André M. Machado

The paper analyzes the evolution of CLDN18 across vertebrates, showing gene loss, alternative splicing, and regulatory changes linked to stomach loss and pleiotropy.

The paper investigates the evolution of sperm energetics in mammals by analyzing gene duplication and loss of Atp1a4, revealing its role in sodium-dependent glucose uptake and subsequent pseudogenization in three lineages.

The paper presents a phased whole genome assembly for Atlantic bluefin tuna using PacBio HiFi and Omni-C scaffolding, enabling improved phylogenomic and evolutionary studies.

The paper provides a de novo transcriptome assembly and gene expression analysis for the vulnerable freshwater fish Thymallus ligericus, offering a foundational resource for future conservation and research.

The paper identifies novel mitochondrial genome structural arrangements in deep-sea hatchetfish and Antarctic notothenioid fishes, revealing rare inversions and compositional asymmetry changes.

The paper presents an improved genome assembly for Margaritifera margaritifera using long-read and short-read sequencing, resulting in a more contiguous and accurate reference genome.

The paper presents the first genome assembly of the Iberian dolphin freshwater mussel Unio delphinus using PacBio HiFi technology, resulting in a highly contiguous genome.

The paper presents a de novo transcriptome assembly of the annelid worm Hediste diversicolor using Illumina sequencing, resulting in a comprehensive resource for biological studies.

The paper presents a high-quality genome assembly for the Atlantic chub mackerel, providing a resource for studying its biology and fisheries management.

This study assembles and analyzes the gonad transcriptome of Paracentrotus lividus, identifying sex-related and lipid biosynthesis genes through differential expression analysis.

The paper presents the first draft genome assembly of the European freshwater pearl mussel Margaritifera margaritifera using Illumina sequencing technologies.

The paper traces the evolutionary expansion, retention, and loss of the ACSBG gene family in vertebrates, identifying a new lineage ACSBG3 and duplication in the Theria ancestor.