Rui Borges
Overview
Explore the profile of Rui Borges including associated specialties, affiliations and a list of published articles.
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16
Citations
705
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Recent Articles
1.
Braichenko S, Borges R, Kosiol C
Mol Biol Evol
. 2024 Jul;
41(7).
PMID: 38980178
The role of balancing selection is a long-standing evolutionary puzzle. Balancing selection is a crucial evolutionary process that maintains genetic variation (polymorphism) over extended periods of time; however, detecting it...
2.
Kotari I, Kosiol C, Borges R
Mol Biol Evol
. 2024 Apr;
41(5).
PMID: 38667829
Different frequencies amongst codons that encode the same amino acid (i.e. synonymous codons) have been observed in multiple species. Studies focused on uncovering the forces that drive such codon usage...
3.
Ribeiro D, Borges R, Rocha A, Antunes A
Bioinformatics
. 2023 Jul;
39(7).
PMID: 37490431
Summary: The phylogenetic signal, frequently used to identify signatures of adaptive evolution or important associations between genes and phenotypes, measures the tendency for recently diverged species to resemble each other...
4.
Barata C, Borges R, Kosiol C
J Evol Biol
. 2022 Dec;
36(1):29-44.
PMID: 36544394
For over a decade, experimental evolution has been combined with high-throughput sequencing techniques. In so-called Evolve-and-Resequence (E&R) experiments, populations are kept in the laboratory under controlled experimental conditions where their...
5.
Borges R, Boussau B, Szollosi G, Kosiol C
Genome Biol Evol
. 2022 Jan;
14(1).
PMID: 34983052
Despite the importance of natural selection in species' evolutionary history, phylogenetic methods that take into account population-level processes typically ignore selection. The assumption of neutrality is often based on the...
6.
Turakhia Y, De Maio N, Thornlow B, Gozashti L, Lanfear R, Walker C, et al.
PLoS Genet
. 2020 Nov;
16(11):e1009175.
PMID: 33206635
The SARS-CoV-2 pandemic has led to unprecedented, nearly real-time genetic tracing due to the rapid community sequencing response. Researchers immediately leveraged these data to infer the evolutionary relationships among viral...
7.
Borges R, Kosiol C
J Theor Biol
. 2019 Nov;
486:110074.
PMID: 31711991
Polymorphism-aware phylogenetic models (PoMo) constitute an alternative approach for species tree estimation from genome-wide data. PoMo builds on the standard substitution models of DNA evolution but expands the classic alphabet...
8.
Vlachos C, Burny C, Pelizzola M, Borges R, Futschik A, Kofler R, et al.
Genome Biol
. 2019 Aug;
20(1):169.
PMID: 31416462
Background: The combination of experimental evolution with whole-genome resequencing of pooled individuals, also called evolve and resequence (E&R) is a powerful approach to study the selection processes and to infer...
9.
Borges R, Fonseca J, Gomes C, Johnson W, OBrien S, Zhang G, et al.
Genome Biol Evol
. 2019 Aug;
11(8):2244-2255.
PMID: 31386143
Typical avian eyes are phenotypically engineered for photopic vision (daylight). In contrast, the highly derived eyes of the barn owl (Tyto alba) are adapted for scotopic vision (dim light). The...
10.
Borges R, Szollosi G, Kosiol C
Genetics
. 2019 Jun;
212(4):1321-1336.
PMID: 31147380
As multi-individual population-scale data become available, more complex modeling strategies are needed to quantify genome-wide patterns of nucleotide usage and associated mechanisms of evolution. Recently, the multivariate neutral Moran model...