Search results for "microbial"

Use of functional traits to study microbial diversity

2012

Microbial communities have a central role in many ecosystem functions such as biogeochemical cycling, filtering and climate regulation. However, while functional trait-based approaches are commonly used for at least two decades in microbiology, most microbial ecology studies are still carried out with the rRNA genes. This talk will highlight the advantages of trait-based approaches for studying microbial diversity and its relationship with ecosystem functions. For this purpose, denitrification, a microbial process involved in N-cycling, was selected as a model functional trait. Using both naturally assembled and artificially manipulated communities, we will show how the diversity of the den…

GnS-PIPE: an optimized bionformatic pipeline to efficiently assess microbial taxonomic diversity of complex environments using high throughput sequen…

2013

International audience; The rRNA genes (16S, 18S, ITS) are widely used to study microbial communities in soils, as they can be easily amplified from metagenomic DNA. Moreover, the recent development of high-throughput sequencing technologies allows the assessment of millions of sequences from a single metagenomic DNA. Some pipelines are already available (e.g. QIIME or Mothur) to efficiently treat such data. However, the development of bioinformatic tools must now be validated by various biological tests. This was particularly true for key steps to appraise microbial diversity and richness. Here, we present a new pipeline named GnS-PIPE, a software application performing bacterial, archaeal…

GnS-PIPE: an optimized bionformatic pipeline to efficiently assess microbial taxonomic diversity of complex environments using high throughput sequen…

2013

International audience; The rRNA genes (16S, 18S, ITS) are widely used to study microbial communities in soils, as they can be easily amplified from metagenomic DNA. Moreover, the recent development of high-throughput sequencing technologies allows the assessment of millions of sequences from a single metagenomic DNA. Some pipelines are already available (e.g. QIIME or Mothur) to efficiently treat such data. However, the development of bioinformatic tools must now be validated by various biological tests. This was particularly true for key steps to appraise microbial diversity and richness. Here, we present a new pipeline named GnS-PIPE, a software application performing bacterial, archaeal…

Bridging microbial community ecology and ecosystem functioning

2014

Microbial communities have a central role in many ecosystem functions such as biogeochemical cycling. Large variation in N-fluxes has been widely documented, mirroring the complexity of the underlying mechanisms. However, application of molecular biology approaches during the last decade has given the opportunity to look beyond these fluxes and to study the genetic and the ecology of the microorganisms involved in N-cycling. In this talk, I will give examples of a trait-centered approach for bridging microbial community ecology, microbial processes and ecosystem functioning.

Nitrogen cycling microbial communities: from diversity to interactions and functions

2019

Soil microorganisms form one of the largest biodiversity reservoirs on earth. They also play essential roles in ecosystem functions such as biogeochemical cycling. However, the importance of microbial community diversity and composition for ecosystem functioning is still debated. A sound understanding of the ecological processes governing the assembly of these communities in the environment is also missing. In this talk, I will give examples of how we addressed these knowledge gaps using nitrogen cycling microorganisms as model functional guilds. Nitrogen is the most limiting nutrient for crop production in agriculture. The nitrogen cycle is also one which was pushed by human activities out…

Impact des systèmes de culture en protection intégrée contre les adventices sur l'intensité des émissions de N2O par les sols

2013

Crosstalks between soil microbial communities and a nitrogen fixing legume species (medicago truncatula) during its Vegetative Stage

2010

International audience

Soil microbial diversity at the scale of the French national territory

2007

Microbial Biogeography at the scale of France by the use of molecular tools applied to the French soil quality monitoring network (RMQS)

2008

Linking microbial diversity and ecosystem functioning: The nitrogen cycle example

2014

Microbial communities have a central role in ecosystem processes by driving the Earth’s biogeochemical cycles. However, the importance of microbial diversity for ecosystem functioning is still debated. While functional trait-based approaches are commonly used for at least two decades in microbiology, most microbial diversity studies are still carried out with the rRNA genes. This talk will show how metagenomic approaches targeting microbial guilds involved in nitrogen cycling can help bridging microbial community ecology and ecosystem processes in terrestrial environments.