Transcription of subtelomere tandemly repetitive DNA in chicken embryogenesis

Trofimova, Irina; Chervyakova, Daria B.; Krasikova, Alla

doi:10.1007/s10577-015-9487-3

Cited by 9 publications

(13 citation statements)

References 34 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…80,81 Reverse transcription polymerase chain reaction with specific primers confirmed PO41 transcription at different stages of chicken embryogenesis. 81 Pretreatment of fixed MDCC-MSB1 cells with different RNases followed by RNA hybridization demonstrated that PO41 RNAs exist in predominantly single-stranded form with short doublestranded regions, likely due to inverted units in the arrays of the PO41 repeat. 80 PO41 RNA demonstrates definite distribution during the cell cycle progression in transformed MDCC-MSB1 cells, embryonic cells and normal cultured embryonic fibroblasts.…”

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 88%

“…The PO41 repeat transcripts were found in brain, muscles, oviduct, intestine and eye of adult chicken and Japanese quail females, during chicken embryogenesis and also in chicken MDCC-MSB1 malignant cell line. 80,81 In embryonic and adult somatic and malignant cells the PO41 RNAs exhibit identical distribution pattern during interphase: all transcripts appear to be nuclear-retained and form one or 2 major foci with dispersed RNA in euchromatin (Fig. S1).…”

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 97%

“…For instance, at metaphase the PO41 repeat transcripts formed small dots around chromosome plates, whereas in anaphase transcripts lined up at mid-body, and at telophase they were concentrated around the chromosome termini. 80,81 Many satellite DNA transcripts have tissue-, spatial-and temporal-specific patterns of transcription. 7 In contrast, the PO41 RNAs have similar distribution in the embryonic and adult somatic cells, among different somatic tissues and in normal and transformed cultured cells in a number of Galliformes species.…”

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 99%

“…7 In contrast, the PO41 RNAs have similar distribution in the embryonic and adult somatic cells, among different somatic tissues and in normal and transformed cultured cells in a number of Galliformes species. 80,81 Other prominent examples of the widespread transcription are the Xist long non-coding RNA and, its antagonist, the Tsix RNA 82,83 as well as TERRA RNA in mammals. 47 Uniform character of the PO41 repeat transcription resembles the expression pattern of house-keeping protein-coding and non-protein-coding genes.…”

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 99%

“…47 Uniform character of the PO41 repeat transcription resembles the expression pattern of house-keeping protein-coding and non-protein-coding genes. 80,81 Thus, PO41 transcripts likely execute essential role during meiosis and mitosis. Transcription from both strands of the PO41 repeat can potentially cause generation of the double-stranded RNA and activation of the Dicer-depending mechanism of the heterochromatin formation and maintenance at subtelomere regions.…”

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 99%

See 4 more Smart Citations

Transcription of highly repetitive tandemly organized DNA in amphibians and birds: A historical overview and modern concepts

Trofimova

Krasikova

2016

RNA Biology

Self Cite

View full text Add to dashboard Cite

Tandemly organized highly repetitive DNA sequences are crucial structural and functional elements of eukaryotic genomes. Despite extensive evidence, satellite DNA remains an enigmatic part of the eukaryotic genome, with biological role and significance of tandem repeat transcripts remaining rather obscure. Data on tandem repeats transcription in amphibian and avian model organisms is fragmentary despite their genomes being thoroughly characterized. Review systematically covers historical and modern data on transcription of amphibian and avian satellite DNA in somatic cells and during meiosis when chromosomes acquire special lampbrush form. We highlight how transcription of tandemly repetitive DNA sequences is organized in interphase nucleus and on lampbrush chromosomes. We offer LTR-activation hypotheses of widespread satellite DNA transcription initiation during oogenesis. Recent explanations are provided for the significance of high-yield production of non-coding RNA derived from tandemly organized highly repetitive DNA. In many cases the data on the transcription of satellite DNA can be extrapolated from lampbrush chromosomes to interphase chromosomes. Lampbrush chromosomes with applied novel technical approaches such as superresolution imaging, chromosome microdissection followed by high-throughput sequencing, dynamic observation in life-like conditions provide amazing opportunities for investigation mechanisms of the satellite DNA transcription.

show abstract

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 88%

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 97%

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 99%

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 99%

Section: Specific Pattern Of Transcription Of Tandemly Repetitive Dnamentioning

confidence: 99%

See 3 more Smart Citations

Transcription of highly repetitive tandemly organized DNA in amphibians and birds: A historical overview and modern concepts

Trofimova

Krasikova

2016

RNA Biology

Self Cite

View full text Add to dashboard Cite

show abstract

History, Discovery, and Classification of lncRNAs

Jarroux

Morillon

Pinskaya

2017

Advances in Experimental Medicine and Biology

711

531

View full text Add to dashboard Cite

The RNA World Hypothesis suggests that prebiotic life revolved around RNA instead of DNA and proteins. Although modern cells have changed significantly in 4 billion years, RNA has maintained its central role in cell biology. Since the discovery of DNA at the end of the nineteenth century, RNA has been extensively studied. Many discoveries such as housekeeping RNAs (rRNA, tRNA, etc.) supported the messenger RNA model that is the pillar of the central dogma of molecular biology, which was first devised in the late 1950s. Thirty years later, the first regulatory non-coding RNAs (ncRNAs) were initially identified in bacteria and then in most eukaryotic organisms. A few long ncRNAs (lncRNAs) such as H19 and Xist were characterized in the pre-genomic era but remained exceptions until the early 2000s. Indeed, when the sequence of the human genome was published in 2001, studies showed that only about 1.2% encodes proteins, the rest being deemed "non-coding." It was later shown that the genome is pervasively transcribed into many ncRNAs, but their functionality remained controversial. Since then, regulatory lncRNAs have been characterized in many species and were shown to be involved in processes such as development and pathologies, revealing a new layer of regulation in eukaryotic cells. This newly found focus on lncRNAs, together with the advent of high-throughput sequencing, was accompanied by the rapid discovery of many novel transcripts which were further characterized and classified according to specific transcript traits.In this review, we will discuss the many discoveries that led to the study of lncRNAs, from Friedrich Miescher's "nuclein" in 1869 to the elucidation of the human genome and transcriptome in the early 2000s. We will then focus on the biological relevance during lncRNA evolution and describe their basic features as genes and transcripts. Finally, we will present a non-exhaustive catalogue of lncRNA classes, thus illustrating the vast complexity of eukaryotic transcriptomes.

show abstract

Repetitive DNA in eukaryotic genomes

2015

View full text Add to dashboard Cite

Repetitive DNA--sequence motifs repeated hundreds or thousands of times in the genome--makes up the major proportion of all the nuclear DNA in most eukaryotic genomes. However, the significance of repetitive DNA in the genome is not completely understood, and it has been considered to have both structural and functional roles, or perhaps even no essential role. High-throughput DNA sequencing reveals huge numbers of repetitive sequences. Most bioinformatic studies focus on low-copy DNA including genes, and hence, the analyses collapse repeats in assemblies presenting only one or a few copies, often masking out and ignoring them in both DNA and RNA read data. Chromosomal studies are proving vital to examine the distribution and evolution of sequences because of the challenges of analysis of sequence data. Many questions are open about the origin, evolutionary mode and functions that repetitive sequences might have in the genome. Some, the satellite DNAs, are present in long arrays of similar motifs at a small number of sites, while others, particularly the transposable elements (DNA transposons and retrotranposons), are dispersed over regions of the genome; in both cases, sequence motifs may be located at relatively specific chromosome domains such as centromeres or subtelomeric regions. Here, we overview a range of works involving detailed characterization of the nature of all types of repetitive sequences, in particular their organization, abundance, chromosome localization, variation in sequence within and between chromosomes, and, importantly, the investigation of their transcription or expression activity. Comparison of the nature and locations of sequences between more, and less, related species is providing extensive information about their evolution and amplification. Some repetitive sequences are extremely well conserved between species, while others are among the most variable, defining differences between even closely relative species. These data suggest contrasting modes of evolution of repetitive DNA of different types, including selfish sequences that propagate themselves and may even be transferred horizontally between species rather than by descent, through to sequences that have a tendency to amplification because of their sequence motifs, to those that have structural significance because of their bulk rather than precise sequence. Functional consequences of repeats include generation of variability by movement and insertion in the genome (giving useful genetic markers), the definition of centromeres, expression under stress conditions and regulation of gene expression via RNA moieties. Molecular cytogenetics and bioinformatic studies in a comparative context are now enabling understanding of the nature and behaviour of this major genomic component.

show abstract

Transcription of subtelomere tandemly repetitive DNA in chicken embryogenesis

Cited by 9 publications

References 34 publications

Transcription of highly repetitive tandemly organized DNA in amphibians and birds: A historical overview and modern concepts

Transcription of highly repetitive tandemly organized DNA in amphibians and birds: A historical overview and modern concepts

History, Discovery, and Classification of lncRNAs

Repetitive DNA in eukaryotic genomes

Contact Info

Product

Resources

About