The evolutionary and functional significance of germline immunoglobulin gene variation

M Pennell, OL Rodriguez, CT Watson, V Greiff - Trends in immunology, 2023 - cell.com
The recombination between immunoglobulin (IG) gene segments determines an individual's
naïve antibody repertoire and, consequently,(auto) antigen recognition. Emerging evidence …

Mutation bias and the predictability of evolution

AV Cano, BL Gitschlag… - … of the Royal …, 2023 - royalsocietypublishing.org
Predicting evolutionary outcomes is an important research goal in a diversity of contexts.
The focus of evolutionary forecasting is usually on adaptive processes, and efforts to …

Neutral Models of De Novo Gene Emergence Suggest that Gene Evolution has a Preferred Trajectory

BR Iyengar, E Bornberg-Bauer - Molecular Biology and …, 2023 - academic.oup.com
New protein coding genes can emerge from genomic regions that previously did not contain
any genes, via a process called de novo gene emergence. To synthesize a protein, DNA …

Genomic diversity landscapes in outcrossing and selfing Caenorhabditis nematodes

AA Teterina, JH Willis, M Lukac, R Jovelin… - PLoS …, 2023 - journals.plos.org
Caenorhabditis nematodes form an excellent model for studying how the mode of
reproduction affects genetic diversity, as some species reproduce via outcrossing whereas …

Shifts in mutation spectra enhance access to beneficial mutations

M Sane, GD Diwan, BA Bhat… - Proceedings of the …, 2023 - National Acad Sciences
Biased mutation spectra are pervasive, with wide variation in the magnitude of mutational
biases that influence genome evolution and adaptation. How do such diverse biases …

Genomic legacies of ancient adaptation illuminate GC-content evolution in bacteria

W Teng, B Liao, M Chen, W Shu - Microbiology Spectrum, 2023 - Am Soc Microbiol
Bacterial evolution is characterized by strong purifying selection as well as rapid adaptive
evolution in changing environments. In this context, the genomic GC content (genomic GC) …

The sphingolipid anteome: implications for evolution of the sphingolipid metabolic pathway

TCB Santos, T Dingjan, AH Futerman - FEBS letters, 2022 - Wiley Online Library
Modern cell membranes contain a bewildering complexity of lipids, among them
sphingolipids (SLs). Advances in mass spectrometry have led to the realization that the …

Mutational biases favor complexity increases in protein interaction networks after gene duplication

AF Cisneros, L Nielly-Thibault, S Mallik… - Molecular Systems …, 2024 - embopress.org
Biological systems can gain complexity over time. While some of these transitions are likely
driven by natural selection, the extent to which they occur without providing an adaptive …

Predicting phenotype transition probabilities via conditional algorithmic probability approximations

K Dingle, JK Novev, SE Ahnert… - Journal of the Royal …, 2022 - royalsocietypublishing.org
Unravelling the structure of genotype–phenotype (GP) maps is an important problem in
biology. Recently, arguments inspired by algorithmic information theory (AIT) and …

Revisiting the role of genetic variation in adaptation

D Agashe, M Sane, S Singhal - The American Naturalist, 2023 - journals.uchicago.edu
Evolutionary biologists have thought about the role of genetic variation during adaptation for
a very long time—before we understood the organization of the genetic code, the …