Tyler Alioto

The paper generates high-quality genome assemblies for two manta and devil ray species and identifies structural variations linked to pelagic adaptation.

The paper presents the chromosome-level genome assembly of Valencia hispanica, a critically endangered fish, to support conservation and ecological studies.

This study identifies melanogenesis gene mutations that alter feather photonic nanostructures, causing iridescent color changes in peafowl and wild birds.

The paper presents genomic resources for Hyalomma lusitanicum and its Francisella endosymbiont, providing insights into host-symbiont evolution and disease transmission.

The paper shows that resistance to a virus in Ostreococcus mediterraneus evolves rapidly through chromoplexy-driven structural variations on a single chromosome, without consistent SNPs or shared structural variants.

The paper presents the chromosome-level genome assembly of Stigmatoteuthis arcturi, providing insights into the evolutionary biology of deep-sea squids.

The paper identifies over-expression and copy number variation of cytochrome P450 and UDP-glucuronosyltransferase genes in ML-resistant Psoroptes ovis mites from cattle.

The paper presents a chromosome-level genome assembly of the Hispid cotton rat, annotating 24,878 protein-coding genes and identifying genetic innovations.

The paper analyzes the genomes of spider monkeys and northern muriquis to assess genetic diversity, load, and divergence, finding no alignment between genetic diversity and endangerment status, higher genetic load in wild populations, and divergence linked to environmental factors.

The paper presents the reference genome of Coenonympha oedippus, an endangered butterfly, to study genetic mechanisms of adaptation to two ecotypes and support conservation efforts.

The paper presents the genome assembly of Loboptera subterranea, a cave-adapted cockroach, providing insights into its adaptation to subterranean environments.

This paper presents the first chromosome-level genome assembly and annotation for the red coral Corallium rubrum, providing genomic resources for conservation and population genomics studies.

The paper presents a chromosome-level reference genome for Phyllidia flava, a Mediterranean nudibranch, to aid conservation and phylogenetic studies.

The paper presents the reference genome of Erebia palarica, enabling studies on speciation, hybridization, and population genetics.

The paper presents the reference genome of the Spanish Moon Moth Graellsia isabellae, which helps resolve its scientific name and supports genetic monitoring of the species.

The paper presents a chromosome-level reference genome for the striped field mouse, providing resources for phylogenetic studies and understanding its geographical distribution.

The paper presents the first reference genome of Gluvia dorsalis, a sun spider, providing insights into its adaptation to arid environments and arachnid evolution.

The paper presents a chromosome-level reference genome for the Northern chamois, providing insights into its genetic adaptation to extreme environments.

The paper describes the European Reference Genome Atlas (ERGA) pilot project, which tests a decentralized model for producing high-quality reference genomes across 98 European species.

This study sequenced the Draparnaldia genome and transcriptomes, revealing expanded gene families linked to multicellularity and terrestrial adaptations, and its ability to synthesize phytohormones used by land plants.

The paper presents a chromosome-level genome assembly for the common octopus, O. vulgaris, which spans 2.8 billion basepairs and supports a karyotype of 1n=30 chromosomes.

The paper presents a chromosome-level genome assembly for Podarcis lilfordi, revealing genomic features and similarities with a related species.

The paper presents a chromosome-level genome assembly for Senegalese sole, identifies the follicle stimulating hormone receptor (fshr) as the master sex determining gene, and shows its differential expression and allelic variation between sexes.

The paper presents the genome sequence of Paramuricea clavata, a Mediterranean octocoral, to study genetic factors underlying differential responses to thermal stress and support conservation efforts.

The paper identifies a pan-genome in the Mediterranean mussel with 25% of genes subject to presence/absence variation, suggesting an adaptive strategy for resilience and invasiveness.

The paper assembles and annotates the larval transcriptomes of two spadefoot toads with divergent developmental rates to study adaptations to different aquatic habitats.

The paper estimates the almond genome size and assembly, identifies transposable elements (TEs) as key drivers of divergence between almond and peach genomes, and highlights TE insertions affecting gene expression in traits like kernel taste and mesocarp formation.

The paper develops a method to sequence and assemble a human Y chromosome of African origin using native DNA and nanopore sequencing, achieving high continuity and enabling epigenetic modification detection.