In silico mining of microsatellites in coding sequences of the date palm (ARECACEAE) genome, characterization, and transferability

Frederique Aberlenc-Bertossi, Karina Castillo, Christine Tranchant-Dubreuil, Emira Cherif, Marco Ballardini, Sabira Abdoulkader, Muriel Gros-Balthazard, Nathalie Chabrillange, Sylvain Santoni, Antonio Mercuri, Jean Christophe Pintaud

Research output: Contribution to journalArticle

Abstract

Premise of the study: To complement existing sets of primarily dinucleotide microsatellite loci from noncoding sequences of date palm, we developed primers for tri-And hexanucleotide microsatellite loci identifi ed within genes. Due to their conserved genomic locations, the primers should be useful in other palm taxa, and their utility was tested in seven other Phoenix species and in Chamaerops , Livistona , and Hyphaene . Methods and Results: Tandem repeat motifs of 3-6 bp were searched using a simple sequence repeat (SSR)-pipeline package in coding portions of the date palm draft genome sequence. Fifteen loci produced highly consistent amplifi cation, intraspecifi c polymorphisms, and stepwise mutation patterns. Conclusions: These microsatellite loci showed suffi cient levels of variability and transferability to make them useful for population genetic, selection signature, and interspecifi c gene fl ow studies in Phoenix and other Coryphoideae genera.

Original languageEnglish (US)
Article number1300058
JournalApplications in Plant Sciences
Volume2
Issue number1
DOIs
StatePublished - Jan 1 2014

Fingerprint

Phoenix dactylifera
Phoenix (Arecaceae)
genome
microsatellite repeats
loci
gene
population genetics
Hyphaene
mutation
genomics
polymorphism
Livistona
cation
tandem repeat sequences
cations
complement
genes
genetic polymorphism
method

Keywords

  • Arecaceae
  • Coryphoideae
  • Microsatellite/SSR mining
  • Phoenix dactylifera
  • Transferability.

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Plant Science

Cite this

Aberlenc-Bertossi, F., Castillo, K., Tranchant-Dubreuil, C., Cherif, E., Ballardini, M., Abdoulkader, S., ... Pintaud, J. C. (2014). In silico mining of microsatellites in coding sequences of the date palm (ARECACEAE) genome, characterization, and transferability. Applications in Plant Sciences, 2(1), [1300058]. https://doi.org/10.3732/apps.1300058

In silico mining of microsatellites in coding sequences of the date palm (ARECACEAE) genome, characterization, and transferability. / Aberlenc-Bertossi, Frederique; Castillo, Karina; Tranchant-Dubreuil, Christine; Cherif, Emira; Ballardini, Marco; Abdoulkader, Sabira; Gros-Balthazard, Muriel; Chabrillange, Nathalie; Santoni, Sylvain; Mercuri, Antonio; Pintaud, Jean Christophe.

In: Applications in Plant Sciences, Vol. 2, No. 1, 1300058, 01.01.2014.

Research output: Contribution to journalArticle

Aberlenc-Bertossi, F, Castillo, K, Tranchant-Dubreuil, C, Cherif, E, Ballardini, M, Abdoulkader, S, Gros-Balthazard, M, Chabrillange, N, Santoni, S, Mercuri, A & Pintaud, JC 2014, 'In silico mining of microsatellites in coding sequences of the date palm (ARECACEAE) genome, characterization, and transferability', Applications in Plant Sciences, vol. 2, no. 1, 1300058. https://doi.org/10.3732/apps.1300058
Aberlenc-Bertossi, Frederique ; Castillo, Karina ; Tranchant-Dubreuil, Christine ; Cherif, Emira ; Ballardini, Marco ; Abdoulkader, Sabira ; Gros-Balthazard, Muriel ; Chabrillange, Nathalie ; Santoni, Sylvain ; Mercuri, Antonio ; Pintaud, Jean Christophe. / In silico mining of microsatellites in coding sequences of the date palm (ARECACEAE) genome, characterization, and transferability. In: Applications in Plant Sciences. 2014 ; Vol. 2, No. 1.
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