Christian Maltecca

Environmentally-mediated yield effects of vernalization and photoperiod alleles in historic winter wheat trials

The paper analyzes historic wheat trials to show how vrn1 and Ppd1 alleles affect yield through environmental interactions, finding that vrn1 effects are more variable than Ppd1 effects.

Widely used GWAS methods can be poorly suited to SNP-level localization under diffuse polygenic architecture in livestock

This study shows that common GWAS methods can produce misleading associations in livestock with polygenic architecture, highlighting the need for methods that control long-range LD spillover.

Fine-mapping methods for complex traits: essential adaptations for samples of related individuals

This paper introduces Bayesian fine-mapping methods adapted for related individuals, showing improved accuracy in pig data compared to existing tools.

An integrated multi-tissue atlas of epigenomic landscapes and regulatory elements in the bovine genome

The paper constructs a bovine epigenomic atlas to annotate regulatory elements and decode the regulatory syntax of the cattle genome, aiding in fine-mapping GWAS loci for complex traits.

An atlas of cell type specific regulatory effects in cattle

The paper constructs a cattle cell-type-specific regulatory variant atlas by integrating bulk and single-cell RNA-seq data, identifying eQTL and linking them to GWAS loci for breeding insights.

Genetic diversity and population history of eight Italian beef cattle breeds using measures of autozygosity

The paper uses ROH detection to analyze genetic diversity and inbreeding in eight Italian beef cattle breeds, identifying breed-specific genomic regions and inbreeding patterns.

Leveraging multiple layers of data to predict Drosophila complex traits

This study predicts Drosophila complex traits using genotypes, gene expression, and gene ontology, finding that expression and GO terms improve accuracy, especially when sample sizes are small.

Microbiability of meat quality and carcass composition traits in swine

The paper examines how gut microbiome composition at different production stages affects meat quality and carcass traits in pigs, finding microbiome contributions vary over time and impact genomic correlations.

GWAS and Fine-Mapping of Livability and Six Disease Traits in Holstein Cattle

The paper performs GWAS and fine-mapping on seven health traits in Holstein cattle to identify genetic variants and candidate genes associated with health outcomes.

Predicting Growth and Carcass Traits in Swine Using Metagenomic Data and Machine Learning Algorithms

This study uses metagenomic data and machine learning to predict growth and carcass traits in pigs, finding that microbiome data from later stages improves prediction accuracy.

A heuristic method to identify runs of homozygosity associated with reduced performance in livestock.

The paper introduces a heuristic method to identify runs of homozygosity (ROH) linked to reduced performance in livestock and shows it outperforms genome-wide inbreeding metrics.