Agritrop
Home

Low coverage sequencing for repetitive DNA analysis in Passiflora edulis Sims: Citogenomic characterization of transposable elements and satellite DNA

Carvalho Cayres Pamponét Vanessa, Magalhães Souza Margarete, Santos Silva Gonçalo, Micheli Fabienne, Ferreira de Melo Cláusio Antônio, Gomes de Oliveira Sarah, Almeida Costa Eduardo, Corrêa Ronan Xavier. 2019. Low coverage sequencing for repetitive DNA analysis in Passiflora edulis Sims: Citogenomic characterization of transposable elements and satellite DNA. BMC Genomics, 20:262, 17 p.

Journal article ; Article de recherche ; Article de revue à facteur d'impact Revue en libre accès total
[img]
Preview
Published version - Anglais
Use under authorization by the author or CIRAD.
2019 Pamponét et al. BMC Genomics.pdf

Télécharger (6MB) | Preview
[img]
Preview
Published version - Anglais
Use under authorization by the author or CIRAD.
Corrigendum.pdf

Télécharger (255kB) | Preview

Quartile : Q2, Sujet : BIOTECHNOLOGY & APPLIED MICROBIOLOGY / Quartile : Q2, Sujet : GENETICS & HEREDITY

Additional Information : Corrigendum paru dans BMC Genomics, (2019) 1 p. https://doi.org/10.1186/s12864-019-5678-1

Abstract : Background: The cytogenomic study of repetitive regions is fundamental for the understanding of morphofunctional mechanisms and genome evolution. Passiflora edulis a species of relevant agronomic value, this work had its genome sequenced by next generation sequencing and bioinformatics analysis performed by RepeatExplorer pipeline. The clusters allowed the identification and characterization of repetitive elements (predominant contributors to most plant genomes). The aim of this study was to identify, characterize and map the repetitive DNA of P. edulis, providing important cytogenomic markers, especially sequences associated with the centromere. Results: Three clusters of satellite DNAs (69, 118 and 207) and seven clusters of Long Terminal Repeat (LTR) retrotransposons of the superfamilies Ty1/Copy and Ty3/Gypsy and families Angela, Athila, Chromovirus and Maximus-Sire (6, 11, 36, 43, 86, 94 and 135) were characterized and analyzed. The chromosome mapping of satellite DNAs showed two hybridization sites co-located in the 5S rDNA region (PeSat_1), subterminal hybridizations (PeSat_3) and hybridization in four sites, co-located in the 45S rDNA region (PeSat_2). Most of the retroelements hybridizations showed signals scattered in the chromosomes, diverging in abundance, and only the cluster 6 presented pericentromeric regions marking. No satellite DNAs and retroelement associated with centromere was observed. Conclusion: P. edulis has a highly repetitive genome, with the predominance of Ty3/Gypsy LTR retrotransposon. The satellite DNAs and LTR retrotransposon characterized are promising markers for investigation of the evolutionary patterns and genetic distinction of species and hybrids of Passiflora.

Classification Agris : F50 - Plant structure
F30 - Plant genetics and breeding

Champ stratégique Cirad : CTS 1 (2019-) - Biodiversité

Auteurs et affiliations

  • Carvalho Cayres Pamponét Vanessa, UESC (BRA)
  • Magalhães Souza Margarete, UESC (BRA) - auteur correspondant
  • Santos Silva Gonçalo, UESC (BRA)
  • Micheli Fabienne, CIRAD-BIOS-UMR AGAP (BRA)
  • Ferreira de Melo Cláusio Antônio, UESC (BRA)
  • Gomes de Oliveira Sarah, Universidade de São Paulo (BRA)
  • Almeida Costa Eduardo, UESC (BRA)
  • Corrêa Ronan Xavier, UESC (BRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/592418/)

View Item (staff only) View Item (staff only)

[ Page générée et mise en cache le 2021-03-01 ]