title: Bacterial Community Structure at the Microscale in Two Different Soils.
abstract: The spatial distributions of bacteria in the soil matrix have a role in ecosystem function, for example, at the small scale, through gene transfer or xenobiotic degradation. Soil bacterial biogeography has been evidenced at the large scale, but data are scarce at the small scale. The objective of this work was to determine the spatial pattern of bacterial diversity, in spatially referenced microsamples, in order to define bacterial community spatial traits. Two soils with different physical structures, moderately aggregated (La Côte St André (LCSA)) or poorly aggregated (La Dombes (LD)), were studied. The spatial distribution of bacteria was studied in microsamples (diameter 3 mm) along 10- and 20-cm transects, with a taxonomic microarray. 16S rRNA gene sequencing was used to further study the spatial characteristics of the microbial communities in LD soil. The frequency-occupancy plot, in the LCSA and LD soils, using microarray and sequencing data, followed Hanski's core-satellite theory. The frequency-occupancy distribution plots obtained in two different soils showed bimodality and indicated that the microscale spatial distributions were different, particularly core taxa percentage. Core taxa are widespread and abundant, while satellite taxa are restricted in their distribution. The spread of satellite taxa was at a distance range larger than 5 cm, whereas the core taxa were distributed in a distance range less than 3 mm. Besides, there was a positive abundancy-occupancy relationship at this fine scale. It may be interesting to further evaluate the role of the different bacterial spatial distributions at the fine scale on soil function.
authors.affiliation: Université de Lyon, 69622, Lyon, France.|Université Lyon 1, Villeurbanne, France.|CNRS, UMR5557, Ecologie Microbienne, Villeurbanne, France.
authors.forename: Rory
authors.initials: R
authors.lastname: Michelland
authors.affiliation: Université de Lyon, 69622, Lyon, France.|Université Lyon 1, Villeurbanne, France.|CNRS, UMR5558, Laboratoire de Biométrie et Biologie Evolutive, Villeurbanne, France.
authors.forename: Jean
authors.initials: J
authors.lastname: Thioulouse
authors.affiliation: Institute of Soil Biology, Biology Centre of the Czech Academy of Sciences, České Budějovice, Czech Republic.
authors.forename: Martina
authors.initials: M
authors.lastname: Kyselková
authors.affiliation: Université de Lyon, 69622, Lyon, France. genevieve.grundmann@univ-lyon1.fr.|Université Lyon 1, Villeurbanne, France. genevieve.grundmann@univ-lyon1.fr.|CNRS, UMR5557, Ecologie Microbienne, Villeurbanne, France. genevieve.grundmann@univ-lyon1.fr.
authors.forename: Genevieve L
authors.initials: GL
authors.lastname: Grundmann
mesh_terms: D001419:Bacteria / Q000145:classification* / Q000235:genetics; D001483:Base Sequence; D044822:Biodiversity; D004269:DNA, Bacterial; D017753:Ecosystem; D005602:France; D058889:Molecular Typing; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012987:Soil / Q000737:chemistry*; D012988:Soil Microbiology
chemical_list: D004269:DNA, Bacterial; D012336:RNA, Ribosomal, 16S; D012987:Soil
keywords: Abundancy-occupancy relationship; Bacteria community structure; Frequency-occupancy relationship; Microscale in soil; Soil microbial diversity; Soil structure