Functional long non-coding RNAs evolve from junk transcripts

AF Palazzo, EV Koonin - Cell, 2020 - cell.com
Transcriptome studies reveal pervasive transcription of complex genomes, such as those of
mammals. Despite popular arguments for functionality of most, if not all, of these transcripts …

Genome-wide analysis of human long noncoding RNAs: a provocative review

CP Ponting, W Haerty - Annual review of genomics and human …, 2022 - annualreviews.org
Do long noncoding RNAs (lncRNAs) contribute little or substantively to human biology? To
address how lncRNA loci and their transcripts, structures, interactions, and functions …

Non-coding RNA: what is functional and what is junk?

AF Palazzo, ES Lee - Frontiers in genetics, 2015 - frontiersin.org
The genomes of large multicellular eukaryotes are mostly comprised of non-protein coding
DNA. Although there has been much agreement that a small fraction of these genomes has …

Platforms for investigating LncRNA functions

JL Charles Richard… - … : Translating Life Sciences …, 2018 - journals.sagepub.com
Prior to the sequencing of the human genome, it was presumed that most of the DNA coded
for proteins. However, with the advent of next-generation sequencing, it has now been …

Volatile evolution of long noncoding RNA repertoires: mechanisms and biological implications

A Kapusta, C Feschotte - Trends in Genetics, 2014 - cell.com
Thousands of genes encoding long noncoding RNAs (lncRNAs) have been identified in all
vertebrate genomes thus far examined. The list of lncRNAs partaking in arguably important …

De novo PacBio long-read and phased avian genome assemblies correct and add to reference genes generated with intermediate and short reads

J Korlach, G Gedman, SB Kingan, CS Chin… - …, 2017 - academic.oup.com
Reference-quality genomes are expected to provide a resource for studying gene structure,
function, and evolution. However, often genes of interest are not completely or accurately …

Long noncoding RNAs and repetitive elements: junk or intimate evolutionary partners?

H Lee, Z Zhang, HM Krause - TRENDS in Genetics, 2019 - cell.com
Our recent ability to sequence entire genomes, along with all of their transcribed RNAs, has
led to the surprising finding that only∼ 1% of the human genome is used to encode proteins …

The sponge microbiome project

L Moitinho-Silva, S Nielsen, A Amir, A Gonzalez… - …, 2017 - academic.oup.com
Rhododendron delavayi Franch. is globally famous as an ornamental plant. Its distribution in
southwest China covers several different habitats and environments. However, not much …

Regulatory activity is the default DNA state in eukaryotes

I Luthra, C Jensen, XE Chen, AL Salaudeen… - Nature Structural & …, 2024 - nature.com
Genomes encode for genes and non-coding DNA, both capable of transcriptional activity.
However, unlike canonical genes, many transcripts from non-coding DNA have limited …

[HTML][HTML] Discovery and functional analysis of lncRNAs: Methodologies to investigate an uncharacterized transcriptome

K Kashi, L Henderson, A Bonetti, P Carninci - Biochimica et Biophysica …, 2016 - Elsevier
It is known that more than 70% of mammalian genomes are transcribed, yet the vast majority
of transcripts do not code for proteins. Are these noncoding transcripts merely transcriptional …