scholarly journals Epilithic Biofilms in Lake Baikal: Screening and Diversity of PKS and NRPS Genes in the Genomes of Heterotrophic Bacteria

2018 ◽  
Vol 67 (4) ◽  
pp. 501-516 ◽  
Author(s):  
ELENA SUKHANOVA ◽  
EKATERINA ZIMENS ◽  
OKSANA KALUZHNAYA ◽  
VALENTINA PARFENOVA ◽  
OLGA BELYKH
Microbiology ◽  
2019 ◽  
Vol 88 (3) ◽  
pp. 324-334 ◽  
Author(s):  
E. V. Sukhanova ◽  
Yu. R. Shtykova ◽  
M. Yu. Suslova ◽  
O. S. Pestunova ◽  
T. Ya. Kostornova ◽  
...  

2020 ◽  
Author(s):  
Sarah Zecchin ◽  
Nicoletta Guerrieri ◽  
Evelien Jongepier ◽  
Leonardo Scaglioni ◽  
Gigliola Borgonovo ◽  
...  

<p>Arsenic is a toxic but naturally abundant metalloid that globally leads to contamination in groundwater and soil, exposing millions of people to cancer and other arsenic-related diseases. In several areas in Northern Italy arsenic in soil and water exceeds law limits (20 mg kg<sup>-1</sup> and 10 mg L<sup>-1</sup>, respectively), due to both the mineralogy of bedrock and former mining activities. The Rio Rosso stream, located in the Anzasca Valley (Piedmont) is heavily affected by an acid mine drainage originated from an abandoned gold mine. Arsenic, together with other heavy metals, is transferred by the stream to the surrounding area. The stream is characterized by the presence of an extensive reddish epilithic biofilm at the opening of the mine and on the whole contaminated waterbed.</p> <p>The aim of this study was to characterize the mechanisms allowing the biotic fraction of this biofilm to cope with extreme arsenic concentrations. The composition and functionality of the microbial communities constituting the epilithic biofilms sampled in the close proximity and downstream the mine were unraveled by 16S rRNA genes and shotgun Illumina sequencing in relation to the extreme physico-chemical parameters. In parallel, autotrophic and heterotrophic microbial populations were characterized <em>in vivo</em> by enrichment cultivation and isolated strains were tested for their ability to perform arsenic redox transformation.</p> <p>Preliminary analyses indicated that the biofilm accumulated arsenic in the order of 6 · 10<sup>3</sup> mg kg<sup>-1</sup>, in contrast to 0.14 mg L<sup>-1</sup>, measured in the surrounding water. The main chemical parameter affecting the composition of the microbial community was the pH, being 2 next to the mine and 6.7 in the downstream sampling point. In both sampling sites iron- and sulfur-cycling microorganisms were retrieved by both cultivation and molecular methods. However, the diversity of the microbial community living next to the mine was significantly lower with respect to the community developed downstream. In the latter, autotrophic <em>Cyanobacteria</em> belonging to the species <em>Tychonema</em> were the dominant taxa. A complete arsenic cycle was shown to occur, with heterotrophic bacteria mainly responsible for arsenate reduction and autotrophic bacteria performing arsenite  oxidation.</p> <p>These observations indicate that the epilithic biofilm living in the Rio Rosso stream represents a peculiar ecosystem where microorganisms cope with metalloid toxicity likely using diverse mechanisms. Such microbial metabolic properties might be exploited in bioremediation strategies applied in arsenic-contaminated environments.</p>


Author(s):  
Agnia Galachyants ◽  
Irina Tomberg ◽  
Elena Sukhanova ◽  
Yulia Shtykova ◽  
Maria Suslova ◽  
...  

An aquatic surface microlayer covers more than 70% of the world’s surface. Our knowledge about the biology of the surface microlayer of Lake Baikal, the most ancient lake on Earth with a surface area of 31,500 km2, is still scarce. The total bacterial abundance, the number of cultured heterotrophic temporal bacteria, and the spatial distribution of bacteria in the surface microlayer and underlying waters of Lake Baikal were studied. For the first time, the chemical composition of the surface microlayer of Lake Baikal was determined. There were significant differences and a direct relationship between the total bacterial abundance in the surface microlayer and underlying waters of Lake Baikal, as well as between the number of cultured heterotrophic bacteria in studied water layers in the period of summer stratification. In the surface microlayer, the share of cultured heterotrophic bacteria was higher than in the underlying waters. The surface microlayer was characterized by enrichment with PO43−, total organic carbon and suspended particulate matter compared to underlying waters. A direct relationship was found between the number of bacteria in the surface microlayer and environmental factors, including temperature, total organic carbon and suspended particulate matter concentration.


Microbiology ◽  
2016 ◽  
Vol 85 (5) ◽  
pp. 604-613 ◽  
Author(s):  
A. D. Galach’yants ◽  
N. L. Bel’kova ◽  
E. V. Sukhanova ◽  
V. A. Romanovskaya ◽  
G. V. Gladka ◽  
...  

2021 ◽  
Vol 9 (4) ◽  
pp. 842
Author(s):  
Agnia Dmitrievna Galachyants ◽  
Andrey Yurjevich Krasnopeev ◽  
Galina Vladimirovna Podlesnaya ◽  
Sergey Anatoljevich Potapov ◽  
Elena Viktorovna Sukhanova ◽  
...  

The diversity of aerobic anoxygenic phototrophs (AAPs) and rhodopsin-containing bacteria in the surface microlayer, water column, and epilithic biofilms of Lake Baikal was studied for the first time, employing pufM and rhodopsin genes, and compared to 16S rRNA diversity. We detected pufM-containing Alphaproteobacteria (orders Rhodobacterales, Rhizobiales, Rhodospirillales, and Sphingomonadales), Betaproteobacteria (order Burkholderiales), Gemmatimonadetes, and Planctomycetes. Rhodobacterales dominated all the studied biotopes. The diversity of rhodopsin-containing bacteria in neuston and plankton of Lake Baikal was comparable to other studied water bodies. Bacteroidetes along with Proteobacteria were the prevailing phyla, and Verrucomicrobia and Planctomycetes were also detected. The number of rhodopsin sequences unclassified to the phylum level was rather high: 29% in the water microbiomes and 22% in the epilithon. Diversity of rhodopsin-containing bacteria in epilithic biofilms was comparable with that in neuston and plankton at the phyla level. Unweighted pair group method with arithmetic mean (UPGMA) and non-metric multidimensional scaling (NMDS) analysis indicated a distinct discrepancy between epilithon and microbial communities of water (including neuston and plankton) in the 16S rRNA, pufM and rhodopsin genes.


Author(s):  
Ekaterina Zimens ◽  
Elena Sukhanova ◽  
Olga Belykh

This is the first time the data on the antibiotic resistance of heterotrophic bacteria were obtained. These bacteria were isolated from fouling of stone substrates and also from «healthy» and «diseased» sponges of Lake Baikal. We have analysed 377 strains for the resistance to 11 antimicrobial agents. 133 of them were isolated from the water column, 277 from stone fouling, 17 from «healthy» sponges, and 20 from «diseased» sponges of Lake Baikal. We have revealed 9 sensitive strains and 36 strains resistant to all antibiotics. A high percentage of bacterial strains from both plankton (34–82 %) and periphyton (23–94 %) are resistant to a number of broad-spectrum antibiotics. At the same time, they have different sensitivity to azithromycin, vancomycin, tetracycline, and meropenem. The strains isolated from periphyton showed the most effective antimicrobial activity to azithromycin, tetracycline and meroperem; those isolated from water showed the most effective antimicrobial activity to meroperem. The strains sensitive to antibiotics (18–71 %) prevail in the microbial community of «healthy» sponges. At the same time, the microbial community of «diseased» sponges has a larger share of sensitive strains, which accounts for 30–75 %. The proportion of resistant strains with gram-negative cell wall is higher for most antibiotics compared to the gram-positive bacteria.


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