[PDF][PDF] 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 …

[HTML][HTML] The dynamism of transposon methylation for plant development and stress adaptation

M Ramakrishnan, L Satish, R Kalendar… - International Journal of …, 2021 - mdpi.com
Plant development processes are regulated by epigenetic alterations that shape nuclear
structure, gene expression, and phenotypic plasticity; these alterations can provide the plant …

Unique Features of the Loblolly Pine (Pinus taeda L.) Megagenome Revealed Through Sequence Annotation

JL Wegrzyn, JD Liechty, KA Stevens, LS Wu… - Genetics, 2014 - academic.oup.com
The largest genus in the conifer family Pinaceae is Pinus, with over 100 species. The size
and complexity of their genomes (∼ 20–40 Gb, 2 n= 24) have delayed the arrival of a well …

[HTML][HTML] Transposable elements and genome size variations in plants

SI Lee, NS Kim - Genomics & informatics, 2014 - ncbi.nlm.nih.gov
Although the number of protein-coding genes is not highly variable between plant taxa, the
DNA content in their genomes is highly variable, by as much as 2,056-fold from a 1C amount …

[HTML][HTML] Annotation of Siberian larch (Larix sibirica Ledeb.) nuclear genome—One of the most cold-resistant tree species in the only deciduous genus in Pinaceae

EI Bondar, SI Feranchuk, KA Miroshnikova, VV Sharov… - Plants, 2022 - mdpi.com
The recent release of the nuclear, chloroplast and mitochondrial genome assemblies of
Siberian larch (Larix sibirica Ledeb.), one of the most cold-resistant tree species in the only …

[HTML][HTML] C. elegans Germ Cells Show Temperature and Age-Dependent Expression of Cer1, a Gypsy/Ty3-Related Retrotransposon

S Dennis, U Sheth, JL Feldman, KA English… - PLoS …, 2012 - journals.plos.org
Virus-like particles (VLPs) have not been observed in Caenorhabditis germ cells, although
nematode genomes contain low numbers of retrotransposon and retroviral sequences. We …

The C-and G-value paradox with polyploidy, repeatomes, introns, phenomes and cell economy

IY Choi, EC Kwon, NS Kim - Genes & genomics, 2020 - Springer
Background The apparent disconnection between biological complexity and both genome
size (C-value) and gene number (G-value) is one of the long-standing biological puzzles …

TE-greedy-nester: structure-based detection of LTR retrotransposons and their nesting

M Lexa, P Jedlicka, I Vanat, M Cervenansky… - …, 2020 - academic.oup.com
Abstract Motivation Transposable elements (TEs) in eukaryotes often get inserted into one
another, forming sequences that become a complex mixture of full-length elements and their …

[HTML][HTML] Insights into the loblolly pine genome: characterization of BAC and fosmid sequences

JL Wegrzyn, BY Lin, JJ Zieve, WM Dougherty… - PLoS …, 2013 - journals.plos.org
Despite their prevalence and importance, the genome sequences of loblolly pine, Norway
spruce, and white spruce, three ecologically and economically important conifer species, are …

[HTML][HTML] Shaping plant adaptability, genome structure and gene expression through transposable element epigenetic control: focus on methylation

L Galindo-González, F Sarmiento, MA Quimbaya - Agronomy, 2018 - mdpi.com
In plants, transposable elements (TEs) represent a large fraction of the genome, with
potential to alter gene expression and produce genomic rearrangements. Epigenetic control …