Search results for " microbial diversity"
showing 10 items of 12 documents
Diversity, virulence, and antimicrobial resistance of the KPC-producing Klebsiella pneumoniae ST307 clone
2017
ABSTRACT : The global spread of Klebsiella pneumoniae producing Klebsiella pneumoniae carbapenemase (KPC) has been mainly associated with the dissemination of high-risk clones. In the last decade, hospital outbreaks involving KPC-producing K. pneumoniae have been predominantly attributed to isolates belonging to clonal group (CG) 258. However, results of recent epidemiological analysis indicate that KPC-producing sequence type (ST) 307, is emerging in different parts of the world and is a candidate to become a prevalent high-risk clone in the near future. Here we show that the ST307 genome encodes genetic features that may provide an advantage in adaptation to the hospital environment and t…
Evaluation in microcosm of biostimulation and bioaugmentation efficacy on diesel-contaminated soil
2021
Bioremediation is a promising technology for the treatment of hydrocarbon (HC) contaminated soils that is based on the biodegradation capacities of native or introduced microbial populations. Biotractability tests are essential for choosing the optimal bioremediation treatment. For this purpose, multiple microcosm tests, based on biostimulation by landfarming or bioventing and addition of nutrients, were conducted for 120 days on a soil contaminated by diesel, after assessing its intrinsic catabolic potential. An additional bioaugmentation treatment was performed for further 60 days by inoculating selected HC degrading bacteria. HC (C10-C40) concentration was monitored by GC-FID analysis an…
Sulfur cycling and methanogenesis primarily drive microbial colonization of the highly sulfidic Urania deep hypersaline basin
2009
Urania basin in the deep Mediterranean Sea houses a lake that is >100 m deep, devoid of oxygen, 6 times more saline than seawater, and has very high levels of methane and particularly sulfide (up to 16 mM), making it among the most sulfidic water bodies on Earth. Along the depth profile there are 2 chemoclines, a steep one with the overlying oxic seawater, and another between anoxic brines of different density, where gradients of salinity, electron donors and acceptors occur. To identify and differentiate the microbes and processes contributing to the turnover of organic matter and sulfide along the water column, these chemoclines were sampled at a high resolution. Bacterial cell numbers…
Key Biochemical Attributes to Assess Soil Ecosystem Sustainability
2011
Soil is not a renewable resource, at least within the human timescale. In general, any anthropic exploitation of soils tends to disturb or divert them from a more “natural” development which, by definition, represents the best comparison term for measuring the relative shift from soil sustainability. The continuous degradation of soil health and quality due to abuse of land potentiality or intensive management occurs since decades. Soil microbiota, being ‘the biological engine of the Earth’, provides pivotal services in the soil ecosystem functioning. Hence, management practices protecting soil microbial diversity and resilience, should be pursued. Besides, any abnormal change in rate of in…
Ecomic - RMQs : Cartographie de la diversité microbienne des sols à l'échelle de la France
2009
aeres : C-AFF; National audience; no abstract
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…
Including the soil microbiota in the quality evaluation of soils vulnerable to desertification
2021
The soil microbiota is recognized as key player in both diversity and productivity of terrestrial ecosystems and it is mandatory to include its role in soil quality evaluation. Drivers of below-ground diversity are still largely unknown and is still unclear if the main soil features (i.e. soil organic matter, nutrient and water availability) are potential drivers of microbial diversity or are regulated by it. Increasingly negative effects of climate change due to drought and extreme weather phenomena are causing Mediterranean soil degradation that rapidly degenerates to desertification. Within the LIFE Desert-Adapt project we investigated bacterial diversity in soils of southern Europe unde…
Dynamique de la communauté microbienne de sols tropicaux suite à une application répétée de fertilisants organiques et minéraux
2019
Organic waste products (OWP) with NPK mineral fertilization are known to have an impact on soil microbial communities. However, dynamic of these communities following a repeated OWP and NPK application has not been well described. In the present study, this dynamic was observed on soil sampled at the La Mare (La Réunion) field experiment, which was set up in 2013. This experiment includes control plot (without organic input, but mineral fertilization) and several plots receiving different types of OWP coupled with NPK fertilization. Physico-chemical parameters were measured on soils and OWPs (2013 to 2017). Soil microbial biomass (from 2013 to 2018) and the structure of microbial community …
Corrigendum to Soil microbial biomass and bacterial diversity in southern European regions vulnerable to desertification [Ecol. Indicat. 145 (2022) 1…
2023
The authors regret the incorrect publication of legend for Table 1 and Table 3 in black/white in the original article. The complete legend for Table 1 and Table 3 with colours, indicating degree of significance, are presented below.