SS
Simone Scalabrin
Polymorphism, Single NucleotideGenetic VariationPopulus nigraBreedingChromosome MappingEvolution, MolecularGenomeGenome, PlantGenomicsOlea europaea
On Valency
published · living versionsW_26xzgw86·v1 · currentpublished
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
with Keith R. Bradnam, Joseph N. Fass, Anton Alexandrov, Paul Baranay +86
1 version
Preprints & journals
41 papers in the corpus · 2004–2024Resilience of genetic diversity in forest trees over the Quaternary.39402024 · Milesi, Pascal, Kastally, Chedly, Dauphin, Benjamin et al.2024 · 72 citationsNature communications. 2024;15(1):8538
Mozambican Coffea accessions from Ibo and Quirimba Islands: identification and geographical distribution.38384341 · Navarini, Luciano, Scaglione, Davide, Del Terra, Lorenzo et al.2024 · 4 citationsAoB PLANTS. 2024;16(2):plae004
A chromosome-scale assembly reveals chromosomal aberrations and exchanges generating genetic diversity in Coffea arabica germplasm.38263403 · Scalabrin, Simone, Magris, Gabriele, Liva, Mario et al.2024 · 56 citationsNature communications. 2024;15(1):463
Genotypic and tissue-specific variation of Populus nigra transcriptome profiles in response to drought.35701429 · Eckert, Christian, Wildhagen, Henning, Paulo, Maria João et al.2022 · 4 citationsScientific data. 2022;9(1):297
The functional capacity of plantaricin-producing Lactobacillus plantarum SF9C and S-layer-carrying Lactobacillus brevis SF9B to withstand gastrointestinal transit.32430020 · Butorac, Katarina, Banić, Martina, Novak, Jasna et al.2020 · 33 citationsMicrobial cell factories. 2020;19(1):106
A single polyploidization event at the origin of the tetraploid genome of Coffea arabica is responsible for the extremely low genetic variation in wild and cultivated germplasm.32170172 · Scalabrin, Simone, Toniutti, Lucile, Di Gaspero, Gabriele et al.2020 · 150 citationsScientific reports. 2020;10(1):4642
Genetic Mapping of the Incompatibility Locus in Olive and Development of a Linked Sequence-Tagged Site Marker.32117338 · Mariotti, Roberto, Fornasiero, Alice, Mousavi, Soraya et al.2020 · 26 citationsFrontiers in plant science. 2019;10:1760
Resistance to Sharka in Apricot: Comparison of Phase-Reconstructed Resistant and Susceptible Haplotypes of 'Lito' Chromosome 1 and Analysis of Candidate Genes.31867032 · De Mori, Gloria, Falchi, Rachele, Testolin, Raffaele et al.2020 · 375 citationsFrontiers in plant science. 2019;10:1576
Gene duplication and transposition of mobile elements drive evolution of the Rpv3 resistance locus in grapevine.31571285 · Foria, Serena, Copetti, Dario, Eisenmann, Birgit et al.2021 · 58 citationsThe Plant journal : for cell and molecular biology. 2020;101(3):529-542
Single primer enrichment technology as a tool for massive genotyping: a benchmark on black poplar and maize.30932149 · Scaglione, Davide, Pinosio, Sara, Marroni, Fabio et al.2020 · 71 citationsAnnals of botany. 2019;124(4):543-552
Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm.30971220 · Vendramin, Vera, Ormanbekova, Danara, Scalabrin, Simone et al.2019 · 22 citationsBMC genomics. 2019;20(1):278
Genes and gene clusters related to genotype and drought-induced variation in saccharification potential, lignin content and wood anatomical traits in Populus nigra.28541580 · Wildhagen, Henning, Paul, Shanty, Allwright, Mike et al.2018 · 48 citationsTree physiology. 2018;38(3):320-339
A new version of the grapevine reference genome assembly (12X.v2) and of its annotation (VCost.v3).28971018 · Canaguier, A, Grimplet, J, Di Gaspero, G et al.2022 · 323 citationsGenomics data. 2017;14:56-62
De novo assembly, functional annotation, and analysis of the giant reed (Arundo donax L.) leaf transcriptome provide tools for the development of a biofuel feedstock.28572841 · Evangelistella, Chiara, Valentini, Alessio, Ludovisi, Riccardo et al.2022 · 54 citationsBiotechnology for biofuels. 2017;10:138
The build-up of osmotic stress responses within the growing root apex using kinematics and RNA-sequencing.27702994 · Royer, Mathilde, Cohen, David, Aubry, Nathalie et al.2017 · 17 citationsJournal of experimental botany. 2016;67(21):5961-5973
Draft Genome Sequence of the Probiotic Yeast Kluyveromyces marxianus fragilis B0399.27587830 · Quarella, Sara, Lovrovich, Paola, Scalabrin, Simone et al.2016 · 24 citationsGenome announcements. 2016;4(5)
New resources for genetic studies in Populus nigra: genome-wide SNP discovery and development of a 12k Infinium array.26929265 · Faivre-Rampant, P, Zaina, G, Jorge, V et al.2017 · 65 citationsMolecular ecology resources. 2016;16(4):1023-36
Physical Mapping of Bread Wheat Chromosome 5A: An Integrated Approach.33228274 · Barabaschi, Delfina, Magni, Federica, Volante, Andrea et al.2020 · 101 citationsThe plant genome. 2015;8(3):eplantgenome2015.03.0011
Mining microsatellites in the peach genome: development of new long-core SSR markers for genetic analyses in five Prunus species.26185739 · Dettori, Maria Teresa, Micali, Sabrina, Giovinazzi, Jessica et al.2015 · 57 citationsSpringerPlus. 2015;4:337
A high-density, SNP-based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding.25424506 · Maccaferri, Marco, Ricci, Andrea, Salvi, Silvio et al.2016 · 297 citationsPlant biotechnology journal. 2015;13(5):648-63
LTR retrotransposon dynamics in the evolution of the olive (Olea europaea) genome.25428895 · Barghini, Elena, Natali, Lucia, Giordani, Tommaso et al.2015 · 44 citationsDNA research : an international journal for rapid publication of reports on genes and genomes. 2015;22(1):91-100
Endogenous florendoviruses are major components of plant genomes and hallmarks of virus evolution.25381880 · Geering, Andrew D W, Maumus, Florian, Copetti, Dario et al.2016 · 129 citationsNature communications. 2014;5:5269
Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication.24908277 · Wu, G Albert, Prochnik, Simon, Jenkins, Jerry et al.2014 · 698 citationsNature biotechnology. 2014;32(7):656-62
The peculiar landscape of repetitive sequences in the olive (Olea europaea L.) genome.24671744 · Barghini, Elena, Natali, Lucia, Cossu, Rosa Maria et al.2015 · 62 citationsGenome biology and evolution. 2014;6(4):776-91
A unique mutation in a MYB gene cosegregates with the nectarine phenotype in peach.24595269 · Vendramin, Elisa, Pea, Giorgio, Dondini, Luca et al.2014 · 113 citationsPloS one. 2014;9(3):e90574
An extensive evaluation of read trimming effects on Illumina NGS data analysis.24376861 · Del Fabbro, Cristian, Scalabrin, Simone, Morgante, Michele et al.2014 · 475 citationsPloS one. 2013;8(12):e85024
A physical map of the short arm of wheat chromosome 1A.24278269 · Breen, James, Wicker, Thomas, Shatalina, Margarita et al.2014 · 35 citationsPloS one. 2013;8(11):e80272
Three distinct mutational mechanisms acting on a single gene underpin the origin of yellow flesh in peach.23855972 · Falchi, Rachele, Vendramin, Elisa, Zanon, Laura et al.2014 · 177 citationsThe Plant journal : for cell and molecular biology. 2013;76(2):175-87
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species.23870653 · Bradnam, Keith R, Fass, Joseph N, Alexandrov, Anton et al.2014 · 671 citationsGigaScience. 2013;2(1):10
A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat.23800011 · Philippe, Romain, Paux, Etienne, Bertin, Isabelle et al.2015 · 50 citationsGenome biology. 2013;14(6):R64
The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution.23525075 · International Peach Genome Initiative, Verde, Ignazio, Abbott, Albert G et al.2013 · 1,157 citationsNature genetics. 2013;45(5):487-94
Historical introgression of the downy mildew resistance gene Rpv12 from the Asian species Vitis amurensis into grapevine varieties.23593440 · Venuti, Silvia, Copetti, Dario, Foria, Serena et al.2013 · 161 citationsPloS one. 2013;8(4):e61228
GAM-NGS: genomic assemblies merger for next generation sequencing.23815503 · Vicedomini, Riccardo, Vezzi, Francesco, Scalabrin, Simone et al.2013 · 98 citationsBMC bioinformatics. 2013;14 Suppl 7:S6
Development and evaluation of a 9K SNP array for peach by internationally coordinated SNP detection and validation in breeding germplasm.22536421 · Verde, Ignazio, Bassil, Nahla, Scalabrin, Simone et al.2012 · 239 citationsPloS one. 2012;7(4):e35668
A 3,000-loci transcription map of chromosome 3B unravels the structural and functional features of gene islands in hexaploid wheat.22034626 · Rustenholz, Camille, Choulet, Frédéric, Laugier, Christel et al.2014 · 51 citationsPlant physiology. 2011;157(4):1596-608
Physical mapping in highly heterozygous genomes: a physical contig map of the Pinot Noir grapevine cultivar.20346114 · Scalabrin, Simone, Troggio, Michela, Moroldo, Marco et al.2010 · 16 citationsBMC genomics. 2010;11:204
Automated FingerPrint Background removal: FPB.19405935 · Scalabrin, Simone, Morgante, Michele, Policriti, Alberto2009 · 11 citationsBMC bioinformatics. 2009;10:127
A physical map of the heterozygous grapevine 'Cabernet Sauvignon' allows mapping candidate genes for disease resistance.18554400 · Moroldo, Marco, Paillard, Sophie, Marconi, Raffaella et al.2008 · 73 citationsBMC plant biology. 2008;8:66
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.17721507 · Jaillon, Olivier, Aury, Jean-Marc, Noel, Benjamin et al.2007 · 3,771 citationsNature. 2007;449(7161):463-7
Wnt-mediated down-regulation of Sp1 target genes by a transcriptional repressor Sp5.17090534 · Fujimura, Naoko, Vacik, Tomas, Machon, Ondrej et al.2007 · 81 citationsThe Journal of biological chemistry. 2007;282(2):1225-37
Mapping and sequencing complex genomes: let's get physical!15266340 · Meyers, Blake C, Scalabrin, Simone, Morgante, Michele2004 · 84 citationsNature reviews. Genetics. 2004;5(8):578-88
Career total: at least 121 works. 41 are in this corpus.
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