Prokaryotic diversity, composition structure, and phylogenetic analysis of microbial communities in leachate sediment ecosystems

2011 ◽  
Vol 91 (6) ◽  
pp. 1659-1675 ◽  
Author(s):  
Jingjing Liu ◽  
Weixiang Wu ◽  
Chongjun Chen ◽  
Faqian Sun ◽  
Yingxu Chen
2007 ◽  
Vol 59 (2) ◽  
pp. 466-475 ◽  
Author(s):  
Diane Labbé ◽  
Rosa Margesin ◽  
Franz Schinner ◽  
Lyle G. Whyte ◽  
Charles W. Greer

2015 ◽  
Vol 1130 ◽  
pp. 40-44 ◽  
Author(s):  
Li Shen ◽  
Hua Qun Yin ◽  
Qi Hu ◽  
Xue Duan Liu ◽  
Guan Zhou Qiu

Acid mine drainage (AMD) presents numerous problems to the aquatic life and surrounding ecosystems. However, little is known about the geographic distribution, diversity, composition, structure and function of AMD microbial communities. In this study, an AMD-specific microarray was used to analyze nine AMD microbial communities, and showed that those nine AMD microbial communities had high variations measured by the number of detected genes, overlapping genes between samples, unique genes, and diversity indices. Statistical analyses indicated that the concentrations of Fe, S, Ca, Mg, Zn, Cu and pH had strong impacts on both phylogenetic and functional diversity, composition, and structure of AMD microbial communities. This study provides insights into our understanding of the geographic distribution, diversity, composition, structure and functional potential of AMD microbial communities and key environmental factors shaping them.


2013 ◽  
Vol 66 (2) ◽  
pp. 322-334 ◽  
Author(s):  
Pattanop Kanokratana ◽  
Wuttichai Mhuantong ◽  
Thanaporn Laothanachareon ◽  
Sithichoke Tangphatsornruang ◽  
Lily Eurwilaichitr ◽  
...  

2001 ◽  
Vol 43 (6) ◽  
pp. 77-86 ◽  
Author(s):  
I. W. Sutherland

In biofilms, flocs and similar multispecies microbial communities, exopolysaccharides (EPSs) are always present, frequently as the major component other than water. The EPSs vary widely in their composition, structure and properties and thus it is impossible to generalise about their contribution to biofilm or floc structure. Relatively few of the polymers obtained from biofilms and flocs have been adequately purified and analysed but such evidence as is so far available suggests that the polysaccharides closely resemble those synthesised by the corresponding planktonic bacteria. From a knowledge of the physical properties of these, it is now possible to present a reasonably accurate picture of some of the factors which they may contribute to the structure and stability of complex aggregates of micro-organisms in biofilms and flocs.


2007 ◽  
Vol 18 (6) ◽  
pp. 769-782 ◽  
Author(s):  
Marja R. T. Palmroth ◽  
Perttu E. P. Koskinen ◽  
Anna H. Kaksonen ◽  
Uwe Münster ◽  
John Pichtel ◽  
...  

2015 ◽  
Vol 81 (12) ◽  
pp. 4164-4172 ◽  
Author(s):  
Ping Zhang ◽  
Wei-Min Wu ◽  
Joy D. Van Nostrand ◽  
Ye Deng ◽  
Zhili He ◽  
...  

ABSTRACTA pilot-scale field experiment demonstrated that a one-time amendment of emulsified vegetable oil (EVO) reduced groundwater U(VI) concentrations for 1 year in a fast-flowing aquifer. However, little is known about how EVO amendment stimulates the functional gene composition, structure, and dynamics of groundwater microbial communities toward prolonged U(VI) reduction. In this study, we hypothesized that EVO amendment would shift the functional gene composition and structure of groundwater microbial communities and stimulate key functional genes/groups involved in EVO biodegradation and reduction of electron acceptors in the aquifer. To test these hypotheses, groundwater microbial communities after EVO amendment were analyzed using a comprehensive functional gene microarray. Our results showed that EVO amendment stimulated sequential shifts in the functional composition and structure of groundwater microbial communities. Particularly, the relative abundance of key functional genes/groups involved in EVO biodegradation and the reduction of NO3−, Mn(IV), Fe(III), U(VI), and SO42−significantly increased, especially during the active U(VI) reduction period. The relative abundance for some of these key functional genes/groups remained elevated over 9 months. Montel tests suggested that the dynamics in the abundance, composition, and structure of these key functional genes/groups were significantly correlated with groundwater concentrations of acetate, NO3−, Mn(II), Fe(II), U(VI), and SO42−. Our results suggest that EVO amendment stimulated dynamic succession of key functional microbial communities. This study improves our understanding of the composition, structure, and function changes needed for groundwater microbial communities to sustain a long-term U(VI) reduction.


2021 ◽  
Author(s):  
Juan Castro-Severyn ◽  
Coral Pardo-Esté ◽  
Katterinne N. Mendez ◽  
Jonathan Fortt ◽  
Sebastián Márquez ◽  
...  

Microbial communities inhabiting extreme environments like Salar de Huasco (SH) are adapted to thrive while exposed to several abiotic pressures and the presence of toxic elements like arsenic (As). Hence, we aimed to uncover the role of arsenic in shaping bacterial composition, structure, and functional potential in five different sites in this Altiplanic wetland using a shotgun metagenomic approach. The sites exhibit wide gradients of arsenic (9 to 321 mg/kg), and our results showed highly diverse communities and a clear dominance exerted by the Proteobacteria and Bacteroidetes phyla. Functional potential analyses showed broadly convergent patterns, contrasting with their great taxonomic variability. Arsenic-related metabolism is different among the five communities, as well as other functional categories like those related to the CH4 and S cycles. Particularly, we found that the distribution and abundance of As-related genes increase, following along the As concentration gradient. Approximately 75% of the detected genes for As-metabolism belong to expulsion mechanisms, being arsJ and arsP pumps related to sites with higher As concentrations and present almost exclusively in Proteobacteria. Furthermore, taxonomic diversity and functional potential are reflected in the 12 reconstructed high-quality MAGs (Metagenome Assembled Genomes) belonging to the Bacteroidetes (5), Proteobacteria (5), Cyanobacteria (1) and Gemmatimonadota (1) phyla. We conclude that SH microbial communities are diverse and possess a broad genetic repertoire to thrive under extreme conditions, including increasing concentrations of the highly toxic As. Finally, this environment represents a reservoir of unknown and undescribed microorganisms, with a great metabolic versatility, which needs further study.


2013 ◽  
Vol 86 (2) ◽  
pp. 256-267 ◽  
Author(s):  
Ileana Pérez-Rodríguez ◽  
Kenneth A. Bohnert ◽  
Mariola Cuebas ◽  
Ramaydalis Keddis ◽  
Costantino Vetriani

2020 ◽  
Vol 20 (S2) ◽  
Author(s):  
Sergey E. Peltek ◽  
Alla V. Bryanskaya ◽  
Yuliya E. Uvarova ◽  
Aleksey S. Rozanov ◽  
Timofey V. Ivanisenko ◽  
...  

Abstract Background The Uzon Caldera is one of the places on our planet with unique geological, ecological, and microbiological characteristics. Uzon oil is the youngest on Earth. Uzon oil has unique composition, with low proportion of heavy fractions and relatively high content of saturated hydrocarbons. Microbial communities of the «oil site» have a diverse composition and live at high temperatures (up to 97 °C), significant oscillations of Eh and pH, and high content of sulfur, sulfides, arsenic, antimony, and mercury in water and rocks. Results The study analyzed the composition, structure and unique genetics characteristics of the microbial communities of the oil site, analyzed the metabolic pathways in the communities. Metabolic pathways of hydrocarbon degradation by microorganisms have been found. The study found statistically significant relationships between geochemical parameters, taxonomic composition and the completeness of metabolic pathways. It was demonstrated that geochemical parameters determine the structure and metabolic potential of microbial communities. Conclusions There were statistically significant relationships between geochemical parameters, taxonomic composition, and the completeness of metabolic pathways. It was demonstrated that geochemical parameters define the structure and metabolic potential of microbial communities. Metabolic pathways of hydrocarbon oxidation was found to prevail in the studied communities, which corroborates the hypothesis on abiogenic synthesis of Uzon hydrothermal petroleum.


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