Onco-Breastomics: An Eco-Evo-Devo Holistic Approach

AN Neagu, D Whitham, P Bruno, A Arshad… - International Journal of …, 2024 - mdpi.com
Known as a diverse collection of neoplastic diseases, breast cancer (BC) can be
hyperbolically characterized as a dynamic pseudo-organ, a living organism able to build a …

Next-generation data filtering in the genomics era

W Hemstrom, JA Grummer, G Luikart… - Nature Reviews …, 2024 - nature.com
Genomic data are ubiquitous across disciplines, from agriculture to biodiversity, ecology,
evolution and human health. However, these datasets often contain noise or errors and are …

The genome-wide signature of short-term temporal selection

M Lynch, W Wei, Z Ye, M Pfrender - … of the National Academy of Sciences, 2024 - pnas.org
Despite evolutionary biology's obsession with natural selection, few studies have evaluated
multigenerational series of patterns of selection on a genome-wide scale in natural …

Evolutionary insights from a large-scale survey of population-genomic variation

Z Ye, W Wei, ME Pfrender… - Molecular biology and …, 2023 - academic.oup.com
The field of genomics has ushered in new methods for studying molecular-genetic variation
in natural populations. However, most population-genomic studies still rely on small sample …

[PDF][PDF] The Linkage-Disequilibrium and Recombinational Landscape in Daphnia pulex

M Lynch, Z Ye, L Urban, T Maruki… - Genome biology and …, 2022 - academic.oup.com
By revealing the influence of recombinational activity beyond what can be achieved with
controlled crosses, measures of linkage disequilibrium (LD) in natural populations provide a …

Population Genomics of the Facultatively Sexual Liverwort Marchantia polymorpha

G Sandler, AF Agrawal, SI Wright - Genome Biology and …, 2023 - academic.oup.com
The population genomics of facultatively sexual organisms are understudied compared with
their abundance across the tree of life. We explore patterns of genetic diversity in two …

Evolutionary Genomics of Sister Species Differing in Effective Population Sizes and Recombination Rates

Z Ye, ME Pfrender, M Lynch - Genome biology and evolution, 2023 - academic.oup.com
Studies of closely related species with known ecological differences provide exceptional
opportunities for understanding the genetic mechanisms of evolution. In this study, we …

No recombination suppression in asexually produced males of Daphnia pulex

C Molinier, T Lenormand, CR Haag - Evolution, 2023 - academic.oup.com
Obligate parthenogenesis (OP) is often thought to evolve by disruption of reductional
meiosis and suppression of crossover recombination. In the crustacean Daphnia pulex, OP …

Copy number and sequence variation in rDNA of Daphnia pulex from natural populations: insights from whole-genome sequencing

A Elguweidi, T Crease - G3: Genes, Genomes, Genetics, 2024 - academic.oup.com
Ribosomal DNA (rDNA) has a vital role in ribosome biogenesis as it contains the genes that
encode ribosomal RNA (rRNA) separated by intergenic spacers (IGSs). The rRNA genes …

Genetic Diversity, Heteroplasmy, and Recombination in Mitochondrial Genomes of Daphnia pulex, Daphnia pulicaria, and Daphnia obtusa

Z Ye, C Zhao, RT Raborn, M Lin, W Wei… - Molecular biology …, 2022 - academic.oup.com
Genetic variants of mitochondrial DNA at the individual (heteroplasmy) and population
(polymorphism) levels provide insight into their roles in multiple cellular and evolutionary …