Whole mitochondrial and chloroplast genome sequencing of Tunisian date palm cultivars: diversity and evolutionary relationships.

Autor: Hamza H; Arid and Oases Cropping Laboratory, Arid Regions Institute, Route du Djorf, Medenine, 4119, Tunisia. hamza.hammadi@ira.rnrt.tn., Villa S; Institute for Sustainable Plant Protection, National Research Council of Italy (CNR), via Madonna del Piano 10, Sesto Fiorentino, Florence, 50019, Italy., Torre S; Institute for Sustainable Plant Protection, National Research Council of Italy (CNR), via Madonna del Piano 10, Sesto Fiorentino, Florence, 50019, Italy., Marchesini A; Institute for Sustainable Plant Protection, National Research Council of Italy (CNR), via Madonna del Piano 10, Sesto Fiorentino, Florence, 50019, Italy.; Research Institute on Terrestrial Ecosystems (IRET), National Research Council of Italy (CNR), via Marconi 2, Porano, Terni, 05010, Italy.; NBFC, National Biodiversity Future Center, Piazza Marina 61, Palermo, 90133, Italy., Benabderrahim MA; Arid and Oases Cropping Laboratory, Arid Regions Institute, Route du Djorf, Medenine, 4119, Tunisia., Rejili M; Laboratory of Biodiversity and Valorization of Arid Areas Bioresources (BVBAA) - Faculty of Sciences of Gabes, University of Gabes, Erriadh, Gabes, 6072, Tunisia.; Department of Biology, College of Sciences, Al Imam Mohammad Ibn Saud Islamic University (IMSIU), Riyadh, 11623, Saudi Arabia., Sebastiani F; Institute for Sustainable Plant Protection, National Research Council of Italy (CNR), via Madonna del Piano 10, Sesto Fiorentino, Florence, 50019, Italy. federico.sebastiani@ipsp.cnr.it.
Jazyk: angličtina
Zdroj: BMC genomics [BMC Genomics] 2023 Dec 13; Vol. 24 (1), pp. 772. Date of Electronic Publication: 2023 Dec 13.
DOI: 10.1186/s12864-023-09872-7
Abstrakt: Background: Date palm (Phoenix dactylifera L.) is the most widespread crop in arid and semi-arid regions and has great traditional and socioeconomic importance, with its fruit well-known for its high nutritional and health value. However, the genetic variation of date palm cultivars is often neglected. The advent of high-throughput sequencing has made possible the resequencing of whole organelle (mitochondria and chloroplast) genomes to explore the genetic diversity and phylogenetic relationships of cultivated plants with unprecedented detail.
Results: Whole organelle genomes of 171 Tunisian accessions (135 females and 36 males) were sequenced. Targeted bioinformatics pipelines were used to identify date palm haplotypes and genome variants, aiming to provide variant annotation and investigate patterns of evolutionary relationship. Our results revealed the existence of unique haplotypes, identified by 45 chloroplastic and 156 mitochondrial SNPs. Estimation of the effect of these SNPs on genes functions was predicted in silico.
Conclusions: The results of this study have important implications, in the light of ongoing environmental changes, for the conservation and sustainable use of the genetic resources of date palm cultivars in Tunisia, where monoculture threatens biodiversity leading to genetic erosion. These data will be useful for breeding and genetic improvement programs of the date palm through selective cross-breeding.
(© 2023. The Author(s).)
Databáze: MEDLINE
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