Microbial diversity and hydrocarbon depletion in low and high diesel-polluted soil samples from Keller Peninsula, South Shetland Islands

Cury, José; Jurelevicius, Diogo; Villela, Helena; Jesus, Hugo Emiliano de; Peixoto, Raquel S.; Schaefer, Carlos Ernesto Gonçalves Reynaud; Bı́cego, Márcia Caruso; Seldin, Lucy; Rosado, Alexandre Soares

doi:10.1017/s0954102014000728

Cited by 31 publications

(19 citation statements)

References 38 publications

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“…Bioaugmentation or microbiome manipulation approaches are also very useful for the bioremediation of contaminated sites (Santos et al, 2011; Cury et al, 2015; Jesus et al, 2015). Even within these well-defined systems, microbiome manipulation is challenging due to the evolving and complex nature of host/microorganism interactions.…”

Section: Challenges and Concernsmentioning

confidence: 99%

Beneficial Microorganisms for Corals (BMC): Proposed Mechanisms for Coral Health and Resilience

et al. 2017

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The symbiotic association between the coral animal and its endosymbiotic dinoflagellate partner Symbiodinium is central to the success of corals. However, an array of other microorganisms associated with coral (i.e., Bacteria, Archaea, Fungi, and viruses) have a complex and intricate role in maintaining homeostasis between corals and Symbiodinium. Corals are sensitive to shifts in the surrounding environmental conditions. One of the most widely reported responses of coral to stressful environmental conditions is bleaching. During this event, corals expel Symbiodinium cells from their gastrodermal tissues upon experiencing extended seawater temperatures above their thermal threshold. An array of other environmental stressors can also destabilize the coral microbiome, resulting in compromised health of the host, which may include disease and mortality in the worst scenario. However, the exact mechanisms by which the coral microbiome supports coral health and increases resilience are poorly understood. Earlier studies of coral microbiology proposed a coral probiotic hypothesis, wherein a dynamic relationship exists between corals and their symbiotic microorganisms, selecting for the coral holobiont that is best suited for the prevailing environmental conditions. Here, we discuss the microbial-host relationships within the coral holobiont, along with their potential roles in maintaining coral health. We propose the term BMC (Beneficial Microorganisms for Corals) to define (specific) symbionts that promote coral health. This term and concept are analogous to the term Plant Growth Promoting Rhizosphere (PGPR), which has been widely explored and manipulated in the agricultural industry for microorganisms that inhabit the rhizosphere and directly or indirectly promote plant growth and development through the production of regulatory signals, antibiotics and nutrients. Additionally, we propose and discuss the potential mechanisms of the effects of BMC on corals, suggesting strategies for the use of this knowledge to manipulate the microbiome, reversing dysbiosis to restore and protect coral reefs. This may include developing and using BMC consortia as environmental “probiotics” to improve coral resistance after bleaching events and/or the use of BMC with other strategies such as human-assisted acclimation/adaption to shifting environmental conditions.

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Section: Challenges and Concernsmentioning

confidence: 99%

Beneficial Microorganisms for Corals (BMC): Proposed Mechanisms for Coral Health and Resilience

et al. 2017

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“…Numerous studies have shown that the bssA and bssAlike genes can serve as biomarkers for the in situ anaerobic degradation of toluene and xylenes (Krieger et al, 1999;Andreoni and Gianfreda, 2007;Kazy et al, 2010;Cury et al, 2015). These studies are most frequently conducted in surface environments or in shallow aquifers.…”

Section: Bssa Detection Assay By Pcrmentioning

confidence: 99%

The sequence capture by hybridization: a new approach for revealing the potential of mono‐aromatic hydrocarbons bioattenuation in a deep oligotrophic aquifer

Ranchou-Peyruse

Gasc

Guignard

et al. 2016

Microbial Biotechnology

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SummaryThe formation water of a deep aquifer (853 m of depth) used for geological storage of natural gas was sampled to assess the mono‐aromatic hydrocarbons attenuation potential of the indigenous microbiota. The study of bacterial diversity suggests that Firmicutes and, in particular, sulphate‐reducing bacteria (Peptococcaceae) predominate in this microbial community. The capacity of the microbial community to biodegrade toluene and m‐ and p‐xylenes was demonstrated using a culture‐based approach after several hundred days of incubation. In order to reveal the potential for biodegradation of these compounds within a shorter time frame, an innovative approach named the solution hybrid selection method, which combines sequence capture by hybridization and next‐generation sequencing, was applied to the same original water sample. The bssA and bssA‐like genes were investigated as they are considered good biomarkers for the potential of toluene and xylene biodegradation. Unlike a PCR approach which failed to detect these genes directly from formation water, this innovative strategy demonstrated the presence of the bssA and bssA‐like genes in this oligotrophic ecosystem, probably harboured by Peptococcaceae. The sequence capture by hybridization shows significant potential to reveal the presence of genes of functional interest which have low‐level representation in the biosphere.

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“…The aqueous solubility of a contaminant correlates inversely with adsorption, which is another factor that can disturb the bioavailability [37], because when the contaminant is absorbed by organic soils, its bioavailability decreases, and biodegradation tends to stop. In that situation, previous research has suggested that cold-active solubilizing agents could be a good option to solve this problem [33], such as the bioemulsifiers produced from the bacterial strains [38,39]. In the Antarctic continent, some of the organic soils are called ornithogenic soils; they are important for the presence of penguins and have special characteristics such as acidic pH and higher nutrient levels [16].…”

Section: Environmental Factors and Bioremediation Techniques Appliedmentioning

confidence: 99%

“…T-RFLP 16S rRNA (27f-1389r) [99,100] RFLP AlkB (alkH1F2/alkH3R) [56] Dot-Blot nahH (nahH-F/nahH-R; C23OeF/C23OeR) nahAc (nahAc-F/nahAc-RP/nahAc-RR ;Ac114-F/Ac114-R) alkB (alkB-F/alkB-R) [99,100] Southern-blot nahH (nahH-F/nahH-R; C23OeF/C23OeR) nahAc (nahAc-F/nahAc-RP/nahAc-RR ;Ac114-F/Ac114-R) alkB (alkB-F/alkB-R) [ Clone libraries 16S rRNA (341-F/907-R) [42] Clone libraries 16S rRNA (519f-1392r) [76] Clone libraries alkB (alk-H1F ; alk-H3R) [39] Clone libraries PAH-RHDα(PAH-RHDαGP-F/PAH-RHDαGP-R); PAH-RHDα [GN] (PAH-RHDαGN-F/PAH-RHDαGN-R) [55] Clone libraries 16S rRNA (27F/1492R) [50] Clone libraries PAH-RHDαGP (PAH-RHDαGP-F ; PAH-RHDαGP-R); xylE (xylE-F/xylE-R) [69] Real time PCR 16S rRNA (341F/534R); phoA ( phoA F/phoA R) [50] Real time PCR alkB (alkBFd-alkBRd) [77] Real time PCR 16S rRNA gene (968F-1401R) ; PAH-RHDα (GPF-GPR/GNF-GNR) [69] Sequencing alkB (alkH3R) [56] Conventional PCR alkB Competitive PCR cndoB (L-ndoB/R-cndoB) [72] RT-PCR alkB2 (RH L-alkB2/RH R-alkB2); C23DO (cat2,3 1a-F/cat2,3 6a-R); ndoB (L-ndoB/R-ndoB) [72] Operational Protein Families a high concentration of fertilizer resulted in the highest degradation level. Four years later, the copy number of the alkB gene increased only in the control treatment (chronically contaminated), which was likely due to the remaining contamination [83], and the bioremediation process continued to have an effect when the alkane level was driven to almost zero.…”

Section: Molecular Techniques Target Region and Primers/probes Used Rmentioning

confidence: 99%

Bioremediation in Antarctic Soils

Jesus¹,

Peixoto²,

Àlex³

et al. 2015

J Pet Environ Biotechnol

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With the increase in human activities in cold environments, the risk of an oil spill has become higher due to the necessity of using oils to generate energy. Several accidents have occurred in the Arctic and Antarctic involving severely contaminated areas and chronic levels of contamination. In the Antarctic, the main occupations are permanent scientific and military stations, most of which are active throughout the year. Several studies evaluating the potential for biodegradation were performed using Antarctic soils, and the results were promising; however, there are no studies on the bioremediation process in soils from the core of the continent, only from the shore regions. The Antarctic continent contains a diverse microbial community that can degrade oils even under extreme conditions. In this regard, bioremediation treatments are indicated to promote a sustainable, low-cost and efficient recovery process that must be performed as soon as possible after the spill to improve this efficiency. This paper provides an unprecedented review of the bioremediation process exclusive to Antarctic soils; provides the necessary knowledge for consolidating the bioremediation process in the Antarctic environment; and suggests strategies for applying these techniques.

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Microbial diversity and hydrocarbon depletion in low and high diesel-polluted soil samples from Keller Peninsula, South Shetland Islands

Cited by 31 publications

References 38 publications

Beneficial Microorganisms for Corals (BMC): Proposed Mechanisms for Coral Health and Resilience

Beneficial Microorganisms for Corals (BMC): Proposed Mechanisms for Coral Health and Resilience

The sequence capture by hybridization: a new approach for revealing the potential of mono‐aromatic hydrocarbons bioattenuation in a deep oligotrophic aquifer

Bioremediation in Antarctic Soils

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