Practical application of the linkage disequilibrium method for estimating contemporary effective population size: A review

RS Waples - Molecular Ecology Resources, 2024 - Wiley Online Library
The method to estimate contemporary effective population size (N e) based on patterns of
linkage disequilibrium (LD) at unlinked loci has been widely applied to natural and …

What Is Ne, Anyway?

RS Waples - Journal of Heredity, 2022 - academic.oup.com
Few doubt that effective population size (N e) is one of the most important parameters in
evolutionary biology, but how many can say they really understand the concept? N e is the …

Celebrating Mendel, McClintock, and Darlington: on end-to-end chromosome fusions and nested chromosome fusions

MA Lysak - The Plant Cell, 2022 - academic.oup.com
The evolution of eukaryotic genomes is accompanied by fluctuations in chromosome
number, reflecting cycles of chromosome number increase (polyploidy and centric fissions) …

3D chromatin remodelling in the germ line modulates genome evolutionary plasticity

L Álvarez-González, F Burden, D Doddamani… - Nature …, 2022 - nature.com
Chromosome folding has profound impacts on gene regulation, whose evolutionary
consequences are far from being understood. Here we explore the relationship between 3D …

Pseudoreplication in genomic‐scale data sets

RS Waples, RK Waples, EJ Ward - Molecular Ecology …, 2022 - Wiley Online Library
In genomic‐scale data sets, loci are closely packed within chromosomes and hence provide
correlated information. Averaging across loci as if they were independent creates …

Comparative linkage mapping uncovers recombination suppression across massive chromosomal inversions associated with local adaptation in Atlantic silversides

M Akopyan, A Tigano, A Jacobs, AP Wilder… - Molecular …, 2022 - Wiley Online Library
The role of recombination in genome evolution has long been studied in theory, but until
recently empirical investigations had been limited to a small number of model species. Here …

Chromosome size affects sequence divergence between species through the interplay of recombination and selection

A Tigano, R Khan, AD Omer, D Weisz, O Dudchenko… - …, 2022 - academic.oup.com
The structure of the genome shapes the distribution of genetic diversity and sequence
divergence. To investigate how the relationship between chromosome size and …

Polyploidy does not control all: Lineage‐specific average chromosome length constrains genome size evolution in ferns

HM Liu, L Ekrt, P Koutecky, J Pellicer… - … of Systematics and …, 2019 - Wiley Online Library
Recent studies investigating the evolution of genome size diversity in ferns have shown that
they have a distinctive genome profile compared with other land plants. Ferns are typically …

[PDF][PDF] Synteny-Based Genome Assembly for 16 Species of Heliconius Butterflies, and an Assessment of Structural Variation across the Genus

FA Seixas, NB Edelman, J Mallet - Genome Biology and …, 2021 - academic.oup.com
Abstract Heliconius butterflies (Lepidoptera: Nymphalidae) are a group of 48 neotropical
species widely studied in evolutionary research. Despite the wealth of genomic data …

Making a long story short: noncoding RNAs and chromosome change

JD Brown, SE Mitchell, RJ O'neill - Heredity, 2012 - nature.com
As important as the events that influence selection for specific chromosome types in the
derivation of novel karyotypes, are the events that initiate the changes in chromosome …