Michele Morgante

Summary

Affiliation: University of Udine
Country: Italy

Publications

  1. ncbi request reprint Transposable elements and the plant pan-genomes
    Michele Morgante
    Dipartimento di Scienze Agrarie ed Ambientali, Universita di Udine, Via delle Scienze 208, I 33100 Udine, Italy
    Curr Opin Plant Biol 10:149-55. 2007
  2. doi request reprint Resistance to Plasmopara viticola in grapevine 'Bianca' is controlled by a major dominant gene causing localised necrosis at the infection site
    Diana Bellin
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100, Udine, Italy
    Theor Appl Genet 120:163-76. 2009
  3. pmc Phenotypic plasticity, QTL mapping and genomic characterization of bud set in black poplar
    Francesco Fabbrini
    Department for Innovation in Biological, Agro food and Forest systems, University of Tuscia, Via S, Camillo de Lellis, Viterbo 01100, Italy
    BMC Plant Biol 12:47. 2012
  4. pmc Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies
    Sook Jung
    Department of Horticulture and Landscape Architecture, Washington State University, Pullman, WA 99164, USA
    BMC Genomics 13:129. 2012
  5. pmc Annotating genomes with massive-scale RNA sequencing
    France Denoeud
    CEA, DSV, Institut de Génomique, Genoscope, 2 rue Gaston Cremieux, CP5706, 91057 Evry, France
    Genome Biol 9:R175. 2008
  6. pmc A physical map of the heterozygous grapevine 'Cabernet Sauvignon' allows mapping candidate genes for disease resistance
    Marco Moroldo
    UMR de Génomique Végétale, INRA CNRS UEVE, 2, rue Gaston Crémieux, CP5708, 91057 Evry Cedex, France
    BMC Plant Biol 8:66. 2008
  7. pmc Global expression analysis of nucleotide binding site-leucine rich repeat-encoding and related genes in Arabidopsis
    Xiaoping Tan
    The Genome Center, University of California, Davis, California 95616, USA
    BMC Plant Biol 7:56. 2007
  8. pmc Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
    Erica Mica
    Dipartimento di Scienze Biomolecolari e Biotecnologie, Universita degli Studi di Milano, Milano, Italy
    BMC Genomics 11:109. 2010
  9. pmc High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
    Erica Mica
    Dipartimento di Scienze Biomolecolari e Biotecnologie, Universita degli Studi di Milano, Milano, Italy
    BMC Genomics 10:558. 2009
  10. ncbi request reprint Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize
    Michele Morgante
    Dipartimento di Scienze Agrarie ed Ambientali, Universita di Udine, Via delle Scienze 208, 33100 Udine, Italy
    Nat Genet 37:997-1002. 2005

Collaborators

Detail Information

Publications40

  1. ncbi request reprint Transposable elements and the plant pan-genomes
    Michele Morgante
    Dipartimento di Scienze Agrarie ed Ambientali, Universita di Udine, Via delle Scienze 208, I 33100 Udine, Italy
    Curr Opin Plant Biol 10:149-55. 2007
    ....
  2. doi request reprint Resistance to Plasmopara viticola in grapevine 'Bianca' is controlled by a major dominant gene causing localised necrosis at the infection site
    Diana Bellin
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100, Udine, Italy
    Theor Appl Genet 120:163-76. 2009
    ....
  3. pmc Phenotypic plasticity, QTL mapping and genomic characterization of bud set in black poplar
    Francesco Fabbrini
    Department for Innovation in Biological, Agro food and Forest systems, University of Tuscia, Via S, Camillo de Lellis, Viterbo 01100, Italy
    BMC Plant Biol 12:47. 2012
    ..nigra with 162 clonally replicated progeny was used to assess the phenotypic plasticity and genetic variation of bud set in two sites of contrasting environmental conditions...
  4. pmc Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies
    Sook Jung
    Department of Horticulture and Landscape Architecture, Washington State University, Pullman, WA 99164, USA
    BMC Genomics 13:129. 2012
    ..Recently the whole genome of three crop species, peach, apple and strawberry, which belong to different genera of the Rosaceae family, have been sequenced, allowing in-depth comparison of these genomes...
  5. pmc Annotating genomes with massive-scale RNA sequencing
    France Denoeud
    CEA, DSV, Institut de Génomique, Genoscope, 2 rue Gaston Cremieux, CP5706, 91057 Evry, France
    Genome Biol 9:R175. 2008
    ..We present G-Mo.R-Se (Gene Modelling using RNA-Seq), an approach aimed at building gene models directly from RNA-Seq and demonstrate its utility on the grapevine genome...
  6. pmc A physical map of the heterozygous grapevine 'Cabernet Sauvignon' allows mapping candidate genes for disease resistance
    Marco Moroldo
    UMR de Génomique Végétale, INRA CNRS UEVE, 2, rue Gaston Crémieux, CP5708, 91057 Evry Cedex, France
    BMC Plant Biol 8:66. 2008
    ..Its usefulness for the genome-wide mapping of genes for disease resistance, which is an important trait for grapevine, was then assessed...
  7. pmc Global expression analysis of nucleotide binding site-leucine rich repeat-encoding and related genes in Arabidopsis
    Xiaoping Tan
    The Genome Center, University of California, Davis, California 95616, USA
    BMC Plant Biol 7:56. 2007
    ..8% of all ORFs so far annotated in Arabidopsis ecotype Col-0. Despite their prevalence in the genome and functional importance, there was little information regarding expression of these genes...
  8. pmc Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
    Erica Mica
    Dipartimento di Scienze Biomolecolari e Biotecnologie, Universita degli Studi di Milano, Milano, Italy
    BMC Genomics 11:109. 2010
    ..The editors and authors regret the inconvenience caused to readers by premature publication of the original paper...
  9. pmc High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
    Erica Mica
    Dipartimento di Scienze Biomolecolari e Biotecnologie, Universita degli Studi di Milano, Milano, Italy
    BMC Genomics 10:558. 2009
    ..The recent annotation of the genome of the grapevine (Vitis vinifera L.) allowed the identification of many putative conserved microRNA precursors, grouped into multiple gene families...
  10. ncbi request reprint Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize
    Michele Morgante
    Dipartimento di Scienze Agrarie ed Ambientali, Universita di Udine, Via delle Scienze 208, 33100 Udine, Italy
    Nat Genet 37:997-1002. 2005
    ..The maize genome is in constant flux, as transposable elements continue to change both the genic and nongenic fractions of the genome, profoundly affecting genetic diversity...
  11. ncbi request reprint Plant genome organisation and diversity: the year of the junk!
    Michele Morgante
    Dipartimento di Scienze Agrarie ed Ambientali, Universita di Udine, Via delle Scienze 208, I 33100 Udine, Italy
    Curr Opin Biotechnol 17:168-73. 2006
    ..Future analyses of the functional roles of intergenic sequence variation will tell us if we will need to pay more attention not only to genes, but also to the 'junk' DNA surrounding them...
  12. doi request reprint Selective sweep at the Rpv3 locus during grapevine breeding for downy mildew resistance
    Gabriele Di Gaspero
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100, Udine, Italy
    Theor Appl Genet 124:277-86. 2012
    ..The coexistence of multiple resistance alleles or paralogues in the same chromosomal region but in different haplotypes counteracts efforts to pyramidise them in a diploid individual via conventional breeding...
  13. pmc Expansion and subfunctionalisation of flavonoid 3',5'-hydroxylases in the grapevine lineage
    Luigi Falginella
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100 Udine, Italy
    BMC Genomics 11:562. 2010
    ..In most plants, F3'5'H genes are present in low-copy number, but in grapevine they are highly redundant...
  14. pmc The powdery mildew resistance gene REN1 co-segregates with an NBS-LRR gene cluster in two Central Asian grapevines
    Courtney Coleman
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100 Udine, Italy
    BMC Genet 10:89. 2009
    ..Eurasian Vitis vinifera varieties were all believed to be susceptible. REN1 is the first resistance gene naturally found in cultivated plants of Vitis vinifera...
  15. ncbi request reprint Large-scale detection of rare variants via pooled multiplexed next-generation sequencing: towards next-generation Ecotilling
    Fabio Marroni
    Istituto di Genomica Applicata, 33100 Udine, Italy
    Plant J 67:736-45. 2011
    ..This proposed method for identification of rare polymorphisms allows accurate detection of variation in many individuals, and is cost-effective compared to individual sequencing...
  16. doi request reprint The SSR-based molecular profile of 1005 grapevine (Vitis vinifera L.) accessions uncovers new synonymy and parentages, and reveals a large admixture amongst varieties of different geographic origin
    Guido Cipriani
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100, Udine, Italy
    Theor Appl Genet 121:1569-85. 2010
    ..45 × 10(-27) and 9.35 × 10(-12) for unrelated and full sib individuals, respectively. A database of allele frequencies and SSR profiles of 32 reference cultivars are provided...
  17. pmc A set of microsatellite markers with long core repeat optimized for grape (Vitis spp.) genotyping
    Guido Cipriani
    Dipartimento di Scienze Agrarie e Ambientali, University of Udine, Via delle Scienze 208, 33100 Udine, Italy
    BMC Plant Biol 8:127. 2008
    ....
  18. ncbi request reprint From plant genomics to breeding practice
    Michele Morgante
    Dipartimento di Produzione Vegetale e Tecnologie Agrarie, Universita di Udine, Via delle Scienze 208, 33100, Udine, Italy
    Curr Opin Biotechnol 14:214-9. 2003
    ..Despite this progress, the role of marker-assisted selection in plant breeding will ultimately depend on the genetic model underlying quantitative variation...
  19. pmc Physical mapping in highly heterozygous genomes: a physical contig map of the Pinot Noir grapevine cultivar
    Simone Scalabrin
    Istituto di Genomica Applicata, Parco Scientifico e Tecnologico di Udine Luigi Danieli, Via J Linussio 51, 33100 Udine, Italy
    BMC Genomics 11:204. 2010
    ..A physical map is essential to positionally clone such genes and instrumental in a genome sequencing project...
  20. ncbi request reprint Structural variation and genome complexity: is dispensable really dispensable?
    Fabio Marroni
    Dipartimento di Scienze Agrarie e Ambientali, Universita di Udine, 33100 Udine, Italy Istituto di Genomica Applicata IGA, 33100 Udine, Italy
    Curr Opin Plant Biol 18:31-6. 2014
    ..In conclusion the dispensable genome plays an important role in genome evolution and in the complex interplay between the genome and the environment. ..
  21. pmc Automated FingerPrint Background removal: FPB
    Simone Scalabrin
    Istituto di Genomica Applicata IGA, via J, Linussio 51, I 33100 Udine, Italy
    BMC Bioinformatics 10:127. 2009
    ..That is why background peaks removal has become an important issue and needs to be automatized, especially in capillary electrophoresis based fingerprints...
  22. ncbi request reprint Structured motifs search
    Michele Morgante
    Department of Crop Sciences and Agricultural Engineering, via delle Scienze 206, 33100 Udine, Italy
    J Comput Biol 12:1065-82. 2005
    ..Moreover, the time and space necessary to build the graph are linear in the number of occurrences of the component patterns...
  23. ncbi request reprint The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
    Olivier Jaillon
    Genoscope CEA and UMR 8030 CNRS Genoscope Université d Evry, 2 rue Gaston Cremieux, BP5706, 91057 Evry, France
    Nature 449:463-7. 2007
    ..Furthermore, we explain the chronology of previously described whole-genome duplication events in the evolution of flowering plants...
  24. pmc Contrasting effects of selection on sequence diversity and linkage disequilibrium at two phytoene synthase loci
    Kelly A Palaisa
    Department of Plant and Soil Sciences, University of Delaware, and Delaware Biotechnology Institute, Newark, DE 19716, USA
    Plant Cell 15:1795-806. 2003
    ..We propose that two independent gain-of-function events associated with insertions into the promoter of the Y1 gene and upregulation of expression in endosperm have been incorporated into yellow maize...
  25. ncbi request reprint Genome-wide gene expression profiling in Arabidopsis thaliana reveals new targets of abscisic acid and largely impaired gene regulation in the abi1-1 mutant
    Stefan Hoth
    Laboratory of Plant Molecular Biology, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    J Cell Sci 115:4891-900. 2002
    ..However, a subset of genes continued to be appropriately regulated by ABA, which suggests the presence of at least two ABA signaling pathways, only one of which is blocked in abi1-1...
  26. pmc Long-range patterns of diversity and linkage disequilibrium surrounding the maize Y1 gene are indicative of an asymmetric selective sweep
    Kelly Palaisa
    DuPont Crop Genetics, Molecular Genetics Group, 1 Innovation Way, Newark, DE 19711, USA
    Proc Natl Acad Sci U S A 101:9885-90. 2004
    ..The starch branching enzyme 1 (sbe1) gene is the first region downstream of Y1 that does not have a highly conserved haplotype in the yellow endosperm germplasm...
  27. pmc SNP frequency, haplotype structure and linkage disequilibrium in elite maize inbred lines
    Ada Ching
    DuPont Crop Genetics, Delaware Technology Park, Suite 200, P, O, Box 6104, Newark, Delaware 19714, USA
    BMC Genet 3:19. 2002
    ..Such population events are expected to increase the amount of linkage disequilibrium, but reduce diversity. The results of this study will inform the design of genetic association studies...
  28. pmc Evolution of DNA sequence nonhomologies among maize inbreds
    Stephan Brunner
    DuPont Crop Genetics Research, Wilmington, Delaware 19880, USA
    Plant Cell 17:343-60. 2005
    ..The intergenic space between conserved genes is enlarged up to sixfold in maize compared with rice. Frequently, retroelement insertions create a different sequence environment adjacent to conserved genes...
  29. pmc Multilocus patterns of nucleotide diversity, linkage disequilibrium and demographic history of Norway spruce [Picea abies (L.) Karst]
    Myriam Heuertz
    Program in Evolutionary Functional Genetics, Evolutionary Biology Centre, Uppsala University, Sweden
    Genetics 174:2095-105. 2006
    ..Hence, demographic departures from equilibrium expectations and population structure will have to be accounted for when detecting selection at candidate genes and in association mapping studies, respectively...
  30. ncbi request reprint TIR-X and TIR-NBS proteins: two new families related to disease resistance TIR-NBS-LRR proteins encoded in Arabidopsis and other plant genomes
    Blake C Meyers
    Department of Vegetable Crops, University of California, Davis, CA 95616, USA
    Plant J 32:77-92. 2002
    ..These TX and TN proteins could be plant analogues of small TIR-adapter proteins that function in mammalian innate immune responses such as MyD88 and Mal...
  31. pmc Conserved noncoding genomic sequences associated with a flowering-time quantitative trait locus in maize
    Silvio Salvi
    Department of Agroenvironmental Science and Technology, University of Bologna, Viale Fanin, 44, 40127 Bologna, Italy
    Proc Natl Acad Sci U S A 104:11376-81. 2007
    ..Our results support the notion that changes in distant cis-acting regulatory regions are a key component of plant genetic adaptation throughout breeding and evolution...
  32. ncbi request reprint Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes
    Michele Morgante
    E I DuPont de Nemours and Co, DuPont Agriculture and Nutrition Molecular Genetics, Newark, Delaware, USA
    Nat Genet 30:194-200. 2002
    ..Contrary to previous reports suggesting a preferential mechanism for the origin of microsatellites from repetitive DNA in both animals and plants, our findings show a significant association with the low-copy fraction of plant genomes...
  33. ncbi request reprint Comparative genomic mapping between a 754 kb region flanking DREB1A in Arabidopsis thaliana and maize
    Marianne L van Buuren
    Department of Agroenvironmental Science and Technology, University of Bologna, Italy
    Plant Mol Biol 48:741-50. 2002
    ....
  34. ncbi request reprint Monitoring genome-wide changes in gene expression in response to endogenous cytokinin reveals targets in Arabidopsis thaliana
    Stefan Hoth
    Laboratory of Plant Molecular Biology, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    FEBS Lett 554:373-80. 2003
    ..Our study provides researchers with the opportunity to rapidly assess whether genes of interest are regulated by cytokinins...
  35. ncbi request reprint Corn and humans: recombination and linkage disequilibrium in two genomes of similar size
    Antoni Rafalski
    DuPont Crop Genetics, Experimental Station E353, PO Box 80353, Wilmington DE 19880 0353, USA
    Trends Genet 20:103-11. 2004
    ....
  36. pmc Anchoring 9,371 maize expressed sequence tagged unigenes to the bacterial artificial chromosome contig map by two-dimensional overgo hybridization
    Jack Gardiner
    Department of Agronomy, University of Missouri, Columbia, Missouri 65211, USA
    Plant Physiol 134:1317-26. 2004
    ..Our results indicate overgos are a powerful approach for generating gene-specific hybridization probes that are facilitating the assembly of an integrated genetic and physical map for maize...
  37. ncbi request reprint Mapping and sequencing complex genomes: let's get physical!
    Blake C Meyers
    Department of Plant and Soil Sciences and Delaware Biotechnology Institute, University of Delaware, Newark, Delaware 19711, USA
    Nat Rev Genet 5:578-88. 2004
  38. pmc Classical genetic and quantitative trait loci analyses of heterosis in a maize hybrid between two elite inbred lines
    Elisabetta Frascaroli
    Department of Agroenvironmental Sciences and Technologies, University of Bologna, 40127 Bologna, Italy
    Genetics 176:625-44. 2007
    ..Some chromosome regions presented overlaps of overdominant QTL for SW, PH, NK, and GY, suggesting pleiotropic effects on overall plant vigor...
  39. ncbi request reprint A unified classification system for eukaryotic transposable elements
    Thomas Wicker
    Institute of Plant Biology, University Zurich, Zollikerstrasse 107, Ch 8008 Zurich, Switzerland
    Nat Rev Genet 8:973-82. 2007
    ..The system and nomenclature is kept up to date at the WikiPoson web site...
  40. pmc A dense single-nucleotide polymorphism-based genetic linkage map of grapevine (Vitis vinifera L.) anchoring Pinot Noir bacterial artificial chromosome contigs
    Michela Troggio
    IASMA Research Center, Via E Mach 1, 38010 San Michele all Adige TN, Italy
    Genetics 176:2637-50. 2007
    ..The map provides the most comprehensive view of the Vitis genome reported to date and will be relevant for future studies on structural and functional genomics and genetic improvement...