Computational approaches to species phylogeny inference and gene tree reconciliation
L Nakhleh - Trends in ecology & evolution, 2013 - cell.com
An intricate relation exists between gene trees and species phylogenies, due to evolutionary
processes that act on the genes within and across the branches of the species phylogeny …
processes that act on the genes within and across the branches of the species phylogeny …
Evolution of intrinsic disorder in eukaryotic proteins
JB Ahrens, J Nunez-Castilla… - Cellular and Molecular …, 2017 - Springer
Conformational flexibility conferred though regions of intrinsic structural disorder allows
proteins to behave as dynamic molecules. While it is well-known that intrinsically disordered …
proteins to behave as dynamic molecules. While it is well-known that intrinsically disordered …
The universal distribution of evolutionary rates of genes and distinct characteristics of eukaryotic genes of different apparent ages
YI Wolf, PS Novichkov, GP Karev… - Proceedings of the …, 2009 - National Acad Sciences
The evolutionary rates of protein-coding genes in an organism span, approximately, 3
orders of magnitude and show a universal, approximately log-normal distribution in a broad …
orders of magnitude and show a universal, approximately log-normal distribution in a broad …
Origins of P450 diversity
H Sezutsu, G Le Goff… - … Transactions of the …, 2013 - royalsocietypublishing.org
The P450 enzymes maintain a conserved P450 fold despite a considerable variation in
sequence. The P450 family even includes proteins that lack the single conserved cysteine …
sequence. The P450 family even includes proteins that lack the single conserved cysteine …
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 …
genomes. Several processes have been described that lead to duplicate gene retention …
Inference of ancient polyploidy from genomic data
H Chen, A Zwaenepoel - Polyploidy: Methods and protocols, 2023 - Springer
Whole-genome sequence data have revealed that numerous eukaryotic organisms derive
from distant polyploid ancestors, even when these same organisms are genetically and …
from distant polyploid ancestors, even when these same organisms are genetically and …
Extracting functional trends from whole genome duplication events using comparative genomics
Background The number of species with completed genomes, including those with evidence
for recent whole genome duplication events has exploded. The recently sequenced Atlantic …
for recent whole genome duplication events has exploded. The recently sequenced Atlantic …
Whole-genome duplications in the ancestral vertebrate are detectable in the distribution of gene family sizes of tetrapod species
T Hughes, DA Liberles - Journal of molecular evolution, 2008 - Springer
A clustering of all protein coding genes from the complete genomes of five tetrapod species
into gene families shows a clear deviation from the expected power-law distribution of gene …
into gene families shows a clear deviation from the expected power-law distribution of gene …
Identification of abdominal aortic aneurysm subtypes based on mechanosensitive genes
C Sheng, Q Zeng, W Huang, M Liao, P Yang - Plos one, 2024 - journals.plos.org
Background Rupture of abdominal aortic aneurysm (rAAA) is a fatal event in the elderly.
Elevated blood pressure and weakening of vessel wall strength are major risk factors for this …
Elevated blood pressure and weakening of vessel wall strength are major risk factors for this …
The evolution of vertebrate tetraspanins: gene loss, retention, and massive positive selection after whole genome duplications
S Huang, H Tian, Z Chen, T Yu, A Xu - BMC evolutionary biology, 2010 - Springer
Background The vertebrate tetraspanin family has many features which make it suitable for
preserving the imprint of ancient sequence evolution and amenable for phylogenomic …
preserving the imprint of ancient sequence evolution and amenable for phylogenomic …