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Université de Neuchâtel

Under-detection of endospore-forming Firmicutes in metagenomic data

Filippidou, Sevasti ; Junier, Thomas ; Wunderlin, Tina ; Lo, Chien-Chi ; Li, Po-E ; Chain, Patrick S ; Junier, Pilar

In: Computational and Structural Biotechnology Journal, 2015, vol. 13, p. 299-206

Microbial diversity studies based on metagenomic sequencing have greatly enhanced our knowledge of the microbial world. However, one caveat is the fact that not all microorganisms are equally well detected, questioning the universality of this approach. Firmicutes are known to be a dominant bacterial group. Several Firmicutes species are endospore formers and this property makes...

Université de Neuchâtel

Effect of organic carbon and metal accumulation on the bacterial communities in sulphidogenic sediments

Bueche, Matthieu ; Junier, Pilar

In: Environmental Science and Pollution Research, 2016, vol. 23, no. 11, p. 10443–10456

A unique geochemical setting in Lake Cadagno, Switzerland, has led to the accumulation of insoluble metal sulphides in the sedimentary record as the result of past airborne pollution. This offers an exceptional opportunity to study the effect of these metals on the bacterial communities in sediments, and in particular to investigate further the link between metal contamination and an increase in...

Université de Neuchâtel

Genome Sequence of Kosakonia radicincitans Strain YD4, a Plant Growth-Promoting Rhizobacterium Isolated from Yerba Mate (Ilex paraguariensis St. Hill.)

Bergottini, Veronica M ; Filippidou, Sevasti ; Junier, Thomas ; Johnson, Shannon ; Chain, Patrick S ; Otegui, Monica B ; Zapata, Pedro D ; Junier, Pilar

In: Genome Announcements, 2015, vol. 3, no. 2, p. e00239-15

Kosakonia radicincitans strain YD4 is a rhizospheric isolate from yerba mate (Ilex paraguariensis St. Hill.) with plant growth-promoting effects on this crop. Genes involved in different plant growth-promoting activities are present in this genome, suggesting its potential as a bioinoculant for yerba mate.

Université de Neuchâtel

Bio-inoculation of yerba mate seedlings (Ilex paraguariensis St. Hill.) with native plant growth-promoting rhizobacteria : a sustainable alternative to improve crop yield

Bergottini, Veronica M ; Otegui, M. B ; Sosa, D. A ; Zapata, P. D ; Mulot, Matthieu ; Rebord, Maxime ; Zopfi, Jakob ; Wiss, F ; Benrey, Betty ; Junier, Pilar

In: Biology and fertility of soils, 2015, vol. 51, no. 6, p. 749-755

In this study, the role of native plant growth-promoting rhizobacteria (PGPR) as bio-inoculants was assessed as an alternative to ameliorate Ilex paraguariensis St. Hill. growth in nursery comparing poorer (soil) versus richer (compost) substrates. Twelve rhizospheric strains isolated from yerba mate plantations were evaluated in vitro for their potential as PGPRs. Three isolates,...

Université de Neuchâtel

Isolation and characterization of oxalotrophic bacteria from tropical soils

Bravo, Daniel ; Braissant, Olivier ; Cailleau, Guillaume ; Verrecchia, Eric ; Junier, Pilar

In: Archives of Microbiology, 2015, vol. 197, no. 1, p. 65-77

The oxalate–carbonate pathway (OCP) is a biogeochemical set of reactions that involves the conversion of atmospheric CO2 fixed by plants into biomass and, after the biological recycling of calcium oxalate by fungi and bacteria, into calcium carbonate in terrestrial environments. Oxalotrophic bacteria are a key element of this process because of their ability to oxidize calcium...

Université de Neuchâtel

Metaproteomics and ultrastructure characterization of Komagataeibacter spp. involved in high-acid spirit vinegar production

Andrés-Barrao, Cristina ; Saad, Maged M ; Cabello Ferrete, Elena ; Bravo, Daniel ; Chappuis, Marie-Luise ; Ortega Pérez, Ruben ; Junier, Pilar ; Perret, Xavier ; Barja, François

In: Food Microbiology, 2016, vol. 55, p. 112-122

Acetic acid bacteria (AAB) are widespread microorganisms in nature, extensively used in food industry to transform alcohols and sugar alcohols into their corresponding organic acids. Specialized strains are used in the production of vinegar through the oxidative transformation of ethanol into acetic acid. The main AAB involved in the production of high-acid vinegars using the submerged...