Alexandra J. Weisberg

The paper presents a chromosome-scale genome assembly of Anisogramma anomala, revealing extreme genome compartmentalization and unique mitochondrial features.

The paper improves genome assemblies for 12 pathogenic and 6 non-pathogenic Streptomyces type strains, revealing genomic features associated with plant pathogenicity.

This paper refactors the Agrobacterium tumor-inducing plasmid into a minimal set of genes for plant and fungal transformation, demonstrating a bottom-up engineering approach.

This study compares short- and long-read sequencing for microbial pathogen genomics, finding that long reads provide more complete assemblies and that variant calling accuracy can be achieved with short-read pipelines when long reads are fragmented.

PathogenSurveillance automates population genomic analyses of WGS data to enable rapid pathogen identification and biosurveillance.

The paper identifies two natural isolates of Agrobacterium tumefaciens with fused chromosomes, revealing constraints for replicon fusion and survival.

This study identifies how the ChvG-ChvI pathway in Agrobacterium tumefaciens promotes survival under cell wall stress through exopolysaccharide production, beta-lactamase activity, and outer membrane remodeling.

The paper identifies extracellular proline depletion as a key mechanism in plant immunity against Pseudomonas syringae, mediated by the LHT1 transporter.

Beav is a bacterial genome annotation pipeline that integrates multiple tools and custom models to annotate genes, mobile elements, and regulatory features, producing a comprehensive output.

The paper analyzes natural variation in immune epitopes across bacterial genomes to reveal a mechanism of intrabacterial immune evasion.

The paper analyzes genome diversity in Agrobacterium tumefaciens to study the evolution of secretion systems and virulence plasmids, revealing gene losses, horizontal transfers, and modularity in molecular evolution.