Percorrer por autor "Aglagane, Abdessamad"
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- Contrasting whole-genome diversity patterns and adaptation in honeybees from two southern European glacial refugiaPublication . Yadró Garcia, Carlos A.; Henriques, Dora; Cilia, Giovanni; Rufino, José; Vella, Cristina; Aglagane, Abdessamad; Sagastume, Soledad; Zammit-Mangion, Marion; Martín-Hernández, Raquel; Nanetti, Antonio; Pinto, M. AliceHuman-driven environmental change makes understanding genetic variation essential for protecting keystone species such as the honeybee, Apis mellifera. We compared whole-genome mitonuclear variation in subspecies inhabiting the Iberian and Italian Peninsulas, which have been shaped by distinct glacial histories and modern beekeeping pressures. Italian honeybees showed a stronger anthropogenic imprint, driven largely by recent human-mediated gene flow. Both subspecies showed mitonuclear asymmetry, approximate south-to-northeast clinal pattern, evidence of ancient or recent admixture with other subspecies and lineages, and genomic signatures of a 20th-century bottleneck. African ancestry was present both, though ancient and predominantly mitochondrial in Iberia, but recent and predominantly nuclear Italy. Italian honeybees also had persistently lower historical effective population sizes, lower nucleotide versity, and higher kinship. Shared and subspecies-specific enriched genes suggest both convergent and unique adaptive responses. These results highlight complex evolutionary dynamics and the significant netic impact of modern beekeeping.
- Exploiting the mitogenomes of apis mellifera subspecies to develop an authentication tool to verify the entomological origin of mediterranean honeysPublication . Honrado, Mónica; Henriques, Dora; Santos, Joana; Yadró Garcia, Carlos A.; Martín-Hernández, Raquel; Nanetti, Antonio; González, Amelia Virginia; Al Shagour, Banan; Hosri, Chadi; Farrugia, Dylan; Giovanni, Cilia; Zammit Mangion, Marion; Muz, Mustafa Necati; Haddad, Nizar; Galea, Thomas; Haider, Yamina; Obeidat, Wisam; Aglagane, Abdessamad; Arab, Alireza; Varnava, Andri; Eissa, Asmaa Anwar; Muz, Dilek; Hatjina, Fani; Lamghari, Fouad; Arruda, James; Caristos Caristos, Leonidas; Pinto, M. Alice; Amaral, Joana S.Honey is highly susceptible to adulteration. Currently, the assessment of its geographical origin remains one of the most difficult tasks, which is typically performed by melyssopalynology. Recently, the attention has shifted towards indirect approaches such as the entomological origin based on geographical distribution patterns of honey bee subspecies. Although queens’ trade has impacted the natural subspecies distribution, honeys produced with autochthonous bees or bearing a Protected Designation of Origin specifying the producing honey bee subspecies, offer a unique avenue for authentication. In the MEDIBEES project, we aim to develop a DNA-metabarcoding approach to authenticate honey's entomological origin focusing on mitochondrial lineages A, M, C, and O. To achieve this goal, the DNA from 1251 honey bees representing 16 subspecies (A.m. sahariensis, A.m. intermissa, A.m. siciliana, A.m. ruttneri, A.m. iberiensis, A.m. ligustica, A.m. macedonica, A.m. adami, A.m. cecropia, A.m. cypria, A.m. caucasia, A.m. meda, A.m. anatoliaca, A.m. syriaca, A.m. jemenitica, A.m. lamarcki) was extracted and the whole genome sequenced. From those, 740 mitogenomes were assembled using the MitoZ software. The quality of the assembled mitogenome was assessed by aligning all the sequences using MEGA and 348 samples were deleted. Finally, a phylogenetic analysis was conducted to eliminate non-local subspecies, resulting in a total of 326 mitogenomes. This dataset was used for calculating the fixation index (FST) pairwise values, and a sliding window of 400bp was used to identify single nucleotide polymorphisms that effectively differentiate (FST>0.98) the four lineages, enabling the identification of promising regions for primer design. In this study, three regions were identified that discriminate the four maternal lineages while showing an appropriate length for metabarcoding, namely in the COI, ND1 gene, and CYTB genes.
- Insights into population structure and conservation status of north African honey beesPublication . Yadró Garcia, Carlos A.; Henriques, Dora; Haider, Yamina; Eissa, Asmaa Anwar; Aglagane, Abdessamad; Rufino, José; Nanetti, Antonio; Martín-Hernández, Raquel; Pinto, M. AliceThe population structure of North African A. mellifera subspecies has been overlooked. Here, WG generated from drones were analyzed to assess population structure and the conservation status of three A-lineage subspecies: A. m. lamarckii (Egypt, 68 samples), A. m. intermissa (Algeria, 69 samples), and A. m. sahariensis (Algeria, 68 samples; Morocco, 26 samples). Population structure was assessed by SNMF and PCA. For A. m. lamarckii, variable C-lineage introgression was detected (median q-valueC-lineage=0.068; IQR=0.074) and PCA showed a well-grouped cluster slightly shifted towards C-lineage. Moroccan samples showed a highly compact group close to, but distinct from, the Algerian samples, and without signals of C-lineage introgression. In Algeria, only 28 A. m. sahariensis samples showed high purity values for this subspecies, and the remaining 48 samples showed variable introgression from A. m. intermissa (q-valueintermissa=0.127; 0.021). A more concerning scenario was found for A. m. intermissa, in which only 17 samples were classified as pure A. m. intermissa, 21 samples showed variable A. m. sahariensis introgression (q-valuesahariensis=0.125; 0.016), and the remaining 32 samples showed to be pure A. m. sahariensis. In the PCA analysis, a large portion of Algerian samples formed a cluster containing individuals of both subspecies. The remaining Algerian samples formed five well-defined isolated clusters: three containing A. m. sahariensis samples and two containing A. m. intermissa samples. SNMF runs at K=7 for the Algerian samples also recovered the existence of these high-purity isolated clusters. While most A. m. intermissa samples were located in the northern part of Algeria, some were located farther south. For A. m. sahariensis, a large portion of the samples were located close to the Mediterranean coast. These results suggest that, in addition to the C-lineage introgression (especially in A. m. lamarckii), the geographical delimitation originally described by Ruttner does not exist anymore in North Africa.