Nandita R. Garud

The paper uses simulations to study how hitchhiking and repulsion of deleterious alleles affect linkage disequilibrium during selective sweeps, finding criss-crossing patterns and exceptions in empirical data.

The paper shows that microbial persistence under osmotic stress in Bacteroides thetaiotaomicron depends on both growth capacity and reduced cell loss.

The paper estimates gene-specific sweep origins in human gut microbiomes and finds that complex adaptations spread slowly due to low mutation rates and genetic constraints.

This study uses a domain-adaptive neural network to detect selective sweeps in ancient Eurasian genomes, finding that hard sweeps at loci related to neuronal, reproductive, pigmentation, and signaling traits persisted despite admixture.

The paper examines genetic diversity distribution in gut bacteria across different gut regions and finds it is uniform despite varying species composition.

This study identifies selective sweeps in human gut microbiomes, showing diet-driven adaptation and population-specific selection targets.

The paper uses live imaging of Drosophila gut colonization to show that Lactiplantibacillus plantarum recognizes a specific niche via a conserved colonization island.

This study uses multi-locus genotype identity scans on ancient DNA to detect natural selection in Holocene Europe, identifying new selection signals not found by single SNP approaches.

SNV-FEAST improves microbial source tracking by using signature SNVs instead of species abundance, showing better accuracy in three case studies.

This study shows that correcting background noise in microbiome data improves phenotype prediction by using unsupervised methods with appropriate transformations.

The paper links insecticide resistance in Drosophila melanogaster to structural variants and selective sweep loci using genome-wide association studies.