title: Exploring the dynamics of bacterial community composition in soil: the pan-bacteriome approach.
abstract: We performed a longitudinal study (repeated observations of the same sample over time) to investigate both the composition and structure of temporal changes of bacterial community composition in soil mesocosms, subjected to three different treatments (water and 5 or 25 mg kg(-1) of dried soil Cd(2+)). By analogy with the pan genome concept, we identified a core bacteriome and an accessory bacteriome. Resident taxa were assigned to the core bacteriome, while occasional taxa were assigned to the accessory bacteriome. Core and accessory bacteriome represented roughly 35 and 50 % of the taxa detected, respectively, and were characterized by different taxonomic signatures from phylum to genus level while 15 % of the taxa were found to be unique to a particular sample. In particular, the core bacteriome was characterized by higher abundance of members of Planctomycetes, Actinobacteria, Verrucomicrobia and Acidobacteria, while the accessory bacteriome included more members of Firmicutes, Clamydiae and Proteobacteria, suggesting potentially different responses to environmental changes of members from these phyla. We conclude that the pan-bacteriome model may be a useful approach to gain insight for modeling bacterial community structure and inferring different abilities of bacteria taxa.
authors.affiliation: Department of Biology, University of Florence, Via Madonna del Piano 6, 50019, Sesto Fiorentino, Firenze, Italy.
authors.forename: Giovanni
authors.initials: G
authors.lastname: Bacci
authors.forename: Maria Teresa
authors.initials: MT
authors.lastname: Ceccherini
authors.forename: Alessia
authors.initials: A
authors.lastname: Bani
authors.forename: Marco
authors.initials: M
authors.lastname: Bazzicalupo
authors.forename: Maurizio
authors.initials: M
authors.lastname: Castaldini
authors.forename: Marco
authors.initials: M
authors.lastname: Galardini
authors.forename: Luciana
authors.initials: L
authors.lastname: Giovannetti
authors.forename: Stefano
authors.initials: S
authors.lastname: Mocali
authors.forename: Roberta
authors.initials: R
authors.lastname: Pastorelli
authors.forename: Ottorino Luca
authors.initials: OL
authors.lastname: Pantani
authors.forename: Paola
authors.initials: P
authors.lastname: Arfaioli
authors.forename: Giacomo
authors.initials: G
authors.lastname: Pietramellara
authors.forename: Carlo
authors.initials: C
authors.lastname: Viti
authors.forename: Paolo
authors.initials: P
authors.lastname: Nannipieri
authors.forename: Alessio
authors.initials: A
authors.lastname: Mengoni
mesh_terms: D058448:Biota; D003890:Desiccation; D008137:Longitudinal Studies; D012987:Soil / Q000737:chemistry; D012988:Soil Microbiology
chemical_list: D012987:Soil