Rodrigo P. Baptista

The paper optimizes genome assembly and variant discovery for Dermacentor reticulatus ticks using Oxford Nanopore sequencing, identifying workflow parameters that yield high-quality assemblies and genetic insights.

The paper develops and validates a set of 100,000 RNA baits (CryptoCap_100k) to enrich Cryptosporidium DNA from clinical and environmental samples, improving read mapping, coverage, and variant analysis while reducing costs.

This study identifies FptA inactivation as a key step in cefiderocol resistance in Pseudomonas aeruginosa PA14, revealing resistance mechanisms and fitness costs.

This study identifies polycistronic mRNA expression in Cryptosporidium parvum using long-read RNA-seq and ATAC-seq, revealing a novel gene regulation mechanism in apicomplexan parasites.

The paper presents a chromosome-level genome assembly and annotation of Cryptosporidium meleagridis, revealing 3,923 protein-coding genes and high completeness.

This study examines TBDR mutations in P. aeruginosa clinical isolates and their association with cefiderocol resistance and heteroresistance.

The paper generates high-quality genome assemblies for Ixodes ricinus and identifies transposable elements as major drivers of genome evolution in ticks.

This study evaluates MDA's effectiveness for genome assembly with ONT sequencing, showing high-quality results from low DNA input and introducing a tool to mitigate concatemeric sequences.

The paper presents a gapless telomere-to-telomere genome assembly of Cryptosporidium parvum IOWA, annotated with reference gene IDs and RNA evidence.

The paper presents a new high-quality genome assembly and annotation for Cryptosporidium parvum IOWA, revealing structural and functional insights into its genome and evolutionary relationships with related species.

The paper reports a novel fragmented mitochondrial genome in Toxoplasma gondii and related tissue coccidia, revealing a unique genome architecture and cytochrome gene structure.

This study identifies 396 novel lncRNAs in Cryptosporidium parvum using RNA-seq, showing differential expression and potential regulatory roles.