Next Article in Journal
MicroRNAs as Appropriate Discriminators in Non-Specific Alpha-Fetoprotein (AFP) Elevation in Testicular Germ Cell Tumor Patients
Next Article in Special Issue
Centromeric Non-Coding RNAs: Conservation and Diversity in Function
Previous Article in Journal / Special Issue
Understanding Long Noncoding RNA and Chromatin Interactions: What We Know So Far
Open AccessReview

Identification of Genomic Loci Responsible for the Formation of Nuclear Domains Using Lampbrush Chromosomes

Saint-Petersburg State University, 7/9 Universitetskaya emb., 199034 St. Petersburg, Russia
*
Author to whom correspondence should be addressed.
Non-Coding RNA 2020, 6(1), 1; https://doi.org/10.3390/ncrna6010001
Received: 30 October 2019 / Revised: 19 December 2019 / Accepted: 22 December 2019 / Published: 25 December 2019
(This article belongs to the Special Issue Non-Coding RNA and Intracellular Structures)
In the cell nuclei, various types of nuclear domains assemble as a result of transcriptional activity at specific chromosomal loci. Giant transcriptionally active lampbrush chromosomes, which form in oocyte nuclei of amphibians and birds enable the mapping of genomic sequences with high resolution and the visualization of individual transcription units. This makes avian and amphibian oocyte nuclei an advantageous model for studying locus-specific nuclear domains. We developed two strategies for identification and comprehensive analysis of the genomic loci involved in nuclear domain formation on lampbrush chromosomes. The first approach was based on the sequential FISH-mapping of BAC clones containing genomic DNA fragments with a known chromosomal position close to the locus of a nuclear domain. The second approach involved mechanical microdissection of the chromosomal region adjacent to the nuclear domain followed by the generation of FISH-probes and DNA sequencing. Furthermore, deciphering the DNA sequences from the dissected material by high throughput sequencing technologies and their mapping to the reference genome helps to identify the genomic region responsible for the formation of the nuclear domain. For those nuclear domains structured by nascent transcripts, identification of genomic loci of their formation is a crucial step in the identification of scaffold RNAs. View Full-Text
Keywords: nuclear domain; nuclear body; lampbrush chromosomes; microdissection; FISH-mapping; non-coding RNA; architectural RNA nuclear domain; nuclear body; lampbrush chromosomes; microdissection; FISH-mapping; non-coding RNA; architectural RNA
Show Figures

Figure 1

MDPI and ACS Style

Krasikova, A.; Kulikova, T. Identification of Genomic Loci Responsible for the Formation of Nuclear Domains Using Lampbrush Chromosomes. Non-Coding RNA 2020, 6, 1.

Show more citation formats Show less citations formats
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Back to TopTop