L Comai

Summary

Affiliation: University of Washington
Country: USA

Publications

  1. pmc Centromeric localization and adaptive evolution of an Arabidopsis histone H3 variant
    Paul B Talbert
    Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue N, Seattle, Washington 98109 1024, USA
    Plant Cell 14:1053-66. 2002
  2. pmc Aneuploidy and genetic variation in the Arabidopsis thaliana triploid response
    Isabelle M Henry
    Department of Biology, University of Washington, Seattle, Washington 98195 5325, USA
    Genetics 170:1979-88. 2005
  3. ncbi request reprint High-throughput TILLING for Arabidopsis
    Bradley J Till
    Basic Sciences Division, Fred Hutchison Cancer Research Center, Department of Biology, University of Washington, Seattle, USA
    Methods Mol Biol 323:127-35. 2006
  4. pmc Discovery of induced point mutations in maize genes by TILLING
    Bradley J Till
    Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    BMC Plant Biol 4:12. 2004
  5. ncbi request reprint FISH analysis of meiosis in Arabidopsis allopolyploids
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195 5325, USA
    Chromosome Res 11:217-26. 2003
  6. ncbi request reprint The advantages and disadvantages of being polyploid
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, Washington 98195, USA
    Nat Rev Genet 6:836-46. 2005
  7. pmc Do the different parental 'heteromes' cause genomic shock in newly formed allopolyploids?
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195 5325, USA
    Philos Trans R Soc Lond B Biol Sci 358:1149-55. 2003
  8. ncbi request reprint Genetic and epigenetic interactions in allopolyploid plants
    L Comai
    Department of Botany, University of Washington, Seattle 98195 5325, USA
    Plant Mol Biol 43:387-99. 2000
  9. pmc Phenotypic instability and rapid gene silencing in newly formed arabidopsis allotetraploids
    L Comai
    Department of Botany, Box 355325, University of Washington, Seattle, Washington 98195, USA
    Plant Cell 12:1551-68. 2000
  10. ncbi request reprint Efficient discovery of DNA polymorphisms in natural populations by Ecotilling
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195, USA
    Plant J 37:778-86. 2004

Collaborators

Detail Information

Publications45

  1. pmc Centromeric localization and adaptive evolution of an Arabidopsis histone H3 variant
    Paul B Talbert
    Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue N, Seattle, Washington 98109 1024, USA
    Plant Cell 14:1053-66. 2002
    ..This finding suggests that the same evolutionary forces shape centromeric chromatin in both animals and plants...
  2. pmc Aneuploidy and genetic variation in the Arabidopsis thaliana triploid response
    Isabelle M Henry
    Department of Biology, University of Washington, Seattle, Washington 98195 5325, USA
    Genetics 170:1979-88. 2005
    ..Thus, genetic variation was subject to selection contingent on the final ploidy and possibly acting during the protracted aneuploid phase...
  3. ncbi request reprint High-throughput TILLING for Arabidopsis
    Bradley J Till
    Basic Sciences Division, Fred Hutchison Cancer Research Center, Department of Biology, University of Washington, Seattle, USA
    Methods Mol Biol 323:127-35. 2006
    ..High-throughput TILLING has been adopted by the Arabidopsis TILLING Project (ATP) to provide allelic series of point mutations for the general Arabidopsis community...
  4. pmc Discovery of induced point mutations in maize genes by TILLING
    Bradley J Till
    Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    BMC Plant Biol 4:12. 2004
    ....
  5. ncbi request reprint FISH analysis of meiosis in Arabidopsis allopolyploids
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195 5325, USA
    Chromosome Res 11:217-26. 2003
    ....
  6. ncbi request reprint The advantages and disadvantages of being polyploid
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, Washington 98195, USA
    Nat Rev Genet 6:836-46. 2005
    ..These interactions can be related to the phenotypes and evolutionary fates of polyploids. Here, I consider the advantages and challenges of polyploidy, and its evolutionary potential...
  7. pmc Do the different parental 'heteromes' cause genomic shock in newly formed allopolyploids?
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195 5325, USA
    Philos Trans R Soc Lond B Biol Sci 358:1149-55. 2003
    ..We hypothesize that loss of epigenetic suppression of these sequences, here defined as the heterome, results in genomic instability including silencing of single-copy genes...
  8. ncbi request reprint Genetic and epigenetic interactions in allopolyploid plants
    L Comai
    Department of Botany, University of Washington, Seattle 98195 5325, USA
    Plant Mol Biol 43:387-99. 2000
    ..Therefore, insight into genome function gained from the study of allopolyploidy may be applicable to hybrids of any type and may even elucidate positive interactions, such as those responsible for hybrid vigor...
  9. pmc Phenotypic instability and rapid gene silencing in newly formed arabidopsis allotetraploids
    L Comai
    Department of Botany, Box 355325, University of Washington, Seattle, Washington 98195, USA
    Plant Cell 12:1551-68. 2000
    ..That K7 could be reactivated suggests epigenetic regulation. L6 was methylated in the C. arenosa genome. The present evidence that gene silencing accompanies allopolyploidization opens new avenues to this area of research...
  10. ncbi request reprint Efficient discovery of DNA polymorphisms in natural populations by Ecotilling
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195, USA
    Plant J 37:778-86. 2004
    ..The technology is applicable to any organism including those that are heterozygous and polyploid...
  11. ncbi request reprint TILLING: practical single-nucleotide mutation discovery
    Luca Comai
    Department of Biology, Box 355325, University of Washington, Seattle, WA 98195, USA
    Plant J 45:684-94. 2006
    ....
  12. ncbi request reprint Parent-dependent loss of gene silencing during interspecies hybridization
    Caroline Josefsson
    Department of Biology, University of Washington, Seattle, Washington 98195, USA
    Curr Biol 16:1322-8. 2006
    ..We propose that the dosage-dependent regulation of chromatin could be a universal phenomenon affecting lethality in interspecies hybrids...
  13. ncbi request reprint The matrix attachment regions (MARs) associated with the Heat Shock Cognate 80 gene ( HSC80) of tomato represent specific regulatory elements
    R Holmes-Davis
    Department of Botany, Box 355325, University of Washington, Seattle, WA 98195, USA
    Mol Genet Genomics 266:891-8. 2002
    ..In conclusion, this work supports a model in which different regulatory elements within the HSC80 locus interact with the nuclear matrix to induce transcriptional competence...
  14. pmc Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids
    Andreas Madlung
    Department of Botany, Box 355325, University of Washington, Seattle, WA 98195, USA
    Plant Physiol 129:733-46. 2002
    ..We show that DNA demethylation induced and repressed two different transcriptomes. Our results are consistent with the hypothesis that synthetic allotetraploids have compromised mechanisms of epigenetic gene regulation...
  15. ncbi request reprint The effect of stress on genome regulation and structure
    Andreas Madlung
    University of Puget Sound, Department of Biology, Tacoma, WA 98416, USA
    Ann Bot 94:481-95. 2004
    ..Stresses exert evolutionary pressures on all organisms, which have developed sophisticated responses to cope and survive. These responses involve cellular physiology, gene regulation and genome remodelling...
  16. pmc Plant gene expression response to Agrobacterium tumefaciens
    R F Ditt
    Department of Botany, University of Washington, Seattle, WA 98195-5325, USA
    Proc Natl Acad Sci U S A 98:10954-9. 2001
    ..A nodulin-like gene was regulated only by Agrobacterium. These results demonstrate a rapid plant cell response to Agrobacterium infection, which overlaps a general response to bacteria but also has Agrobacterium-specific features...
  17. pmc Spectrum of chemically induced mutations from a large-scale reverse-genetic screen in Arabidopsis
    Elizabeth A Greene
    Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Genetics 164:731-40. 2003
    ..As expected for alkylation of guanine by EMS, >99% of mutations are G/C-to-A/T transitions. A nearest-neighbor bias around the mutated base pair suggests that mismatch repair counteracts alkylation damage...
  18. ncbi request reprint Molecular karyotyping and aneuploidy detection in Arabidopsis thaliana using quantitative fluorescent polymerase chain reaction
    Isabelle M Henry
    Department of Biology, University of Washington, Box 355325, Seattle, WA 98195 5325, USA
    Plant J 48:307-19. 2006
    ....
  19. pmc A differential dosage hypothesis for parental effects in seed development
    Brian P Dilkes
    Department of Biology, University of Washington, Seattle, WA 98195, USA
    Plant Cell 16:3174-80. 2004
  20. pmc Genetic basis for dosage sensitivity in Arabidopsis thaliana
    Isabelle M Henry
    Department of Biology, University of Washington, Seattle, Washington, United States of America
    PLoS Genet 3:e70. 2007
    ..Our results demonstrate that positional cloning of loci affecting traits in populations containing ploidy and chromosome number variants is now feasible using quantitative genotyping approaches...
  21. pmc Large-scale polymorphism of heterochromatic repeats in the DNA of Arabidopsis thaliana
    Jerry Davison
    University of Washington, Department of Biology, Box 355325, Seattle, WA 98195 5325, USA
    BMC Plant Biol 7:44. 2007
    ..Even for a sequenced genome such as that of the model plant Arabidopsis thaliana accession Col-0, the large arrays of heterochromatic repeats are incompletely sequenced, with gaps of uncertain size persisting in them...
  22. ncbi request reprint Two callose synthases, GSL1 and GSL5, play an essential and redundant role in plant and pollen development and in fertility
    Linda C Enns
    Department of Biology, University of Washington, Seattle, WA 98195, USA
    Plant Mol Biol 58:333-49. 2005
    ..Other GSL genes may control callose formation at different steps during pollen development...
  23. doi request reprint Dosage and parent-of-origin effects shaping aneuploid swarms in A. thaliana
    I M Henry
    Department of Biology, University of Washington, Seattle, USA
    Heredity (Edinb) 103:458-68. 2009
    ..Finally, each of the five chromosome types responded differently to this selection, suggesting the presence of dosage-sensitive factor(s) critical for viability and encoded on different chromosomes...
  24. pmc A DNA methyltransferase homolog with a chromodomain exists in multiple polymorphic forms in Arabidopsis
    S Henikoff
    Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109 1024, USA
    Genetics 149:307-18. 1998
    ..We discuss how allelic diversity of CMT1 may reflect loosened selective constraints in a self-fertilizing species such as Arabidopsis thaliana...
  25. ncbi request reprint A protocol for TILLING and Ecotilling in plants and animals
    Bradley J Till
    Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Nat Protoc 1:2465-77. 2006
    ..Throughput is increased and costs are reduced by sample pooling, multi-well liquid handling and automated gel band mapping. Once genomic DNA samples have been obtained, pooled and arrayed, thousands of samples can be screened daily...
  26. pmc Large-scale discovery of induced point mutations with high-throughput TILLING
    Bradley J Till
    Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Genome Res 13:524-30. 2003
    ..The tools and methodologies described here can be adapted to create similar facilities for other organisms...
  27. ncbi request reprint High-throughput TILLING for functional genomics
    Bradley J Till
    BasicSciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA
    Methods Mol Biol 236:205-20. 2003
    ..High-throughput TILLING has been adopted by the Arabidopsis TILLING Project (ATP) to provide allelic series of point mutations for the general Arabidopsis community...
  28. ncbi request reprint The Arabidopsis thaliana transcriptome in response to Agrobacterium tumefaciens
    Renata F Ditt
    Department of Biology, University of Washington, Seattle 98195, USA
    Mol Plant Microbe Interact 19:665-81. 2006
    ..The regulated gene sets should be useful in dissecting the signaling pathways in this plant-pathogen interaction...
  29. ncbi request reprint Single-nucleotide mutations for plant functional genomics
    Steven Henikoff
    Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Annu Rev Plant Biol 54:375-401. 2003
    ..Its general applicability leads to the expectation that traditional mutagenesis followed by high-throughput detection will become increasingly important for plant functional genomics...
  30. ncbi request reprint Genomic changes in synthetic Arabidopsis polyploids
    Andreas Madlung
    Department of Biology, University of Washington, Seattle, WA 98195, USA
    Plant J 41:221-30. 2005
    ..Activity of selected DNA transposons and the possibly related chromosomal breaks could cause changes by inducing translocations and rearrangements...
  31. ncbi request reprint The plant cell defense and Agrobacterium tumefaciens
    Renata Fava Ditt
    Department of Biology, University of Washington, Seattle, Box 355325, WA 98195, USA
    FEMS Microbiol Lett 247:207-13. 2005
    ..We propose that the plant defense system has an important role in controlling infection and transformation and that Agrobacterium may dampen some plant defense responses...
  32. ncbi request reprint Trans-sensing effects: the ups and downs of being together
    S Henikoff
    Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109 1024, USA
    Cell 93:329-32. 1998
  33. pmc Agrobacterium VirD2 protein interacts with plant host cyclophilins
    W Deng
    Department of Microbiology, Box 357242, University of Washington, Seattle, WA 98195 7242, USA
    Proc Natl Acad Sci U S A 95:7040-5. 1998
    ..These data strongly suggest that host cyclophilins play a role in T-DNA transfer...
  34. pmc High-throughput discovery of rare human nucleotide polymorphisms by Ecotilling
    Bradley J Till
    Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA
    Nucleic Acids Res 34:e99. 2006
    ..We identified 28 new rare alleles, including some that are predicted to damage protein function. The detection of rare damaging mutations has implications for models of human disease...
  35. pmc TILLING. Traditional mutagenesis meets functional genomics
    Steven Henikoff
    Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Plant Physiol 135:630-6. 2004
    ..We describe public TILLING efforts in Arabidopsis and other organisms, including maize (Zea mays) and zebrafish. We conclude that TILLING, a technology developed in plants, is rapidly being adopted in other systems...
  36. pmc TILLING to detect induced mutations in soybean
    Jennifer L Cooper
    Fred Hutchinson Cancer Research Center, Seattle, WA 98107, USA
    BMC Plant Biol 8:9. 2008
    ..We have applied TILLING to four mutagenized soybean populations, three of which were treated with ethyl methanesulfonate (EMS) and one with N-nitroso-N-methylurea (NMU)...
  37. pmc Discovery of chemically induced mutations in rice by TILLING
    Bradley J Till
    Fred Hutchinson Cancer Research Center, Seattle, WA 98107, USA
    BMC Plant Biol 7:19. 2007
    ..TILLING (Targeting Induced Local Lesions in Genomes), a general reverse genetic technique that combines traditional mutagenesis with high throughput methods for mutation discovery, is such a method...
  38. pmc Mismatch cleavage by single-strand specific nucleases
    Bradley J Till
    Basic Sciences Division, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, Seattle, WA 98109, USA
    Nucleic Acids Res 32:2632-41. 2004
    ..We conclude that a variety of sss nucleases and extracts can be effectively used for high-throughput mutation and polymorphism discovery...
  39. ncbi request reprint Understanding mechanisms of novel gene expression in polyploids
    Thomas C Osborn
    Dept of Agronomy, University of Wisconsin, Madison, WI 53706, USA
    Trends Genet 19:141-7. 2003
    ..New research approaches are being used to study these mechanisms and the results should provide a more complete understanding of polyploidy...
  40. pmc Genomewide nonadditive gene regulation in Arabidopsis allotetraploids
    Jianlin Wang
    Department of Agronomy, University of Wisconsin, Madison, Wisconsin 53706, USA
    Genetics 172:507-17. 2006
    ....
  41. pmc Methods for genome-wide analysis of gene expression changes in polyploids
    Jianlin Wang
    Department of Soil and Crop Sciences, Texas A and M University, College Station, Texas 77843 2474, USA
    Methods Enzymol 395:570-96. 2005
    ..Furthermore, we describe these methods in general terms to be of wider applicability for comparative gene expression in a variety of evolutionary, genetic, biological, and physiological contexts...
  42. pmc Stochastic and epigenetic changes of gene expression in Arabidopsis polyploids
    Jianlin Wang
    Genetics Program, Department of Soil and Crop Sciences, Texas A and M University, College Station, Texas 77843 2474, USA
    Genetics 167:1961-73. 2004
    ..A rapid and stochastic process of differential gene expression is reinforced by epigenetic regulation during polyploid formation and evolution...
  43. pmc A toxic mutator and selection alternative to the non-Mendelian RNA cache hypothesis for hothead reversion
    Luca Comai
    Plant Cell 17:2856-8. 2005
  44. pmc Chromosomal locus rearrangements are a rapid response to formation of the allotetraploid Arabidopsis suecica genome
    Olga Pontes
    Centro de Botaānica Aplicada à Agricultura, Instituto Superior de Agronomia, Tapada da Ajuda, 1349 017 Lisbon, Portugal
    Proc Natl Acad Sci U S A 101:18240-5. 2004
    ..suecica allotetraploids and can participate in a variety of alternative rearrangements, some of which resemble chromosomal changes found in nature...
  45. pmc A conserved and species-specific functional interaction between the Werner syndrome-like exonuclease atWEX and the Ku heterodimer in Arabidopsis
    Baomin Li
    Department of Molecular Microbiology and Immunology, Keck School of Medicine, University of Southern California, LA, USA
    Nucleic Acids Res 33:6861-7. 2005
    ....