Variation of bacterial biodiversity from saline soils and estuary sediments present near the Mediterranean Sea coast of Camargue (France)

Autor: Christophe Regeard, Michael S. DuBow, Catherine Badel, Gustavo Fernandes, Jorge R. Osman
Přispěvatelé: Université Claude Bernard Lyon 1 (UCBL), Université de Lyon, Institut de génétique et microbiologie [Orsay] (IGM), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Reproduction et développement des plantes (RDP), École normale supérieure - Lyon (ENS Lyon)-Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Université Paris-Sud - Paris 11 (UP11), École normale supérieure de Lyon (ENS de Lyon)-Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-École normale supérieure - Lyon (ENS Lyon)
Jazyk: angličtina
Rok vydání: 2019
Předmět:
Geologic Sediments
Salinity
[SDV]Life Sciences [q-bio]
Polymerase Chain Reaction
temporal variation
RNA
Ribosomal
16S
Cluster Analysis
rna
Phylogeny
Soil Microbiology
hypersaline microbial mat
2. Zero hunger
0303 health sciences
biology
Ecology
gen. nov
Pyrosequencing
General Medicine
Biodiversity
6. Clean water
rice fields
France
Proteobacteria
community structure
Estuaries
Bacterial biodiversity
DNA
Bacterial
Soil salinity
Firmicutes
Microbiology
DNA
Ribosomal
Halophilic bacteria
Actinobacteria
diversity
03 medical and health sciences
Mediterranean Sea
Gemmatimonadetes
molecular analysis
14. Life underwater
rhone river delta
Molecular Biology
030304 developmental biology
Bacteria
030306 microbiology
Bacteroidetes
Sediment
Sequence Analysis
DNA
15. Life on land
biology.organism_classification
13. Climate action
Metagenomics
de-giraud
Acidobacteria
Zdroj: Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology
Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology, 2019, 112 (3), pp.351--365. ⟨10.1007/s10482-018-1164-z⟩
Antonie van Leeuwenhoek
Antonie van Leeuwenhoek, 2019, 112 (3), pp.351--365. ⟨10.1007/s10482-018-1164-z⟩
Antonie van Leeuwenhoek, Springer Verlag, 2019, 112 (3), pp.351--365. ⟨10.1007/s10482-018-1164-z⟩
ISSN: 0003-6072
1572-9699
DOI: 10.1007/s10482-018-1164-z⟩
Popis: International audience; Salinity is an important environmental factor influencing microbial community composition. To better understand this influence, we determined the bacterial communities present in 17 different sites of brackish sediment (underwater) and soil (surface) samples from the Camargue region (Rhone river delta) in southern France during the fall of 2013 and 2014 using pyrosequencing of the V3-V4 regions of the 16S rRNA genes amplified by PCR. This region is known for abundant flora and fauna and, though saline, 30% of rice consumed in France is grown here. We found that bacterial abundance in 1g of soil or sediment, calculated by qPCR, was higher in sediments than in surface soil samples. Members belonging to the Proteobacteria, Bacteroidetes, Chloroflexi and Firmicutes phyla dominated the bacterial communities of sediment samples, while members belonging to the Proteobacteria, Bacteroidetes, Gemmatimonadetes, Actinobacteria, Firmicutes and Acidobacteria phyla dominated the bacterial communities of the soil samples. The most abundant bacterial genera present in the saline sediments and soils from the Camargue belonged mostly to halophilic and sulphate reducing bacteria, suggesting that the Camargue may be a valuable system to investigate saline, yet agriculturally productive, sediment and soil microbial ecosystem.
Databáze: OpenAIRE
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