Arrangements in the modular evolution of proteins
It has been known for the last couple of decades that proteins evolve partly through
rearrangements of larger fragments, typically domains. These units are considered the basic …
rearrangements of larger fragments, typically domains. These units are considered the basic …
Spliceosomal introns as tools for genomic and evolutionary analysis
Over the past 5 years, the availability of dozens of whole genomic sequences from a wide
variety of eukaryotic lineages has revealed a very large amount of information about the …
variety of eukaryotic lineages has revealed a very large amount of information about the …
Patterns of Intron Loss and Gain in Plants: Intron Loss–Dominated Evolution and Genome-Wide Comparison of O. sativa and A. thaliana
Numerous previous studies have elucidated 2 surprising patterns of spliceosomal intron
evolution in diverse eukaryotes over the past roughly 100 Myr. First, rates of recent intron …
evolution in diverse eukaryotes over the past roughly 100 Myr. First, rates of recent intron …
Decelerated genome evolution in modern vertebrates revealed by analysis of multiple lancelet genomes
S Huang, Z Chen, X Yan, T Yu, G Huang, Q Yan… - Nature …, 2014 - nature.com
Vertebrates diverged from other chordates~ 500 Myr ago and experienced successful
innovations and adaptations, but the genomic basis underlying vertebrate origins are not …
innovations and adaptations, but the genomic basis underlying vertebrate origins are not …
The evolutionary mechanics of domain organization in proteomes and the rise of modularity in the protein world
M Wang, G Caetano-Anollés - Structure, 2009 - cell.com
Protein domains are compact evolutionary units of structure and function that usually
combine in proteins to produce complex domain arrangements. In order to study their …
combine in proteins to produce complex domain arrangements. In order to study their …
A Very High Fraction of Unique Intron Positions in the Intron-Rich Diatom Thalassiosira pseudonana Indicates Widespread Intron Gain
Although spliceosomal introns are present in all characterized eukaryotes, intron numbers
vary dramatically, from only a handful in the entire genomes of some species to nearly 10 …
vary dramatically, from only a handful in the entire genomes of some species to nearly 10 …
Domain shuffling and the evolution of vertebrates
T Kawashima, S Kawashima, C Tanaka… - Genome …, 2009 - genome.cshlp.org
The evolution of vertebrates has included a number of important events: the development of
cartilage, the immune system, and complicated craniofacial structures. Here, we examine …
cartilage, the immune system, and complicated craniofacial structures. Here, we examine …
Nucleotide-level distance metrics to quantify alternative splicing implemented in TranD
Advances in affordable transcriptome sequencing combined with better exon and gene
prediction has motivated many to compare transcription across the tree of life. We develop a …
prediction has motivated many to compare transcription across the tree of life. We develop a …
How do new proteins arise?
Proteins are surreptitious cellular agents: while robust against mutations they are very
evolvable; most are marginally stable and dynamic but others form a stable cellular matrix …
evolvable; most are marginally stable and dynamic but others form a stable cellular matrix …
Emergence of novel domains in proteins
M Toll-Riera, MM Albà - BMC evolutionary biology, 2013 - Springer
Background Proteins are composed of a combination of discrete, well-defined, sequence
domains, associated with specific functions that have arisen at different times during …
domains, associated with specific functions that have arisen at different times during …