Transposable Elements: Parasites that Shape Genome Evolution

A BONNET, K CASIER, C CARRÉ… - … and Evolution of …, 2023 - books.google.com
genomes such as Saccharomyces cerevisiae (70% of coding sequences), the proportion of
TEs in the genomes … Some examples are presented here for different species: baker's yeast (…

[PDF][PDF] Phylogenomics and genome annotation

A Necsulea - Phylogenetics in the Genomic Era, 2020 - hal.science
… to detect bona fide protein-coding genes in yeast and fruitfly genomes: the reading frame …
a genomic element is involved. For example, genome-wide scans for evolutionarily conserved

The evolutionary history of vertebrate adhesion GPCRs and its implication on their classification

A Wittlake, S Prömel, T Schöneberg - International Journal of Molecular …, 2021 - mdpi.com
… of available genome data, we determined the aGPCR repertoires in all vertebrate classes.
Although most aGPCR families show a high numerical stability in vertebrate genomes, the full …

dbCNS: a new database for conserved noncoding sequences

J Inoue, N Saitou - Molecular biology and evolution, 2021 - academic.oup.com
… many vertebrate genomes into dbCNS, which allows users to extract CNSs near genes of
interest using keyword searches. In addition to CNSs, dbCNS contains published genome

[HTML][HTML] Uncovering DNA-PKcs ancient phylogeny, unique sequence motifs and insights for human disease

JP Lees-Miller, A Cobban, P Katsonis, A Bacolla… - Progress in biophysics …, 2021 - Elsevier
… We did not detect DNA-PKcs in Dikarya fungi (yeast, mushrooms) or in Euphyllophyte plants
… abruptly in evolution by transposition of the RAG genes into jawed vertebrates (Market and …

Evolution of Conserved Noncoding Sequences in Arabidopsis thaliana

AE Yocca, Z Lu, RJ Schmitz, M Freeling… - … Biology and Evolution, 2021 - academic.oup.com
… We found PosV CNS occur closer to genes than if they randomly move around the genome
(… to positionally conserved (collinear) CNS. This revealed PosV CNS occur further from genes

Evolutionary constraint and innovation across hundreds of placental mammals

MJ Christmas, IM Kaplow, DP Genereux, MX Dong… - Science, 2023 - science.org
… comparative genomics … -genome alignment of 240 placental mammals representing all
orders. We estimate that at least 10.7% of the human genome is evolutionarily conserved relative …

Transposon-derived transcription factors across metazoans

K Mukherjee, LL Moroz - Frontiers in Cell and Developmental Biology, 2023 - frontiersin.org
… Using tblastn searches against target genomes we first … phyla with the sequenced genomes,
including two bilaterians (… acting to maintain evolutionarily conserved sets of amino acid …

[HTML][HTML] Diversity and evolution of the P450 family in arthropods

W Dermauw, T Van Leeuwen, R Feyereisen - Insect biochemistry and …, 2020 - Elsevier
… large variations in the number of P450 genes in each genome (the CYPome), as well as
large variations in the composition of each CYPome over the 500 MY of arthropod evolution. …

Conserved patterns in developmental processes and phases, rather than genes, unite the highly divergent Bilateria

L Ferretti, A Krämer-Eis, PH Schiffer - Life, 2020 - mdpi.com
… comparative genomic approach, we aimed to identify genes … with a fully sequenced and
annotated genome (Table 1). We … , since well-annotated complete genome sequences from …