Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes

Details

• Alternative Title:
  Nat Commun
• Personal Author:
  Beliveau, Brian J. ; Boettiger, Alistair N. ; Avendaño, Maier S. ; Jungmann, Ralf ; McCole, Ruth B. ; Joyce, Eric F. ; Kim-Kiselak, Caroline ; Bantignies, Frédéric ; Fonseka, Chamith Y. ; Erceg, Jelena ; Hannan, Mohammed A. ; Hoang, Hien G. ; Colognori, David ; Lee, Jeannie T. ; Shih, William M. ; Yin, Peng ; Zhuang, Xiaowei ; Wu, Chao-ting
• Description:
  Fluorescence in situ hybridization (FISH) is a powerful single-cell technique for studying nuclear structure and organization. Here we report two advances in FISH-based imaging. We first describe the in situ visualization of single-copy regions of the genome using two single-molecule super-resolution methodologies. We then introduce a robust and reliable system that harnesses single-nucleotide polymorphisms (SNPs) to visually distinguish the maternal and paternal homologous chromosomes in mammalian and insect systems. Both of these new technologies are enabled by renewable, bioinformatically designed, oligonucleotide-based Oligopaint probes, which we augment with a strategy that uses secondary oligonucleotides (oligos) to produce and enhance fluorescent signals. These advances should substantially expand the capability to query parent-of-origin-specific chromosome positioning and gene expression on a cell-by-cell basis.
• Subjects:
  Animals Cell Line Chromosome Painting Chromosomes Drosophila Gene Library Haplotypes In Situ Hybridization, Fluorescence Oligonucleotide Array Sequence Analysis Oligonucleotide Probes Staining And Labeling

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• Source:
  Nat Commun. 6:7147
• Pubmed ID:
  25962338
• Pubmed Central ID:
  PMC4430122
• Document Type:
  Journal Article
• Funding:
  R01 GM061936/GM/NIGMS NIH HHSUnited States/ ; DP2 OD004641/OD/NIH HHSUnited States/ ; F32CA157188/CA/NCI NIH HHSUnited States/ ; DP1 GM106412/GM/NIGMS NIH HHSUnited States/ ; R01GM61936/GM/NIGMS NIH HHSUnited States/ ; 5R21HD072481/HD/NICHD NIH HHSUnited States/ ; DP2 OD007292/OD/NIH HHSUnited States/ ; 5DP1GM106412/DP/NCCDPHP CDC HHSUnited States/ ; R21 HD072481/HD/NICHD NIH HHSUnited States/ ; R01 EB018659/EB/NIBIB NIH HHSUnited States/ ; 1DP2OD007292/OD/NIH HHSUnited States/ ; R01-GM090278/GM/NIGMS NIH HHSUnited States/ ; F32 CA157188/CA/NCI NIH HHSUnited States/ ; 1R01EB018659/EB/NIBIB NIH HHSUnited States/ ; R01 GM090278/GM/NIGMS NIH HHSUnited States/ ; 1DP2OD004641/OD/NIH HHSUnited States/ ; HHMI_/Howard Hughes Medical InstituteUnited States/
• Volume:
  6
• Collection(s):
  CDC Public Access
• Main Document Checksum:
  urn:sha-512:125325ecfc62187e3187fb11d34e7d6490b60fd904b27f2abc2452e6a22f701e42f57dbf65cbf4cd7eca6a784b0ff2e43cc8d75d8813576f9a7a6dd0b55a0180
• Download URL:
  https://stacks.cdc.gov/view/cdc/32009/cdc_32009_DS1.pdf
• File Type:
  [PDF - 1.60 MB ]