Erich D. Jarvis

2 months ago | nature.com | Simona Secomandi |Guido Roberto Gallo |Riccardo Rossi |Carlos Fernandes |Erich D. Jarvis |Andrea Bonisoli-Alquati | +1 more

Correction to: Nature Genetics https://doi.org/10.1038/s41588-024-02029-6, published online 8 January 2025. In the version of the article initially published, in Box 3, “(1.7 Gb versus 0.5 Mb)” should have read “(1.7 Gb versus 0.5 Gb)” and has now been corrected in the HTML and PDF versions of the article. About this articleSecomandi, S., Gallo, G.R., Rossi, R. et al. Author Correction: Pangenome graphs and their applications in biodiversity genomics. Nat Genet (2025).

Jan 8, 2025 | nature.com | Simona Secomandi |Guido Roberto Gallo |Riccardo Rossi |Carlos Fernandes |Erich D. Jarvis |Andrea Bonisoli-Alquati | +1 more

AbstractComplete datasets of genetic variants are key to biodiversity genomic studies. Long-read sequencing technologies allow the routine assembly of highly contiguous, haplotype-resolved reference genomes. However, even when complete, reference genomes from a single individual may bias downstream analyses and fail to adequately represent genetic diversity within a population or species.

Nov 19, 2024 | nature.com | Melissa Rincon-Sandoval |Linelle Abueg |Giulio Formenti |Erich D. Jarvis |Dahiana Arcila |Aaron Davis

AbstractHabitat transitions have shaped the evolutionary trajectory of many clades. Sea catfishes (Ariidae) have repeatedly undergone ecological transitions, including colonizing freshwaters from marine environments, leading to an adaptive radiation in Australia and New Guinea alongside non-radiating freshwater lineages elsewhere. Here, we generate and analyze one long-read reference genome and 66 short-read whole genome assemblies, in conjunction with genomic data for 54 additional species.

Apr 22, 2024 | nature.com | Matteo Sebastianelli |Sifiso M. Lukhele |Simona Secomandi |Olivier Fedrigo |Ara Monadjem |Niels J. Dingemanse | +2 more

AbstractVocal rhythm plays a fundamental role in sexual selection and species recognition in birds, but little is known of its genetic basis due to the confounding effect of vocal learning in model systems. Uncovering its genetic basis could facilitate identifying genes potentially important in speciation. Here we investigate the genomic underpinnings of rhythm in vocal non-learning Pogoniulus tinkerbirds using 135 individual whole genomes distributed across a southern African hybrid zone.

Apr 9, 2024 | nature.com | Wen Hu |Mark Diekhans |Jordan Marrocco |Lishomwa C. Ndhlovu |Teresa A. Milner |Erich D. Jarvis | +3 more

AbstractRNA isoforms influence cell identity and function. However, a comprehensive brain isoform map was lacking. We analyze single-cell RNA isoforms across brain regions, cell subtypes, developmental time points and species. For 72% of genes, full-length isoform expression varies along one or more axes. Splicing, transcription start and polyadenylation sites vary strongly between cell types, influence protein architecture and associate with disease-linked variation.