M. T. P. Gilbert

A genomic exploration of the possible de-extirpation of the Zanzibar leopard

The paper genomically analyzes two Zanzibar leopard specimens to assess their suitability for reintroduction, finding close genetic ties to mainland East African leopards and no unique adaptive traits.

Redefining rock doves, Columba livia, using historical whole genome sequences

This study uses historical whole-genome sequences of rock doves to redefine their taxonomy, population structure, and domestication history.

Conservation implications of elucidating the Korean wolf taxonomic ambiguity through whole-genome sequencing

This study uses whole-genome sequencing to resolve the taxonomic status of the Korean wolf, finding it genetically similar to other East Asian wolves and not a distinct lineage.

Genetic load and adaptive potential of a recovered avian species that narrowly avoided extinction

The paper examines genetic diversity and adaptive potential in the Seychelles paradise flycatcher, showing reduced genetic diversity and masked deleterious mutations after a population bottleneck.

Ancient DNA Reveals China as a Historical Genetic Melting Pot in Tiger Evolution

This study uses ancient DNA to trace tiger evolution, revealing China as a genetic melting pot and resolving taxonomic disputes among tiger subspecies.

Species-specific traits mediate avian demographic responses under past climate change

The paper reconstructs demographic histories of 263 bird species using whole-genome sequences and identifies trait networks influencing population size changes in response to climate warming and cooling.

The genomic basis of the plant island syndrome in Darwin's giant daisies

This study characterizes the genomic basis of the plant island syndrome in Darwin's giant daisies by analyzing the genome of Scalesia atractyloides, identifying subgenomes, polyploidization events, and genes under selection.

The Rhizosphere Bacterial Communities Differ Among Domesticated Maize Landraces - An Experimental Confirmation

This study confirms that genomic variation in maize landraces is associated with differences in rhizosphere bacterial communities using controlled experiments and 16S rRNA metabarcoding.

Archival influenza virus genomes from Europe reveal genomic and phenotypic variability during the 1918 pandemic

Pleistocene stickleback genomes reveal the constraints on parallel evolution

Pleistocene stickleback genomes show that freshwater adaptation involves loss of ancestral variation and incomplete adaptation due to founder effects.

The germline mutational process in rhesus macaque and its implications for phylogenetic dating

The paper estimates the germline mutation rate in rhesus macaques and finds paternal age correlation, male contribution dominance, and divergence time implications for primate phylogeny.

Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum)

The paper analyzes genomic changes in white rhinoceros subspecies before and after population declines, finding reduced genetic diversity and increased inbreeding in both.

Runs of homozygosity in killer whale genomes provide a global record of demographic histories

This study uses genome-wide runs of homozygosity in killer whale genomes to infer demographic histories and patterns of inbreeding across different populations.

On the origin and evolution of RNA editing in metazoans

The paper investigates the origin and evolution of A-to-I RNA editing in metazoans, finding it emerged in the common ancestor and is nonadaptive in most regions except for specific taxa.

Contrasting dates of rainforest fragmentation in Africa inferred from trees with different dispersal abilities

The paper uses genetic data from five Legume tree species to infer past rainforest fragmentation in Africa, finding split dates compatible with ice-age climatic oscillations and contrasting recolonization abilities based on dispersal traits.

hilldiv: an R package for the integral analysis of diversity based on Hill numbers

The paper introduces an R package called hilldiv for analyzing diversity using Hill numbers, with functions for measuring, plotting, comparing, and partitioning diversity from OTU tables and phylogenetic trees.

Diet diversification shapes broad-scale distribution patterns in European bats

This study links dietary diversification to broad-scale bat distribution patterns by analyzing trophic and spatial niche breadths across seven European bat species.

Assembly-free and alignment-free sample identification using genome skims

The paper introduces Skmer, an alignment-free tool that uses k-mer decomposition to estimate genomic distances from genome skims, achieving high accuracy in identifying closest matches and inferring phylogeny.

Host-derived population genomics data provides insights into bacterial and diatom composition of the killer whale skin

The paper uses host shotgun sequencing data to characterize the skin microbiome of killer whales and shows how social and geographic factors influence microbial community composition.

Modern wolves trace their origin to a late Pleistocene expansion from Beringia

This study traces the origin of modern wolves to a late Pleistocene expansion from Beringia, using ancient mitochondrial genomes and spatial-temporal modeling.

Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica

The study analyzes an 800-year-old Paratyphi C genome to show its origin from swine pathogens and its long history as a human pathogen.