Both the origin of domesticated apple and the overall phylogeny of the genus Malus are still not completely resolved. Having this as a target, we built a 134,553-position-long alignment including two previously published chloroplast DNAs (cpDNAs) and 45 de novo sequenced, fully colinear chloroplast genomes from cultivated apple varieties and wild apple species. The data produced are free from compositional heterogeneity and from substitutional saturation, which can adversely affect phylogeny reconstruction. Phylogenetic analyses based on this alignment recovered a branch, having the maximum bootstrap support, subtending a large group of the cultivated apple sorts together with all analyzed European wild apple (Malus sylvestris) accessions. One apple cultivar was embedded in a monophylum comprising wild M. sieversii accessions and other Asian apple species. The data demonstrate that M. sylvestris has contributed chloroplast genome to a substantial fraction of domesticated apple varieties, supporting the conclusion that different wild species should have contributed the organelle and nuclear genomes to the domesticated apple

Nikiforova, S.; Cavalieri, D.; Velasco, R.; Goremykin, V. (2013). Phylogenetic analysis of 47 chloroplast genomes clarifies the contribution of wild species to the domesticated apple maternal line. MOLECULAR BIOLOGY AND EVOLUTION, 30 (8): 1751-1760. doi: 10.1093/molbev/mst092 handle: http://hdl.handle.net/10449/23203

Phylogenetic analysis of 47 chloroplast genomes clarifies the contribution of wild species to the domesticated apple maternal line

Nikiforova, Svetlana;Cavalieri, Duccio;Velasco, Riccardo;Goremykin, Vadim
2013-01-01

Abstract

Both the origin of domesticated apple and the overall phylogeny of the genus Malus are still not completely resolved. Having this as a target, we built a 134,553-position-long alignment including two previously published chloroplast DNAs (cpDNAs) and 45 de novo sequenced, fully colinear chloroplast genomes from cultivated apple varieties and wild apple species. The data produced are free from compositional heterogeneity and from substitutional saturation, which can adversely affect phylogeny reconstruction. Phylogenetic analyses based on this alignment recovered a branch, having the maximum bootstrap support, subtending a large group of the cultivated apple sorts together with all analyzed European wild apple (Malus sylvestris) accessions. One apple cultivar was embedded in a monophylum comprising wild M. sieversii accessions and other Asian apple species. The data demonstrate that M. sylvestris has contributed chloroplast genome to a substantial fraction of domesticated apple varieties, supporting the conclusion that different wild species should have contributed the organelle and nuclear genomes to the domesticated apple
Malus domestica
Chloroplast genome phylogeny
Base compositional heterogeneity
Hybridization
Settore BIO/19 - MICROBIOLOGIA GENERALE
2013
Nikiforova, S.; Cavalieri, D.; Velasco, R.; Goremykin, V. (2013). Phylogenetic analysis of 47 chloroplast genomes clarifies the contribution of wild species to the domesticated apple maternal line. MOLECULAR BIOLOGY AND EVOLUTION, 30 (8): 1751-1760. doi: 10.1093/molbev/mst092 handle: http://hdl.handle.net/10449/23203
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10449/23203
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