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Rosaceae genetics and genomics
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Overview
We are interested in different aspects of Rosaceae genome organization, variability and evolution that help to elucidate the genetics of important agricultural traits. The species studied include peach and strawberry as major crops and almond, apricot, Japanese plum, cherry, apple, pear, raspberry and blackberry as secondary related crops. Our aim is to apply this information to develop tools, as high quality markers for markers assisted selection (MAS) and genetic materials (including collections of introgression lines), to improve plant breeding efficiency in tight collaboration with breeding companies.
In fruit trees, we conduct linkage mapping and genome-wide association studies using existing genetic variability in wild or cultivated relatives and high density markers derived from next-generation sequencing (NGS) technologies, as well as comparative genome analysis between different rosaceous species. We are interested in understanding the genetics of fruit quality, resistance to biotic and abiotic stress and other agronomic traits, and developing strategies for fast and efficient introgression of valuable genes into high quality cultivars.
In berries, we are especially interested in understanding the genetics of fruit quality traits. In strawberry we focus on the comparison of the genomes of diploid (wild) and octoploid (cultivated) strawberries, to characterize QTLs associated with fruit flavor, including sugar, aromas and polyphenol content. We are also exploring the use of genomic selection strategies to improve the cultivated strawberry.
Selected Publications
Dujak C.; Coleto-Alcudia V.; Aranzana M.J.
Genomic analysis of fruit size and shape traits in apple: unveiling candidate genes through GWAS analysis
(2024) Horticulture Research, vol. 11 (2), Art. number uhad270 (DOI:10.1093/hr/uhad270)
Jurado-Rui F.; Rousseau D.; Botía J.A.; Aranzana M.J.
PERSEUS: an interactive and intuitive web-based tool for pedigree visualization
(2024) Bioinformatics, vol. 40 (2), Art. number btae060 (DOI:10.1093/bioinformatics/btae060)
Jurado-Rui F.; Rousseau D.; Botía J.A.; Aranzana M.J.
GenoDrawing: An Autoencoder Framework for Image Prediction from SNP Markers
(2023) Plant Phenomics, vol. 5 Art. number 0113 (DOI:10.34133/plantphenomics.0113)
Fiol A.; García-Gómez B.E.; Jurado-Ruiz F.; Alexiou K.; Howad W.; Aranzana M.J.
Characterization of Japanese Plum (Prunus salicina) PsMYB10 Alleles Reveals Structural Variation and Polymorphisms Correlating With Fruit Skin Color
(2022) Horticulture Research, vol. 9 Art. number uhac206 (DOI:10.1093/hr/uhac206)
Fiol A.; García-Gómez B.E.; Jurado-Ruiz F.; Alexiou K.; Howad W.; Aranzana M.J.
Characterization of Japanese Plum (Prunus salicina) PsMYB10 Alleles Reveals Structural Variation and Polymorphisms Correlating With Fruit Skin Color
(2021) Frontiers in Plant Science, vol. 12 Art. number 655267 (DOI:10.3389/fpls.2021.655267)
Aranzana M.J.; Decroocq V.; Dirlewanger E.; Eduardo I.; Gao Z.S.; Gasic K.; Iezzoni A.; Jung S.; Peace C.; Prieto H.; Tao R.; Verde I.; Abbott A.G.; Arús P.
Prunus genetics and applications after de novo genome sequencing: achievements and prospects
(2019) Horticulture Research, vol. 6 (1), Art. number 58 (DOI:10.1038/s41438-019-0140-8)
de los Cobos F.P.; García-Gómez B.E.; Orduña-Rubio L.; Batlle I.; Arús P.; Matus J.T.; Eduardo I.
Article Exploring large-scale gene coexpression networks in peach (Prunus persica L.): a new tool for predicting gene function
(2024) Horticulture Research, vol. 11 (2), Art. number uhad294 (DOI:10.1093/hr/uhad294)
de los Cobos F.P.; Coindre E.; Dlalah N.; Quilot-Turion B.; Batlle I.; Arús P.; Eduardo I.; Duval H.
Construction of a collection of introgression lines of "Texas" almond DNA fragments in the "Earlygold" peach genetic background
(2023) Horticulture Research, vol. 10 (10), Art. number uhad193 (DOI:10.1093/hr/uhad193)
Zaracho N.; Reig G.; Kalluri N.; Arús P.; Eduardo I.
Construction of a collection of introgression lines of "Texas" almond DNA fragments in the "Earlygold" peach genetic background
(2023) Plants, vol. 12 (2), Art. number 394 (DOI:10.3390/plants12020394)
Kalluri N.; Serra O.; Donoso J.M.; Picañol R.; Howad W.; Eduardo I.; Arús P.
Construction of a collection of introgression lines of "Texas" almond DNA fragments in the "Earlygold" peach genetic background
(2022) Horticulture Research, vol. 9 Art. number uhac070 (DOI:10.1093/hr/uhac070)
Pérez de los Cobos F.; Martínez-García P.J.; Romero A.; Miarnau X.; Eduardo I.; Howad W.; Mnejja M.; Dicenta F.; Socias i Company R.; Rubio-Cabetas M.J.; Gradziel T.M.; Wirthensohn M.; Duval H.; Holland D.; Arús P.; Vargas F.J.; Batlle I.
Pedigree analysis of 220 almond genotypes reveals two world mainstream breeding lines based on only three different cultivars
(2021) Horticulture Research, vol. 8 (1), Art. number 11 (DOI:10.1038/s41438-020-00444-4)
Eduardo I.; Alegre S.; Alexiou K.G.; Arús P.
Resynthesis: Marker-Based Partial Reconstruction of Elite Genotypes in Clonally-Reproducing Plant Species
(2020) Frontiers in Plant Science, vol. 11 Art. number 1205 (DOI:10.3389/fpls.2020.01205)
Alioto T.; Alexiou K.G.; Bardil A.; Barteri F.; Castanera R.; Cruz F.; Dhingra A.; Duval H.; Fernández i Martí Á.; Frias L.; Galán B.; García J.L.; Howad W.; Gómez-Garrido J.; Gut M.; Julca I.; Morata J.; Puigdomènech P.; Ribeca P.; Rubio Cabetas M.J.; Vlasova A.; Wirthensohn M.; Garcia-Mas J.; Gabaldón T.; Casacuberta J.M.; Arús P.
Transposons played a major role in the diversification between the closely related almond and peach genomes: results from the almond genome sequence
(2020) Plant Journal, vol. 101 (2), pp. 455 -472 (DOI:10.1111/tpj.14538)
Rey-Serra P.; Mnejja M.; Monfort A.
Inheritance of esters and other volatile compounds responsible for the fruity aroma in strawberry
(2022) Frontiers in Plant Science, vol. 13 Art. number 959155 (DOI:10.3389/fpls.2022.959155)
Zingaretti L.M.; Monfort A.; Pérez-Enciso M.
Automatic fruit morphology phenome and genetic analysis: An application in the octoploid strawberry
(2021) Plant Phenomics, vol. 2021 Art. number 981291 (DOI:10.34133/2021/9812910)
Rey-Serra P.; Mnejja M.; Monfort A.
Shape, firmness and fruit quality QTLs shared in two non-related strawberry populations
(2021) Plant Science, vol. 311 Art. number 111010 (DOI:10.1016/j.plantsci.2021.111010)