Gabriel Rodrigues Alves Margarido

Bridging the Python Training Gap for Bioscientists in Brazil: Improvements and Challenges

This paper describes improvements and challenges in a Brazilian Python workshop for bioscientists, focusing on structural changes, new teaching strategies, and enhanced outreach.

QTL mapping, breeding, and debugging Saccharomyces cerevisiae strains through Reiterated Mass Selection and backcrosSing (ReMaSSing)

This paper introduces ReMaSSing, a method to identify and correct adaptive alleles in Saccharomyces cerevisiae for improved lignocellulosic hydrolysate tolerance through QTL mapping and breeding.

Multiomic insights into sucrose accumulation in sugarcane

This study uses multiomic approaches to identify genetic variants and genes associated with sucrose accumulation in sugarcane, providing insights for breeding and biotechnology.

Allele expression biases in mixed-ploid sugarcane accessions

The paper analyzes allele-specific expression in sugarcane hybrids using a Beta-Binomial model, finding higher ASE frequencies in hybrids and genotype-specific ASEGs.

Temporal Gene Expression in Apical Culms Shows Early Changes in Cell Wall Biosynthesis Genes in Sugarcane

The paper identifies differentially expressed genes related to sucrose metabolism and cell wall biosynthesis in sugarcane apical culms across developmental stages and genotypes.

Genomic prediction with allele dosage information in highly polyploid species

This study improves genomic selection in highly polyploid species by incorporating allele dosage and dominance effects, showing significant gains in predictive ability in certain conditions.

The sugarcane and sorghum kinomes: insights into evolutionary expansion and diversification

This study profiles the kinomes of sugarcane and sorghum, identifying PKs and their evolutionary relationships, and provides expression patterns and coexpression networks.

Improvements in the Sequencing and Assembly of Plant Genomes

The paper compares recent long-read sequencing methods for plant genome assembly, finding that increased coverage improves assembly quality, though species-specific requirements exist.

Plant breeders should be determining economic weights for a selection index instead of using independent culling for choosing parents in breeding programs with genomic selection

The paper compares index selection and independent culling in genomic selection for multi-trait breeding programs, showing index selection is more efficient when economic weights are known.

fullsibQTL: an R package for QTL mapping in biparental populations of outcrossing species

The paper introduces fullsibQTL, an R package for QTL mapping in outcrossing species, which considers multilocus genetic maps and different segregation patterns.

Time-series expression profiling of sugarcane leaves infected with Puccinia kuehnii reveals an ineffective defense system leading to susceptibility

This study uses time-series RNA-Seq to analyze gene expression changes in sugarcane infected with Puccinia kuehnii, revealing suppressed defense responses and later upregulation of immune-related genes.