Alessio Mengoni

MErlin integrates bacterial methylome data with other omics data to produce gene-level evidence and reports, using a modular toolkit and LLM interface.

This study compares how root exudates from wild and cultivated rice affect bacterial endophytes, finding that wild rice promotes more beneficial microbial interactions.

This study compares the bacterial and fungal microbiota of wild Vaccinium myrtillus and V. uliginosum in Central Italian Apennines, revealing distinct community compositions and functional roles.

The paper analyzes the microbiota of root nodules from drought-tolerant legumes in Namibia, identifying novel Bradyrhizobium and Rhizobium strains with potential as bioinoculants.

This study shows that acquiring additional quorum sensing modules reduces population size variability in Burkholderia by buffering noise in growth dynamics.

The paper analyzes DNA methylation patterns across 21 Sinorhizobium meliloti strains, revealing epigenomic diversity linked to genome structure and phenotypic variation.

The paper introduces MeStudio, a tool for analyzing DNA methylation from SMRT sequencing data, and demonstrates its application on bacterial genomes.

The paper models the inter-kingdom metabolic integration during symbiotic nitrogen fixation in Medicago truncatula and Sinorhizobium meliloti using in silico reconstruction and flux balance analysis.

This study develops a metabolic model of Pectobacterium parmentieri SCC3193 to predict its adaptation to soil and rhizosphere niches and identify core essential genes for growth in these environments.

The paper studies the emergence and features of multipartite genomes in Burkholderiaceae using comparative genomics, finding that secondary replicons enhance gene acquisition for environmental adaptation.

Tn-Core integrates Tn-seq data with metabolic models to generate context-specific core reconstructions and supports functional model generation and model curation.

The paper creates a genomically hybrid strain of Sinorhizobium meliloti by transferring a secondary replicon and characterizes its phenotypes and metabolic properties.

The paper investigates how extrachromosomal replicons in Sinorhizobium meliloti influence gene function and metabolism using Tn-seq and metabolic modeling, revealing widespread genetic interactions and functional dependencies.