• Aucun résultat trouvé

Study of bacterial diversity in the topsoil and below the hardpan in an agricultural soil by metagenomics following by two analysis pipelines

N/A
N/A
Protected

Academic year: 2021

Partager "Study of bacterial diversity in the topsoil and below the hardpan in an agricultural soil by metagenomics following by two analysis pipelines"

Copied!
1
0
0

Texte intégral

(1)

Abstract submission for the 12th meeting on Bacterial Genetics and Ecology (BAGECO), in Ljubljana, Slovenia, from 9th – 13th June 2013:

Conference Topic : Microbial community diversity and ecosystem function

Study of bacterial diversity in the topsoil and below the hardpan in an

agricultural soil by metagenomics following by two analysis pipelines

Stroobants Aurore1, Lambert Christophe2, Degrune Florine1, Portetelle Daniel1, Vandenbol Micheline1

1

Unité de Microbiologie et Génomique, Université de Liège, Gembloux Agro-Bio Tech, Avenue Maréchal Juin 6, 5030 Gembloux, Belgium, e-mail: aurore.stroobants@ulg.ac.be

2

Progenus SA, Rue des Praules 2, 5030 Gembloux, Belgium

On earth, Bacteria are ubiquitous and even present in extreme environments (pH, temperature,…). In soils in particular, bacteria are very abundant (up to 109

cells per gram of soil) but still poorly characterized. Thus, it is of paramount importance to use relevant study and analysis procedures to ensure that the results obtained closely reflect the real-life conditions. In the present work, we analyze the bacterial diversity in the topsoil and below the hardpan in an agricultural soil using the metagenomics approach, with the Ion Torrent PGM sequencer. The soil samples was collected at three depths : 10 cm (topsoil), 25 cm (topsoil above the hardpan) and 45 cm (below the hardpan), in a tilled and a no tilled plot. The taxonomic analysis of the reads obtained are carried out according to two different procedures with the RDP classifier program and with a confidence score threshold of 0 and 0.99. The 0 threshold is used to assign a species to all reads, each read being therefore assigned to its most closest known species. The threshold of 0.99 enables us to focus on reads being assigned to a species with a high degree of confidence. In this case, each read is assigned to the most specific rank having a confidence score higher than 0.99. The bacterial diversity was then compared between the different conditions. Results obtained demonstrate that the bacterial communities were not the same in the two horizons. For example, some classes of

Acidobacteria were up to 11 fold more numerous in topsoil while others was until 12 fold

more represented below the hardpan. The biomass and the bacterial diversity (Shannon index) were also greatly different between the two depths.

Références

Documents relatifs

En effet, il est important pour ce travail de choisir l’agent conversationnel le plus adéquat à l’ensemble du projet, à l’environnement de développement, mais également

In the case of the present analysis, four different approaches (Figure 4) were used to evaluate sites of expression and patterns of co-regulation of R-genes in sugarcane, consider-

Consequently, this study had three main objectives: (1) to study the influence of different tillage treatments under the same residue retention on soil physicochemical

30 Federal University of Pampa, São Gabriel, Brazil, 31 Archaea Biology and Ecogenomics Division, Department of Ecogenomics and Systems Biology, University of Vienna, Vienna,

The two viromes were analyzed according to the following procedure : (i) the characteristics and richness indices of the two viral communities were determined, (ii) freshwater

Three cropping systems were compared: (1) rotation of upland rice followed by maize intercropped with Crotalaria grahamiana, with no tillage (R-MC_NT), (2) rotation of rice

The two viromes were analyzed according to the following procedure : (i) the characteristics and richness indices of the two viral communities were determined, (ii) freshwater

A main finding of this study is that, although the landscape scale beta diversity patterns of the three microbial domains investigated are all related to plant community