myTags® Gallery Publications

myTags Gallery Publications

Category: 3D Visualization and Analysis of Genome Organization

Description: Coupling fluorescence in situ hybridization (FISH) with 3D microscopy and image reconstruction to study spatial organization of the nuclear genome, chromatin topology and interactions between chromosomes/chromatins, which play important roles in transcriptional and epigenetic regulation of the genome function.

The images from the gallery are cited below. Click on a selection in blue to go to the publication.

Images 1, 2

Kubalová, I. et al. (2021) Helical metaphase chromatid coiling is conserved. preprint. Cell Biology. doi:10.1101/2021.09.16.460607.

Boyle, S. et al. (2020) ‘A central role for canonical PRC1 in shaping the 3D nuclear landscape’, Genes & Development, 34(13–14), pp. 931–949. doi:10.1101/gad.336487.120.

Boyle et al., (2022) Genes and Development,  A central role for canonical PRC1 in shaping the 3D nuclear landscape.

Category: Chromosome Structure and Arrangement

Description: Using FISH-based assay to reveal chromosome structures and rearrangements including translocations, segmental duplications/deletions, and presence-absence variations, which is essential for studying recombination between chromosomes, chromosome synteny and evolution, massive gene duplication and amplification events, etc.

Images 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13

do Vale Martins, L. et al. (2019) ‘Meiotic crossovers characterized by haplotype-specific chromosome painting in maize’, Nature Communications, 10(1), p. 4604. doi:10.1038/s41467-019-12646-z.

Nozawa, R.-S. et al. (2017) ‘SAF-A Regulates Interphase Chromosome Structure through Oligomerization with Chromatin-Associated RNAs’, Cell, 169(7), pp. 1214-1227.e18. doi:10.1016/j.cell.2017.05.029.

Beliveau, B.J. et al. (2012) ‘Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes’, Proceedings of the National Academy of Sciences, 109(52), pp. 21301–21306. doi:10.1073/pnas.1213818110.

Albert, P.S. et al. (2019) ‘Whole-chromosome paints in maize reveal rearrangements, nuclear domains, and chromosomal relationships’, Proceedings of the National Academy of Sciences, p. 201813957. doi:10.1073/pnas.1813957116.

Piperidis, N. and D’Hont, A. (2020) ‘Sugarcane genome architecture decrypted with chromosome‐specific oligo probes’, The Plant Journal, 103(6), pp. 2039–2051. doi:10.1111/tpj.14881.

Šimoníková, D. et al. (2019) ‘Chromosome Painting Facilitates Anchoring Reference Genome Sequence to Chromosomes In Situ and Integrated Karyotyping in Banana (Musa Spp.)’, Frontiers in Plant Science, 10, p. 1503. doi:10.3389/fpls.2019.01503.

Boyle, S. et al. (2020) ‘A central role for canonical PRC1 in shaping the 3D nuclear landscape’, Genes & Development, 34(13–14), pp. 931–949. doi:10.1101/gad.336487.120.

Boyle et al., Genes and Development, 2022. A central role for canonical PRC1 in shaping the 3D nuclear landscape.

Category: Chromosome Identification, Karyotyping and Chromosome Painting

Description: Using oligo-FISH to develop chromosome identification/barcode system, allowing karyotyping based on individually identified chromosomes and studies of chromosome-scale genetic adaptation and evolution; Chromosome/haplotype-specific painting using chromosome or haplotype-specific oligo probes can be applied to research in chromosomal evolution, monitoring chromosome paring and transmission and assessing genomic sequence assembly.

Images 14, 15, 16, 17, 18, 19, 20, 21, 22

Beliveau, B.J. et al. (2012) ‘Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes’, Proceedings of the National Academy of Sciences, 109(52), pp. 21301–21306. doi:10.1073/pnas.1213818110.

Albert, P.S. et al. (2019) ‘Whole-chromosome paints in maize reveal rearrangements, nuclear domains, and chromosomal relationships’, Proceedings of the National Academy of Sciences, p. 201813957. doi:10.1073/pnas.1813957116.

do Vale Martins, L. et al. (2019) ‘Meiotic crossovers characterized by haplotype-specific chromosome painting in maize’, Nature Communications, 10(1), p. 4604. doi:10.1038/s41467-019-12646-z.

Hou, L. et al. (2018) ‘Chromosome painting and its applications in cultivated and wild rice’, BMC Plant Biology, 18(1). doi:10.1186/s12870-018-1325-2.

Hou, L. et al. (2018) ‘Chromosome painting and its applications in cultivated and wild rice’, BMC Plant Biology, 18(1). doi:10.1186/s12870-018-1325-2.

Šimoníková, D. et al. (2019) ‘Chromosome Painting Facilitates Anchoring Reference Genome Sequence to Chromosomes In Situ and Integrated Karyotyping in Banana (Musa Spp.)’, Frontiers in Plant Science, 10, p. 1503. doi:10.3389/fpls.2019.01503.

Piperidis, N. and D’Hont, A. (2020) ‘Sugarcane genome architecture decrypted with chromosome‐specific oligo probes’, The Plant Journal, 103(6), pp. 2039–2051. doi:10.1111/tpj.14881.

Beliveau, B.J. et al. (2012) ‘Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes’, Proceedings of the National Academy of Sciences, 109(52), pp. 21301–21306. doi:10.1073/pnas.1213818110.

Category: Oligonucleotides Based Fluorescent in situ Hybridization (Oligo-FISH)

Description: Oligo-FISH, which utilizes custom-designed synthetic single stranded oligonucleotides probes, is the fundamental technique required for chromosome identification, chromosome painting, chromosome rearrangement and study of three-dimensional chromatin organization, etc.

Images: 23, 24, 25, 26, 27, 28

Beliveau, B.J. et al. (2012) ‘Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes’, Proceedings of the National Academy of Sciences, 109(52), pp. 21301–21306. doi:10.1073/pnas.1213818110.

Albert, P.S. et al. (2019) ‘Whole-chromosome paints in maize reveal rearrangements, nuclear domains, and chromosomal relationships’, Proceedings of the National Academy of Sciences, p. 201813957. doi:10.1073/pnas.1813957116.

do Vale Martins, L. et al. (2019) ‘Meiotic crossovers characterized by haplotype-specific chromosome painting in maize’, Nature Communications, 10(1), p. 4604. doi:10.1038/s41467-019-12646-z.

Hou, L. et al. (2018) ‘Chromosome painting and its applications in cultivated and wild rice’, BMC Plant Biology, 18(1). doi:10.1186/s12870-018-1325-2.

Category: Evaluation of Gene Expression and Regulation

Description: Visualization of chromatin interactions and spatial arrangement/localization of target genes or mRNA transcripts using oligo-FISH allows for investigation of transcriptional and epigenetic regulation activities.

Images: 29, 30, 31, 32

Mirabelli, C. et al. (2021) ‘Morphological cell profiling of SARS-CoV-2 infection identifies drug repurposing candidates for COVID-19’, Proceedings of the National Academy of Sciences, 118(36), p. e2105815118. doi:10.1073/pnas.2105815118.

Carmen Mirabelli, et al. Proceedings of the National Academy of Sciences Sep 2021, 118 (36) e2105815118; DOI: 10.1073/pnas.2105815118

Boyle, S. et al. (2020) ‘A central role for canonical PRC1 in shaping the 3D nuclear landscape’, Genes & Development, 34(13–14), pp. 931–949. doi:10.1101/gad.336487.120.

Boyle et al., (2022) Genes and Development, A central role for canonical PRC1 in shaping the 3D nuclear landscape.

Beliveau, B.J. et al. (2012) ‘Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes’, Proceedings of the National Academy of Sciences, 109(52), pp. 21301–21306. doi:10.1073/pnas.1213818110.

Category: Super-resolution Imaging of Nuclear Organizations and Structures

Description: Oligo-FISH in combination with super-resolution imaging techniques allows for analyzing the subcellular localization and spatial arrangement of targeted DNA sequences and RNA transcripts at the single cell level.

Images: 33

Kubalová, I. et al. (2021) Helical metaphase chromatid coiling is conserved. Preprint. Cell Biology. doi:10.1101/2021.09.16.460607.

Save & Share Cart
Your Shopping Cart will be saved and you'll be given a link. You, or anyone with the link, can use it to retrieve your Cart at any time.
Back Save & Share Cart
Your Shopping Cart will be saved with Product pictures and information, and Cart Totals. Then send it to yourself, or a friend, with a link to retrieve it at any time.
Your cart email sent successfully :)