J. Pereira

Structural implications of BK polyomavirus sequence variations in the major viral capsid protein Vp1 and large T-antigen: a computational study

This study analyzes BKPyV sequence variations in Vp1 and LTag using computational methods, finding high variability in Vp1 that may impact immune control and vaccine design, while LTag shows less variability but potential effects on T-cell epitopes.

What is hidden in the darkness? Deep-learning assisted large-scale protein family curation uncovers novel protein families and folds

This work uses deep learning to uncover novel protein families and folds by analyzing sequence and structural data, adding new entries to Pfam and identifying a novel toxin-antitoxin system.

What is hidden in the darkness? Characterization of AlphaFold structural space.

The paper analyzes over 200 million AlphaFold predicted protein structures using a shape-mer approach to identify novel structural compositions and potential functional annotations.

Fine-scale survey of intertidal macroalgae reveals recent changes in a cold-water biogeographic stronghold

The paper assesses distributional shifts of macroalgae in north-western Iberia using historical data, finding increased invasive species abundance and decreased cold-water species abundance, leading to community homogenization.

Competition between hematopoietic stem and progenitor cells controls hematopoietic stem cell compartment size.

The paper shows that competition between hematopoietic stem cells and progenitors regulates HSC compartment size through mSCF availability.

Reconstruction and variability of tropical pollination networks in the Brazilian Atlantic Forest

The paper reconstructs tropical pollination networks in the Brazilian Atlantic Forest and finds that network properties correlate with forest cover and habitat heterogeneity.

Gram-negative outer membrane proteins with multiple β-barrel domains

The paper identifies Gram-negative outer membrane proteins with multiple β-barrel domains, showing they result from lineage-specific fusion and are beneficial in specific environments.

The risk of Xylella fastidiosa outbreaks will decrease in the Mediterranean olive-producing regions

This study predicts that climate change will reduce the suitability of Mediterranean olive regions for Xylella fastidiosa vectors, decreasing outbreak risk.