Distinctive patterns in prokaryotic community composition in response to viral lysis and flagellate grazing in freshwater microcosms

2014 ◽  
Vol 59 (9) ◽  
pp. 1945-1955 ◽  
Author(s):  
Angia Sriram Pradeep Ram ◽  
Telesphore Sime-Ngando
2017 ◽  
Vol 93 (10) ◽  
Author(s):  
Theresa A. McHugh ◽  
Zacchaeus Compson ◽  
Natasja van Gestel ◽  
Michaela Hayer ◽  
Lisa Ballard ◽  
...  

2020 ◽  
Vol 70 (1) ◽  
Author(s):  
Marina Rafaela Santos Ferreira ◽  
Daniel Francis Richard Cleary ◽  
Francisco José Riso Costa Coelho ◽  
Newton Carlos Marcial Gomes ◽  
Yusheng M Huang ◽  
...  

2021 ◽  
Author(s):  
Yale Deng ◽  
Klaudyna Borewicz ◽  
Joost van Loo ◽  
Marko Zabala Olabarrieta ◽  
Fotini Kokou ◽  
...  

AbstractBiofloc technology is commonly applied in intensive tilapia (Oreochromis niloticus) culture to maintain water quality, supply the fish with extra protein, and improve fish growth. However, the effect of dietary supplementation of processed biofloc on the gut prokaryotic (bacteria and archaea) community composition of tilapia is not well understood. In this study one recirculating aquaculture system was used to test how biofloc, including in-situ biofloc, dietary supplementation of ex-situ live or dead biofloc, influence fish gut prokaryotic community composition and growth performance in comparison to a biofloc-free control treatment. A core gut prokaryotic community was identified among all treatments by analyzing the temporal variations in gut prokaryotes. In-situ produced biofloc significantly increased the prokaryotic diversity in the gut by reducing the relative abundance of dominant Cetobacterium and increasing the relative abundance of potentially beneficial bacteria. The in-situ biofloc delivered a unique prokaryotic community in fish gut, while dietary supplementation of tilapias with 5% and 10% processed biofloc (live or dead) only changed the relative abundance of minor prokaryotic taxa outside the gut core microbiota. The modulatory effect of in-situ biofloc on tilapia gut microbiota was associated with the distinct microbial community in the biofloc water and undisturbed biofloc. The growth-promoting effect on tilapia was only detected in the in-situ biofloc treatment, while dietary supplementation of processed biofloc had no effect on fish growth performance as compared to the control treatment.


2020 ◽  
Vol 97 (1) ◽  
Author(s):  
Jian Yang ◽  
Hongchen Jiang ◽  
Xiaoxi Sun ◽  
Jianrong Huang ◽  
Mingxian Han ◽  
...  

ABSTRACT Temporal variations and co-occurrence patterns of the prokaryotic community in saline lakes remain elusive. In this study, we investigated the temporal variations of the prokaryotic community in six lakes with different salinity by using Illumina sequencing. The results showed that prokaryotic community compositions exhibited temporal variations in all studied lakes, which may be partially caused by temporal fluctuations of environmental variables (e.g. salinity, temperature, total nitrogen). Salinity fluctuations exhibited stronger influences on temporal variations of prokaryotic community composition in the lakes with low salinity than in those with high salinity. Stochastic factors (i.e. neutral processes) also contributed to temporal variations of prokaryotic community composition, and their contributions decreased with increasing salinity in the studied saline lakes. Network analysis showed that prokaryotic co-occurrence networks of the studied lakes exhibited non-random topology. Salinity affected the phylogenetic composition of nodes in the studied networks. The topological features (e.g. average connectivity and modularity) of the studied networks significantly differed between lake waters and sediments. Collectively, these results expand our knowledge of the mechanisms underlying prokaryotic community assembly and co-occurrence relationships in saline lakes with different salinity.


2017 ◽  
Vol 8 ◽  
Author(s):  
Abigail Tomasek ◽  
Christopher Staley ◽  
Ping Wang ◽  
Thomas Kaiser ◽  
Nicole Lurndahl ◽  
...  

2020 ◽  
Author(s):  
Jeroen Zethof ◽  
Antje Bettermann ◽  
Cordula Vogel ◽  
Doreen Babin ◽  
Erik Cammeraat ◽  
...  

<p>Individual plant species form so-called resource islands in the barren semiarid landscape, whereby many soil properties are enhanced including soil structure. Within the soil structure, mostly studied as soil aggregates, microaggregates (<250µm) form fundamental components, reducing potential erosion of finer particles and subsequent loss of nutrients. Extracellular polymeric substances (EPS) are considered an important glue determining aggregation in addition to inorganic binding agents such as carbonates and clay minerals. However, the role of the soil prokaryotic community in EPS formation and consequently for microaggregation in natural environments has not been clarified yet. EPS should be particularly important under semiarid conditions as they form a protection mechanism of the prokaryotes against desiccation. Therefore, we examined the influence of the prokaryotic community on soil EPS content and subsequently on soil aggregation in semiarid grasslands, with respect to the parent material of soil formation, common plant species and the distance to the plant.</p><p>During two sampling campaigns in spring 2017 and 2018, soil samples were taken over a distance gradient from two major semiarid grassland plant species in Southern Spain, the legume shrub <em>Anthyllis cytisoides</em> and the grass tussock <em>Macrochloa tenacissima</em>, to the surrounding bare soil. While topsoil was sampled in five distances to the plant during the first sampling campaign, the second one focused stronger on the root influence, hence rhizoplane and rhizosphere were sampled. Additionally, two sites with different parent materials were chosen to scale the effect of EPS on soil aggregation in the presence of inorganic binding agents (here carbonates). Total community DNA and EPS were extracted, followed by quantification of EPS-saccharides and bacterial abundance, as well as examination of the prokaryotic community composition by Illumina amplicon sequencing of the 16S rRNA genes. Further, the particle size distribution of (micro)aggregates in water was determined, with and without ultrasound treatment, as a measure of soil aggregate size distribution and stability.</p><p>Based on the first sampling campaign, we found that the overall prokaryotic community composition differed between the two sites, but not between plant species. Interdependencies between the community composition and EPS content were revealed, whereby soil organic matter (SOM) seems to be a regulating factor as increasing SOM contents resulted in more EPS-saccharides. Soil microaggregation in the topsoil was enhanced by the plant canopy, especially at the edge of <em>Macrochloa</em> tussocks. Contrary to the expectation that increasing inorganic C contents would diminish the importance of EPS, the parent material richest in inorganic C results in a significant effect of EPS-saccharides on microaggregation.</p><p>First results of the second sampling campaign indicate that even in the rhizoplane and rhizosphere, parent material had a dominating influence on the prokaryotic community composition. As EPS-saccharide contents and soil aggregation followed a similar decreasing trend with distance to the roots and canopy cover, interdependencies are expected.</p><p>From the outcomes until now, we can conclude that the availability of decomposable OM influences the prokaryotic community composition and thereby triggers EPS production, whereas large contents of polyvalent cations from carbonates promote the stabilizing effect of EPS on microaggregates.</p>


2005 ◽  
Vol 50 (4) ◽  
pp. 557-569 ◽  
Author(s):  
Ludwig Jardillier ◽  
Yvan Bettarel ◽  
Mathilde Richardot ◽  
Corinne Bardot ◽  
Christian Amblard ◽  
...  

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