Mahul Chakraborty

The paper shows that the Su(Ste) Y-linked repeat array in Drosophila is organized into domains with conserved structure, which constrains gene conversion and copy-number dynamics.

The paper resolves centromere structure in Drosophila, showing conserved architectural domains despite DNA sequence variation.

The paper investigates the role of structural variants in Drosophila phenotypes using long-read sequencing, finding that SVs disproportionately contribute to deleterious visible traits.

This study assembles and analyzes repetitive genomic regions in Drosophila melanogaster, revealing structural variation and mechanisms of concerted evolution in histone and Stellate clusters.

This study identifies structural variants in Anopheles stephensi that contribute to its adaptive success in invasive environments.

The paper benchmarks and evaluates SVGAP, a pipeline for structural variant discovery, genotyping, and annotation in whole-genome assemblies, showing its effectiveness in maize genomes.

The paper reports the genome assembly of Anopheles stephensi, identifies a 16 Mbp inversion associated with adaptation, and shows its prevalence in both wild and laboratory populations.

The paper generates high-quality genomes for Drosophila simulans species complex to study repetitive DNA evolution and structural divergence between species.

The paper generates a high-quality genome assembly for Anopheles stephensi, identifies novel genomic features, and reveals hidden genetic elements contributing to insecticide resistance and male development.

The paper describes two synthetic outcrossed yeast populations for complex trait analysis, showing high recombination and accurate haplotype frequency estimation from pooled sequencing data.

The paper studies the physiological and genomic adaptations of a marine herbivorous fish to its diet, identifying gene family expansions and expression changes related to carbohydrate and lipid digestion.

The paper identifies numerous structural variants in Drosophila genomes and shows they contribute to complex trait variation through allelic heterogeneity.

The paper presents a low-cost method to assemble the Drosophila melanogaster reference genome using long-read sequencing and optical mapping, revealing structural variants and demonstrating cost-effective genome assembly.

The paper identifies extensive hidden genetic variation in Drosophila melanogaster by assembling a new reference genome and comparing it to the existing one, revealing structural variants linked to phenotypic traits.

The paper analyzes long molecule sequencing data to improve genome assembly contiguity and completeness, presenting a hybrid approach that achieves high-quality assemblies with modest coverage.