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List of works by Marco Fondi

A census of RND superfamily proteins in the Burkholderia genus

scientific article

A genomic and transcriptomic approach to investigate the blue pigment phenotype in Pseudomonas fluorescens.

scientific article published on June 2015

A horizontal gene transfer at the origin of phenylpropanoid metabolism: a key adaptation of plants to land

scientific article (publication date: 16 February 2009)

A novel resistance mechanism to triclosan that suggests horizontal gene transfer and demonstrates a potential selective pressure for reduced biocide susceptibility in clinical strains of Staphylococcus aureus

scientific article published on 11 July 2012

Acquisition and evolution of SXT-R391 integrative conjugative elements in the seventh-pandemic Vibrio cholerae lineage.

scientific article

Antagonistic interactions between endophytic cultivable bacterial communities isolated from the medicinal plant Echinacea purpurea.

scientific article

Antibiotic resistance differentiates Echinacea purpurea endophytic bacterial communities with respect to plant organs

scientific article published on 2 October 2014

Antimicrobial activity of Pseudoalteromonas strains isolated from the Ross Sea (Antarctica) versus Cystic Fibrosis opportunistic pathogens

scholarly article by Isabel Maida et al published 11 February 2015 in Hydrobiologia

Bioactive volatile organic compounds from Antarctic (sponges) bacteria

scientific article

Comparative genome-scale modelling of Staphylococcus aureus strains identifies strain-specific metabolic capabilities linked to pathogenicity

scientific article published on 10 June 2016

Deciphering the role of RND efflux transporters in Burkholderia cenocepacia

scientific article

Defining orthologs and pangenome size metrics.

scientific article published on January 2015

Diauxie and co-utilization of carbon sources can coexist during bacterial growth in nutritionally complex environments

scientific article published on 19 June 2020

Diversity and Horizontal Transfer of Antarctic Pseudomonas spp. Plasmids

scientific article published on 28 October 2019

DprE1, a new taxonomic marker in mycobacteria

scientific article published on 12 September 2013

Draft genome sequence of the volatile organic compound-producing Antarctic bacterium Arthrobacter sp. strain TB23, able to inhibit cystic fibrosis pathogens belonging to the Burkholderia cepacia complex

scientific article

Draft genomes of three Antarctic Psychrobacter strains producing antimicrobial compounds against Burkholderia cepacia complex, opportunistic human pathogens.

scientific article published on 5 January 2014

Evolution of lactic acid bacteria in the order Lactobacillales as depicted by analysis of glycolysis and pentose phosphate pathways.

scientific article published on 2 June 2013

Exploring the Anti-Burkholderia cepacia Complex Activity of Essential Oils: A Preliminary Analysis

scientific article published on 19 February 2014

Exploring the HME and HAE1 efflux systems in the genus Burkholderia

scientific article

Exploring the evolutionary dynamics of plasmids: the Acinetobacter pan-plasmidome

scientific article

Efflux-mediated resistance to a benzothiadiazol derivative effective against Burkholderia cenocepacia

scientific article published on 5 August 2015

Fast, Ungapped Reads Mapping Using Squid

scientific article published on 29 April 2022

Functional Genomics of a Collection of Gammaproteobacteria Isolated from Antarctica

scientific article published in 2024

Genome-Scale Metabolic Network Reconstruction

scientific article published on 01 January 2015

Genome-scale metabolic reconstruction and constraint-based modelling of the Antarctic bacterium Pseudoalteromonas haloplanktis TAC125.

scientific article published on 30 June 2014

Genome-scale metabolic reconstruction of the symbiosis between a leguminous plant and a nitrogen-fixing bacterium

scientific article published on 22 May 2020

Genome-scale phylogenetic and DNA composition analyses of Antarctic Pseudoalteromonas bacteria reveal inconsistencies in current taxonomic affiliation

article

Genomes analysis and bacteria identification: The use of overlapping genes as molecular markers

scientific article

Genomic analysis of three sponge-associated Arthrobacter Antarctic strains, inhibiting the growth of Burkholderia cepacia complex bacteria by synthesizing volatile organic compounds

scientific article published on 20 October 2013

Genomic and phenotypic characterization of the species Acinetobacter venetianus

scientific article published on 23 February 2016

Identification of species of the Burkholderia cepacia complex by sequence analysis of the hisA gene.

scientific article published on 22 July 2010

Independent origins and evolution of the secondary replicons of the class Gammaproteobacteria

scientific article published in 2023

Large-Scale Analysis of Plasmid Relationships through Gene-Sharing Networks

article

Linking Bacterial Endophytic Communities to Essential Oils: Clues from Lavandula angustifolia Mill. ⬇️

scientific article

MeDuSa: a multi-draft based scaffolder.

scientific article published on 25 March 2015

Mechanism of resistance to an antitubercular 2-thiopyridine derivative that is also active against Burkholderia cenocepacia

scientific article published on 6 January 2014

Metabolic Modeling of Pectobacterium parmentieri SCC3193 Provides Insights into Metabolic Pathways of Plant Pathogenic Bacteria

scientific article published on 05 April 2019

Metabolic modelling reveals the specialization of secondary replicons for niche adaptation in Sinorhizobium meliloti.

scientific article published on 22 July 2016

Methods for assembling reads and producing contigs.

scientific article published in January 2015

Modelling microbial metabolic rewiring during growth in a complex medium

scientific article

Modelling the Kinetic Response to Nutrient Fluctuations

scientific article published on 24 November 2017

Molecular and phenotypic characterization of Acinetobacter strains able to degrade diesel fuel

scientific article published on 16 December 2011

Multi -omics and metabolic modelling pipelines: challenges and tools for systems microbiology

scientific article

Origin and evolution of operons and metabolic pathways.

scientific article published on 22 May 2009

Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome

article

Phenotypic and genomic characterization of the Antarctic bacterium Gillisia sp. CAL575, a producer of antimicrobial compounds

scientific article published on 23 October 2013

Robustness encoded across essential and accessory replicons of the ecologically versatile bacterium Sinorhizobium meliloti.

scientific article

Sponge-associated microbial Antarctic communities exhibiting antimicrobial activity against Burkholderia cepacia complex bacteria

scientific article published on 29 June 2011

Structural, evolutionary and genetic analysis of the histidine biosynthetic "core" in the genus Burkholderia

scientific article published on 13 August 2009

The diversity and evolution of cell cycle regulation in alpha-proteobacteria: a comparative genomic analysis

scientific article

The first record of translocated white-clawed crayfish from the Austropotamobius pallipes complex in Sardinia (Italy)

article

The horizontal flow of the plasmid resistome: clues from inter-generic similarity networks

scientific article published in December 2010

The primordial metabolism: an ancestral interconnection between leucine, arginine, and lysine biosynthesis

scientific article

The role of gene fusions in the evolution of metabolic pathways: the histidine biosynthesis case

scientific article

Thiophenecarboxamide Derivatives Activated by EthA Kill Mycobacterium tuberculosis by Inhibiting the CTP Synthetase PyrG

scientific article published on 18 June 2015

Tn-Core: A Toolbox for Integrating Tn-seq Gene Essentiality Data and Constraint-Based Metabolic Modeling

scientific article published on 27 December 2018

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