The Atlantic salmon genome provides insights into rediploidization

S Lien, BF Koop, SR Sandve, JR Miller, MP Kent… - Nature, 2016 - nature.com
The whole-genome duplication 80 million years ago of the common ancestor of salmonids
(salmonid-specific fourth vertebrate whole-genome duplication, Ss4R) provides unique …

De novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole-genome duplication

Z Chen, Y Omori, S Koren, T Shirokiya, T Kuroda… - Science …, 2019 - science.org
For over a thousand years, the common goldfish (Carassius auratus) was raised throughout
Asia for food and as an ornamental pet. As a very close relative of the common carp …

Evolutionary driving forces of A‐to‐I editing in metazoans

Y Duan, X Tang, J Lu - Wiley Interdisciplinary Reviews: RNA, 2022 - Wiley Online Library
Abstract Adenosine‐to‐inosine (A‐to‐I) RNA editing is an evolutionarily conserved
mechanism that converts adenosines to inosines in metazoans' transcriptomes. However …

Phylogenomics of prokaryotic ribosomal proteins

N Yutin, P Puigbò, EV Koonin, YI Wolf - PloS one, 2012 - journals.plos.org
Archaeal and bacterial ribosomes contain more than 50 proteins, including 34 that are
universally conserved in the three domains of cellular life (bacteria, archaea, and …

Transporter proteins as ecological assets and features of microbial eukaryotic Pangenomes

DS Milner, LJ Galindo, NAT Irwin… - Annual Review of …, 2023 - annualreviews.org
Here we review two connected themes in evolutionary microbiology:(a) the nature of gene
repertoire variation within species groups (pangenomes) and (b) the concept of metabolite …

Comparative gene retention analysis in barley, wild emmer, and bread wheat pangenome lines reveals factors affecting gene retention following gene duplication

Y Jia, M Xu, H Hu, B Chapman, C Watt, B Buerte… - BMC biology, 2023 - Springer
Background Gene duplication is a prevalent phenomenon and a major driving force
underlying genome evolution. The process leading to the fixation of gene duplicates …

Structural and agonist properties of XCL2, the other member of the C-chemokine subfamily

JC Fox, T Nakayama, RC Tyler, TL Sander, O Yoshie… - Cytokine, 2015 - Elsevier
Known for its unusual metamorphic native state structure, XCL1 has been the focus of most
efforts to elucidate the structural, functional, and physiological properties of chemokines in …

Compensatory drift and the evolutionary dynamics of dosage-sensitive duplicate genes

A Thompson, HH Zakon, M Kirkpatrick - Genetics, 2016 - academic.oup.com
Dosage-balance selection preserves functionally redundant duplicates (paralogs) at the
optimum for their combined expression. Here we present a model of the dynamics of …

Toward a general model for the evolutionary dynamics of gene duplicates

A Konrad, AI Teufel, JA Grahnen… - Genome biology and …, 2011 - academic.oup.com
Gene duplication is an important process in the functional divergence of genes and
genomes. Several processes have been described that lead to duplicate gene retention …

The generality of constructive neutral evolution

TDP Brunet, WF Doolittle - Biology & Philosophy, 2018 - Springer
Abstract Constructive Neutral Evolution (CNE) is an evolutionary mechanism that can
explain much molecular inter-dependence and organismal complexity without assuming …