inhibitory Activities (α-Glucosidase, Xanthine Oxidase, and Acetylcholinesterase) ofMolecules (Basel, Switzerland) · 2021Article
- Comparative analyses of DNA repeats and identification of a novel Fesreba centromeric element in fescues and ryegrasses.BMC plant biology · 2020Article
- Genome size variation at constant chromosome number is not correlated with repetitive DNA dynamism in Anacyclus (Asteraceae).Annals of botany · 2020Article
- Differential Genome Size and Repetitive DNA Evolution in Diploid Species ofFrontiers in plant science · 2020Article
- Genome-Wide Analysis of Transposable Elements and Satellite DNAs inFrontiers in plant science · 2020Article
- Low coverage sequencing for repetitive DNA analysis in Passiflora edulis Sims: citogenomic characterization of transposable elements and satellite DNA.BMC genomics · 2019Article
- Characterization of repeated DNA sequences in genomes of blue-flowered flax.BMC evolutionary biology · 2019Article
- Comparative analysis of repetitive sequences among species from the potato and the tomato clades.Annals of botany · 2019Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe banana family (Musaceae) includes genetically a diverse group of species and their diploid and polyploid hybrids that are widely cultivated in the tropics. In spite of their socio-economic importance, the knowledge of Musaceae genomes is basically limited to draft genome assemblies of two species, Musa acuminata and M. balbisiana. Here we aimed to complement this information by analyzing repetitive genome fractions of six species selected to represent various phylogenetic groups within the family.
resultsLow-pass sequencing of M. acuminata, M. ornata, M. textilis, M. beccarii, M. balbisiana, and Ensete gilletii genomes was performed using a 454/Roche platform. Sequence reads were subjected to analysis of their overall intra- and inter-specific similarities and, all major repeat families were quantified using graph-based clustering. Maximus/SIRE and Angela lineages of Ty1/copia long terminal repeat (LTR) retrotransposons and the chromovirus lineage of Ty3/gypsy elements were found to make up most of highly repetitive DNA in all species (14-34.5% of the genome). However, there were quantitative differences and sequence variations detected for classified repeat families as well as for the bulk of total repetitive DNA. These differences were most pronounced between species from different taxonomic sections of the Musaceae family, whereas pairs of closely related species (M. acuminata/M. ornata and M. beccarii/M. textilis) shared similar populations of repetitive elements.
conclusionsThis study provided the first insight into the composition and sequence variation of repetitive parts of Musaceae genomes. It allowed identification of repetitive sequences specific for a single species or a group of species that can be utilized as molecular markers in breeding programs and generated computational resources that will be instrumental in repeat masking and annotation in future genome assembly projects.
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