From The Polyploidy Portal

Contents

Microarray Data

  • Arabidopsis
    • Sensitivity of 70-mer oligonucleotides and cDNAs for microarray analysis of gene expression in Arabidopsis and its related species[1] Dataset
    • Methods for genome-wide analysis of gene expression changes in polyploids.[2]
    • Genomewide nonadditive gene regulation in Arabidopsis allotetraploids.[3] Dataset
    • Duplicate genes increase expression diversity. [4] Dataset
    • Unstable transcripts in Arabidopsis allotetraploids. [5] Dataset
  • Brassica
    • Analysis of resynthesized Brassica napus Allopolyploids Using Arabidopsis 70mer Oligo Microarrays. Dataset [6]
  • Maize
    • Analysis of ploidy and hybridity in maize. [7] Dataset

Sequence Data

  • Arabidopsis hybrids and allopolyploids
    • small RNAs in allopolyploids
      • Analysis of A. thaliana Ler x A. arenosa Care1. Dataset. [8]
      • Analysis of A. thaliana Col x A. arenosa Care1. Some of these data (RMM## libraries) have been deposited in the Meyers' lab database.
    • small RNAs in pollen cells of A. thaliana
      • Pollen small RNA data[9] (RMM## libraries) have been deposited in the Meyers' lab database.
    • Chromatin analysis
      • Coordinated histone modifications and gene expression in Arabidopsis related species and allopolyploids [10] Dataset
    • Hybridization
      • A. thaliana x A. arenosa, Upon publication
  • A. thaliana, genomic reads
    • Karyotypes of trisomic and translocated trisomic. [11] Dataset
  • Arabidopsis suecica
    • Genome. Genomic reads. Release at publication time
    • Reduced complexity sequence reads for genotyping. Release at publication time
    • Expression. Release at publication time
  • Arabidopsis arenosa
  • Brassica rapa and B. oleracea
  • Maize
    • Hybridization and endosperm regulation. Publication in preparation.

Mapping data

  • Triploid bridge in A. thaliana
  • A. suecica Sue1
    • SNP between A. suecica Sue1 and A. thaliana Ler, Col, and A. arenosa Care-1. Release at publication time
    • Map A. suecica Sue1 x (synthetic allopolyploidy At Ler x Aa Care1). Release at publication time

References

  1. Lee HS et al. (2004) Sensitivity of 70-mer oligonucleotides and cDNAs for microarray analysis of gene expression in Arabidopsis and its related species. Plant Biotechnol J 2: 45-57 PubMed
  2. Wang J et al. (2005) Methods for genome-wide analysis of gene expression changes in polyploids. Methods Enzymol 395: 570-96 PubMed
  3. Wang J et al. (2006) Genomewide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics 172: 507-17 PubMed
  4. Ha M et al. (2009) Duplicate genes increase expression diversity in closely related species and allopolyploids. Proc Natl Acad Sci U S A 106: 2295-300 PubMed
  5. Kim ED & Chen ZJ (2011) Unstable transcripts in Arabidopsis allotetraploids are associated with nonadditive gene expression in response to abiotic and biotic stresses. PLoS One 6: e24251 PubMed
  6. Gaeta RT et al. (2009) Analysis of gene expression in resynthesized Brassica napus Allopolyploids using arabidopsis 70mer oligo microarrays. PLoS One 4: e4760 PubMed
  7. Riddle NC et al. (2010) Gene expression analysis at the intersection of ploidy and hybridity in maize. Theor Appl Genet 120: 341-53 PubMed
  8. Ha M et al. (2009) Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids. Proc Natl Acad Sci U S A 106: 17835-40 PubMed
  9. Slotkin RK et al. (2009) Epigenetic reprogramming and small RNA silencing of transposable elements in pollen. Cell 136: 461-72 PubMed
  10. Ha M et al. (2011) Coordinated histone modifications are associated with gene expression variation within and between species. Genome Res 21: 590-8 PubMed
  11. Henry IM et al. (2010) Phenotypic consequences of aneuploidy in Arabidopsis thaliana. Genetics 186: 1231-45 PubMed
  12. Nah G & Jeffrey Chen Z (2010) Tandem duplication of the FLC locus and the origin of a new gene in Arabidopsis related species and their functional implications in allopolyploids. New Phytol 186: 228-38 PubMed
  13. Henry IM et al. (2005) Aneuploidy and genetic variation in the Arabidopsis thaliana triploid response. Genetics 170: 1979-88 PubMed
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