ArticleAnnals of botany2013
The repetitive component of the A genome of peanut (Arachis hypogaea) and its role in remodelling intergenic sequence space since its evolutionary divergence from the B genome.
Article in Annals of botany, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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23 citing papers in PubMed, 76 citations in OpenAlex.
- Review
- Surprisingly frequent chromosomal instability in cultivated peanut.The Plant journal : for cell and molecular biology · 2025Article
- Polyploidy: its consequences and enabling role in plant diversification and evolution.Annals of botany · 2023Article
- Plant Cytogenetics: From Chromosomes to Cytogenomics.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Comparative repeatome analysis reveals new evidence on genome evolution in wild diploid Arachis (Fabaceae) species.Planta · 2022Article
- Chromosome identification in oil palm (Elaeis guineensis) using in situ hybridization with massive pools of single copy oligonucleotides and transferability across Arecaceae species.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2021Article
- Physical mapping of repetitive oligonucleotides facilitates the establishment of a genome map-based karyotype to identify chromosomal variations in peanut.BMC plant biology · 2021Article
- Integrated small RNA and mRNA expression profiles reveal miRNAs and their target genes in response to Aspergillus flavus growth in peanut seeds.BMC plant biology · 2020Article
- Identification of Chromosomes and Chromosome Rearrangements in Crop Brassicas andFrontiers in plant science · 2020Article
- Brazilian Kayabi Indian accessions of peanut, Arachis hypogaea (Fabales, Fabaceae): origin, diversity and evolution.Genetics and molecular biology · 2020Article
- Heterochromatin evolution in Arachis investigated through genome-wide analysis of repetitive DNA.Planta · 2019Article
- The genome sequence of segmental allotetraploid peanut Arachis hypogaea.Nature genetics · 2019Article
- The genome structure ofComparative cytogenetics · 2018Article
- Evolutionary dynamics of an at-rich satellite DNA and its contribution to karyotype differentiation in wild diploid Arachis species.Molecular genetics and genomics : MGG · 2017Article
- The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut.Nature genetics · 2016Article
- Karyotype characterization and evolution in South American species of Lathyrus (Notolathyrus, Leguminosae) evidenced by heterochromatin and rDNA mapping.Journal of plant research · 2015Article
- Chromosomal distribution and evolution of abundant retrotransposons in plants: gypsy elements in diploid and polyploid Brachiaria forage grasses.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2015Article
- SWEEP: A Tool for Filtering High-Quality SNPs in Polyploid Crops.G3 (Bethesda, Md.) · 2015Article
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Authors and funding
13 authors at 5 institutions in 4 countries.
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No grant is acknowledged in the PubMed record.
Abstract
BACKGROUND AND
aimsPeanut (Arachis hypogaea) is an allotetraploid (AABB-type genome) of recent origin, with a genome of about 2·8 Gb and a high repetitive content. This study reports an analysis of the repetitive component of the peanut A genome using bacterial artificial chromosome (BAC) clones from A. duranensis, the most probable A genome donor, and the probable consequences of the activity of these elements since the divergence of the peanut A and B genomes.
methodsThe repetitive content of the A genome was analysed by using A. duranensis BAC clones as probes for fluorescence in situ hybridization (BAC-FISH), and by sequencing and characterization of 12 genomic regions. For the analysis of the evolutionary dynamics, two A genome regions are compared with their B genome homeologues. KEY
resultsBAC-FISH using 27 A. duranensis BAC clones as probes gave dispersed and repetitive DNA characteristic signals, predominantly in interstitial regions of the peanut A chromosomes. The sequences of 14 BAC clones showed complete and truncated copies of ten abundant long terminal repeat (LTR) retrotransposons, characterized here. Almost all dateable transposition events occurred <3·5 million years ago, the estimated date of the divergence of A and B genomes. The most abundant retrotransposon is Feral, apparently parasitic on the retrotransposon FIDEL, followed by Pipa, also non-autonomous and probably parasitic on a retrotransposon we named Pipoka. The comparison of the A and B genome homeologous regions showed conserved segments of high sequence identity, punctuated by predominantly indel regions without significant similarity.
conclusionsA substantial proportion of the highly repetitive component of the peanut A genome appears to be accounted for by relatively few LTR retrotransposons and their truncated copies or solo LTRs. The most abundant of the retrotransposons are non-autonomous. The activity of these retrotransposons has been a very significant driver of genome evolution since the evolutionary divergence of the A and B genomes.
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