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Roldán DM, Amarelle V. Identification of novel broad host-range promoter sequences functional in diverse Pseudomonadota by a promoter-trap approach. Braz J Microbiol 2024:10.1007/s42770-024-01512-w. [PMID: 39259478 DOI: 10.1007/s42770-024-01512-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2024] [Accepted: 09/02/2024] [Indexed: 09/13/2024] Open
Abstract
Finding novel promoter sequences is a cornerstone of synthetic biology. To contribute to the expanding catalog of biological parts, we employed a promoter-trap approach to identify novel sequences within an Antarctic microbial community that act as broad host-range promoters functional in diverse Pseudomonadota. Using Pseudomonas putida KT2440 as host, we generated a library comprising approximately 2,000 clones resulting in the identification of thirteen functional promoter sequences, thereby expanding the genetic toolkit available for this chassis. Some of the discovered promoter sequences prove to be broad host-range as they drove gene expression not only in P. putida KT2440 but also in Escherichia coli DH5α, Cupriavidus taiwanensis R1T, Paraburkholderia phymatum STM 815T, Ensifer meliloti 1021, and an indigenous Antarctic bacterium, Pseudomonas sp. UYIF39. Our findings enrich the existing catalog of biological parts, offering a repertoire of broad host-range promoter sequences that exhibit functionality across diverse members of the phylum Pseudomonadota, proving Antarctic microbial community as a valuable resource for prospecting new biological parts for synthetic biology.
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Affiliation(s)
- Diego M Roldán
- Departamento de Bioquímica y Genómica Microbianas, Instituto de Investigaciones Biológicas Clemente Estable, Av. Italia 3318, Montevideo, 11600, Uruguay
| | - Vanesa Amarelle
- Departamento de Bioquímica y Genómica Microbianas, Instituto de Investigaciones Biológicas Clemente Estable, Av. Italia 3318, Montevideo, 11600, Uruguay.
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2
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Demin KA, Prazdnova EV, Minkina TM, Gorovtsov AV. Sulfate-reducing bacteria unearthed: ecological functions of the diverse prokaryotic group in terrestrial environments. Appl Environ Microbiol 2024; 90:e0139023. [PMID: 38551370 PMCID: PMC11022543 DOI: 10.1128/aem.01390-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/18/2024] Open
Abstract
Sulfate-reducing prokaryotes (SRPs) are essential microorganisms that play crucial roles in various ecological processes. Even though SRPs have been studied for over a century, there are still gaps in our understanding of their biology. In the past two decades, a significant amount of data on SRP ecology has been accumulated. This review aims to consolidate that information, focusing on SRPs in soils, their relation to the rare biosphere, uncultured sulfate reducers, and their interactions with other organisms in terrestrial ecosystems. SRPs in soils form part of the rare biosphere and contribute to various processes as a low-density population. The data reveal a diverse range of sulfate-reducing taxa intricately involved in terrestrial carbon and sulfur cycles. While some taxa like Desulfitobacterium and Desulfosporosinus are well studied, others are more enigmatic. For example, members of the Acidobacteriota phylum appear to hold significant importance for the terrestrial sulfur cycle. Many aspects of SRP ecology remain mysterious, including sulfate reduction in different bacterial phyla, interactions with bacteria and fungi in soils, and the existence of soil sulfate-reducing archaea. Utilizing metagenomic, metatranscriptomic, and culture-dependent approaches will help uncover the diversity, functional potential, and adaptations of SRPs in the global environment.
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Vieira ÍS, Oliveira FSDE, Michel RFM. Spatial and Scientometric study of the Brazilian scientific production on Antarctic soils and permafrost. AN ACAD BRAS CIENC 2023; 95:e20230823. [PMID: 38126387 DOI: 10.1590/0001-3765202320230823] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Accepted: 11/04/2023] [Indexed: 12/23/2023] Open
Abstract
This article carried out the first scientometric and spatial analysis of Brazilian scientific production on Antarctic soils and permafrost, based on all publications available from the Scopus and Web of Science databases. Information on co-authorship, citation, research topics, and sampling sites was used to understand the social and theoretical structure as well as the spatial dynamics of this research field in Brazil over the last 25 years. We highlight that Brazil is presently, the main country to study the soils and permafrost of Maritime Antarctica, in addition to having an international robust and prolific production, with high impact on the literature, and widely distributed throughout the studied region. It was also possible to identify potential future international partners, new research locations and strategic research themes.
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Affiliation(s)
- Ícaro S Vieira
- Federal University of Minas Gerais, Institute of Geosciences, Av. Antônio Carlos, 6.627, Pampulha, 31270-901 Belo Horizonte, MG, Brazil
| | - Fábio S DE Oliveira
- Federal University of Minas Gerais, Institute of Geosciences, Av. Antônio Carlos, 6.627, Pampulha, 31270-901 Belo Horizonte, MG, Brazil
| | - Roberto F M Michel
- Santa Cruz State University, Department of Agrarian and Environmental Sciences, Rod. Jorge Amado, Km 16, 45662-900 Ilhéus, BA, Brazil
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Pino-Otín MR, Lorca G, Val J, Ferrando N, Ballestero D, Langa E. Ecotoxicological Study of Tannic Acid on Soil and Water Non-Target Indicators and Its Impact on Fluvial and Edaphic Communities. PLANTS (BASEL, SWITZERLAND) 2023; 12:4041. [PMID: 38068678 PMCID: PMC10708037 DOI: 10.3390/plants12234041] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Revised: 11/24/2023] [Accepted: 11/27/2023] [Indexed: 09/07/2024]
Abstract
Tannic acid (TA) is a key tannin extensively used in the leather industry, contributing to around 90% of global leather production. This practice leads to the generation of highly polluting effluents, causing environmental harm to aquatic ecosystems. Additionally, tannins like TA degrade slowly under natural conditions. Despite efforts to reduce pollutant effluents, limited attention has been devoted to the direct environmental impact of tannins. Moreover, TA has garnered increased attention mainly due to its applications as an antibacterial agent and anti-carcinogenic compound. However, our understanding of its ecotoxicological effects remains incomplete. This study addresses this knowledge gap by assessing the ecotoxicity of TA on non-target indicator organisms in both water (Vibrio fischeri, Daphnia magna) and soil environments (Eisenia foetida, Allium cepa), as well as natural fluvial and edaphic communities, including periphyton. Our findings offer valuable insights into TA's ecotoxicological impact across various trophic levels, underscoring the need for more comprehensive investigations in complex ecosystems. Our results demonstrate that TA exhibits ecotoxicity towards specific non-target aquatic organisms, particularly V. fischeri and D. magna, and phytotoxicity on A. cepa. The severity of these effects varies, with V. fischeri being the most sensitive, followed by D. magna and A. cepa. However, the soil-dwelling invertebrate E. foetida shows resistance to the tested TA concentrations. Furthermore, our research reveals that substantial TA concentrations are required to reduce the growth of river microbial communities. Metabolic changes, particularly in amino acid and amine metabolism, are observed at lower concentrations. Notably, the photosynthetic yield of river periphyton remains unaffected, even at higher concentrations. In contrast, soil microbial communities exhibit greater sensitivity, with significant alterations in population growth and metabolic profiles at a very low concentration of 0.2 mg/L for all metabolites. In summary, this study offers valuable insights into the ecotoxicological effects of TA on both aquatic and terrestrial environments. It underscores the importance of considering a variety of non-target organisms and complex communities when assessing the environmental implications of this compound.
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Bendia AG, Moreira JCF, Ferreira JCN, Romano RG, Ferreira IGC, Franco DC, Evangelista H, Montone RC, Pellizari VH. Insights into Antarctic microbiomes: diversity patterns for terrestrial and marine habitats. AN ACAD BRAS CIENC 2023; 95:e20211442. [PMID: 37820122 DOI: 10.1590/0001-3765202320211442] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Accepted: 08/27/2022] [Indexed: 10/13/2023] Open
Abstract
Microorganisms in Antarctica are recognized for having crucial roles in ecosystems functioning and biogeochemical cycles. To explore the diversity and composition of microbial communities through different terrestrial and marine Antarctic habitats, we analyze 16S rRNA sequence datasets from fumarole and marine sediments, soil, snow and seawater environments. We obtained measures of alpha- and beta-diversities, as well as we have identified the core microbiome and the indicator microbial taxa of a particular habitat. Our results showed a unique microbial community structure according to each habitat, including specific taxa composing each microbiome. Marine sediments harbored the highest microbial diversity among the analyzed habitats. In the fumarole sediments, the core microbiome was composed mainly of thermophiles and hyperthermophilic Archaea, while in the majority of soil samples Archaea was absent. In the seawater samples, the core microbiome was mainly composed by cultured and uncultured orders usually identified on Antarctic pelagic ecosystems. Snow samples exhibited common taxa previously described for habitats of the Antarctic Peninsula, which suggests long-distance dispersal processes occurring from the Peninsula to the Continent. This study contributes as a baseline for further efforts on evaluating the microbial responses to environmental conditions and future changes.
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Affiliation(s)
- Amanda G Bendia
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Julio Cezar F Moreira
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Juliana C N Ferreira
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Renato G Romano
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Ivan G C Ferreira
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Diego C Franco
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Heitor Evangelista
- Universidade do Estado do Rio de Janeiro (UERJ), Instituto de Biologia Roberto Alcantara Gomes, Maracanã, 20550-013 Rio de Janeiro, RJ, Brazil
| | - Rosalinda C Montone
- Universidade de São Paulo (USP), Departamento de Oceanografia Física, Química e Geológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
| | - Vivian Helena Pellizari
- Universidade de São Paulo (USP), Departamento de Oceanografia Biológica, Instituto Oceanográfico, Cidade Universitária, Praça do Oceanográfico, 191, 05508-900 São Paulo, SP, Brazil
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Liu Y, Chen S, Wang J, Shao B, Fang J, Cao J. The Phylogeny, Metabolic Potentials, and Environmental Adaptation of an Anaerobe, Abyssisolibacter sp. M8S5, Isolated from Cold Seep Sediments of the South China Sea. Microorganisms 2023; 11:2156. [PMID: 37764000 PMCID: PMC10536192 DOI: 10.3390/microorganisms11092156] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2023] [Revised: 08/17/2023] [Accepted: 08/24/2023] [Indexed: 09/29/2023] Open
Abstract
Bacillota are widely distributed in various environments, owing to their versatile metabolic capabilities and remarkable adaptation strategies. Recent studies reported that Bacillota species were highly enriched in cold seep sediments, but their metabolic capabilities, ecological functions, and adaption mechanisms in the cold seep habitats remained obscure. In this study, we conducted a systematic analysis of the complete genome of a novel Bacillota bacterium strain M8S5, which we isolated from cold seep sediments of the South China Sea at a depth of 1151 m. Phylogenetically, strain M8S5 was affiliated with the genus Abyssisolibacter within the phylum Bacillota. Metabolically, M8S5 is predicted to utilize various carbon and nitrogen sources, including chitin, cellulose, peptide/oligopeptide, amino acids, ethanolamine, and spermidine/putrescine. The pathways of histidine and proline biosynthesis were largely incomplete in strain M8S5, implying that its survival strictly depends on histidine- and proline-related organic matter enriched in the cold seep ecosystems. On the other hand, strain M8S5 contained the genes encoding a variety of extracellular peptidases, e.g., the S8, S11, and C25 families, suggesting its capabilities for extracellular protein degradation. Moreover, we identified a series of anaerobic respiratory genes, such as glycine reductase genes, in strain M8S5, which may allow it to survive in the anaerobic sediments of cold seep environments. Many genes associated with osmoprotectants (e.g., glycine betaine, proline, and trehalose), transporters, molecular chaperones, and reactive oxygen species-scavenging proteins as well as spore formation may contribute to its high-pressure and low-temperature adaptations. These findings regarding the versatile metabolic potentials and multiple adaptation strategies of strain M8S5 will expand our understanding of the Bacillota species in cold seep sediments and their potential roles in the biogeochemical cycling of deep marine ecosystems.
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Affiliation(s)
- Ying Liu
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (Y.L.); (J.W.); (B.S.)
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou 535000, China
| | - Songze Chen
- Shenzhen Ecological and Environmental Monitoring Center of Guangdong Province, Shenzhen 518049, China;
| | - Jiahua Wang
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (Y.L.); (J.W.); (B.S.)
| | - Baoying Shao
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (Y.L.); (J.W.); (B.S.)
| | - Jiasong Fang
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (Y.L.); (J.W.); (B.S.)
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266000, China
| | - Junwei Cao
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China; (Y.L.); (J.W.); (B.S.)
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7
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Jiao H, Liu L, Wang R, Qin W, Zhang B. The rhizosphere Microbiome of Malus sieversii (Ldb.) Roem. in the geographic and environmental gradients of China's Xinjiang. BMC Microbiol 2023; 23:26. [PMID: 36681818 PMCID: PMC9862814 DOI: 10.1186/s12866-023-02763-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Accepted: 01/10/2023] [Indexed: 01/22/2023] Open
Abstract
Malus sieversii (Ldb.) Roem. is the original species of modern cultivated apple and a key national essential conservation plant in China. In recent years, degradation and death of wild apple has been exacerbated by imbalances in the rhizosphere micro-ecosystems of wild apple forests due to soil nutrient loss, grazing, climate change and pest and disease outbreaks. However, the structure, diversity and response to environmental factors of wild apple rhizosphere microbial communities are so far unclear. In this study, the rhizosphere bacterial and eukaryotic communities of M. sieversii (Ldb.) Roem. in eight regions of the Yili River were analyzed using 16S/18S rDNA high-throughput sequencing technology. The results indicated that the bacterial operational taxonomic units (OTUs), Shannon index, and community composition were significantly lower in regions A, E, and F than in other regions. By contrast, the dominant eukaryotic communities in all regions were relatively similar in composition and differed less than the relative abundance of bacterial communities. Geographical and climatic distance were found to be key factors influencing the composition and diversity of wild apple rhizosphere microbial communities through mantel analysis. Moreover, these factors above were more correlated with bacterial diversity than with eukaryotes. This study identified the structure of wild apple rhizosphere microbial communities in Xinjiang and their interaction mechanisms under geographical and environmental gradients. It provides guidance for the sustainable management and ecological construction of wild apple forests in China.
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Affiliation(s)
- Huiying Jiao
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China
| | - Liqiang Liu
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China
| | - Ruizhe Wang
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China
| | - Wei Qin
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China.
| | - Bo Zhang
- Faculty of Resources and Environment, Xinjiang Agricultural University, Urumqi, 830052, China
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Yan H, Cong M, Hu Y, Qiu C, Yang Z, Tang G, Xu W, Zhu X, Sun X, Jia H. Biochar-mediated changes in the microbial communities of rhizosphere soil alter the architecture of maize roots. Front Microbiol 2022; 13:1023444. [PMID: 36267182 PMCID: PMC9577002 DOI: 10.3389/fmicb.2022.1023444] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Accepted: 09/16/2022] [Indexed: 01/10/2023] Open
Abstract
Aeolian sandy soil is a key resource for supporting food production on a global scale; however, the growth of crops in Aeolian sandy soil is often impaired due to its poor physical properties and lack of nutrients and organic matter. Biochar can be used to enhance the properties of Aeolian sandy soil and create an environment more suitable for crop growth, but the long-term effects of biochar on Aeolian sandy soil and microbial communities need to be clarified. Here, a field experiment was conducted in which biochar was applied to a maize (Zea mays L.) field in a single application at different rates: CK, 0 Mg ha-1; C1, 15.75 Mg ha-1; C2, 31.50 Mg ha-1; C3, 63.00 Mg ha-1; and C4, 126.00 Mg ha-1. After 7 years of continuous maize cropping, verify the relationship between root architecture and soil microbial communities under biochar application using a root scanner and 16S/ITS rRNA gene sequencing. The application of biochar promoted the growth of maize. Specifically, total root length, total root surface area, total root volume, and root biomass were 13.99-17.85, 2.52-4.69, 23.61-44.41, and 50.61-77.80% higher in treatments in which biochar was applied (C2, C3, and C4 treatments) compared with the control treatment, respectively. Biochar application increased the diversity of bacterial communities, the ACE index, and Chao 1 index of C1, C2, C3, and C4 treatments increased by 5.83-8.96 and 5.52-8.53%, respectively, compared with the control treatment, and significantly changed the structure of the of bacterial communities in rhizosphere soil. However, there was no significant change in the fungal community. The growth of maize roots was more influenced by rhizosphere bacteria and less by fungal community. A microbial co-occurrence network revealed strong associations among rhizosphere microorganisms. The core taxa (Module hubs taxa) of the bulk soil microbial co-occurrence network were closely related to the total length and total surface area of maize roots, and the core taxa (Connectors taxa) of the rhizosphere soil were closely related to total root length. Overall, our findings indicate that the application of biochar promotes the growth of maize roots in aeolian sandy soil through its effects on bacterial communities in rhizosphere soil.
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Affiliation(s)
- Han Yan
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
| | - Mengfei Cong
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
| | - Yang Hu
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
- Xinjiang Key Laboratory of Soil and Plant Ecological Processes, Urumqi, China
| | - Chunchen Qiu
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
| | - Zailei Yang
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
- Xinjiang Key Laboratory of Soil and Plant Ecological Processes, Urumqi, China
| | - Guangmu Tang
- Institute of Soil and Fertilizer and Agricultural Sparing Water, Xinjiang Academy of Agricultural Science, Urumqi, China
- Key Laboratory of Saline-Alkali Soil Improvement and Utilization (Saline-Alkali Land in Arid and Semi-Arid Regions), Ministry of Agriculture and Rural Affairs, Urumqi, China
| | - Wanli Xu
- Institute of Soil and Fertilizer and Agricultural Sparing Water, Xinjiang Academy of Agricultural Science, Urumqi, China
- Key Laboratory of Saline-Alkali Soil Improvement and Utilization (Saline-Alkali Land in Arid and Semi-Arid Regions), Ministry of Agriculture and Rural Affairs, Urumqi, China
| | - Xinping Zhu
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
- Xinjiang Key Laboratory of Soil and Plant Ecological Processes, Urumqi, China
| | - Xia Sun
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
- Xinjiang Key Laboratory of Soil and Plant Ecological Processes, Urumqi, China
| | - Hongtao Jia
- Xinjiang Agricultural University, College of Resources and Environment, Urumqi, China
- Xinjiang Key Laboratory of Soil and Plant Ecological Processes, Urumqi, China
- Key Laboratory of Saline-Alkali Soil Improvement and Utilization (Saline-Alkali Land in Arid and Semi-Arid Regions), Ministry of Agriculture and Rural Affairs, Urumqi, China
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Schultz J, Argentino ICV, Kallies R, Nunes da Rocha U, Rosado AS. Polyphasic Analysis Reveals Potential Petroleum Hydrocarbon Degradation and Biosurfactant Production by Rare Biosphere Thermophilic Bacteria From Deception Island, an Active Antarctic Volcano. Front Microbiol 2022; 13:885557. [PMID: 35602031 PMCID: PMC9114708 DOI: 10.3389/fmicb.2022.885557] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 04/14/2022] [Indexed: 01/19/2023] Open
Abstract
Extreme temperature gradients in polar volcanoes are capable of selecting different types of extremophiles. Deception Island is a marine stratovolcano located in maritime Antarctica. The volcano has pronounced temperature gradients over very short distances, from as high as 100°C in the fumaroles to subzero next to the glaciers. These characteristics make Deception a promising source of a variety of bioproducts for use in different biotechnological areas. In this study, we isolated thermophilic bacteria from sediments in fumaroles at two geothermal sites on Deception Island with temperatures between 50 and 100°C, to evaluate the potential capacity of these bacteria to degrade petroleum hydrocarbons and produce biosurfactants under thermophilic conditions. We isolated 126 thermophilic bacterial strains and identified them molecularly as members of genera Geobacillus, Anoxybacillus, and Brevibacillus (all in phylum Firmicutes). Seventy-six strains grew in a culture medium supplemented with crude oil as the only carbon source, and 30 of them showed particularly good results for oil degradation. Of 50 strains tested for biosurfactant production, 13 showed good results, with an emulsification index of 50% or higher of a petroleum hydrocarbon source (crude oil and diesel), emulsification stability at 100°C, and positive results in drop-collapse, oil spreading, and hemolytic activity tests. Four of these isolates showed great capability of degrade crude oil: FB2_38 (Geobacillus), FB3_54 (Geobacillus), FB4_88 (Anoxybacillus), and WB1_122 (Geobacillus). Genomic analysis of the oil-degrading and biosurfactant-producer strain FB4_88 identified it as Anoxybacillus flavithermus, with a high genetic and functional diversity potential for biotechnological applications. These initial culturomic and genomic data suggest that thermophilic bacteria from this Antarctic volcano have potential applications in the petroleum industry, for bioremediation in extreme environments and for microbial enhanced oil recovery (MEOR) in reservoirs. In addition, recovery of small-subunit rRNA from metagenomes of Deception Island showed that Firmicutes is not among the dominant phyla, indicating that these low-abundance microorganisms may be important for hydrocarbon degradation and biosurfactant production in the Deception Island volcanic sediments.
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Affiliation(s)
- Júnia Schultz
- Microbial Ecogenomics and Biotechnology Laboratory, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.,Red Sea Research Center, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | | | - René Kallies
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research-UFZ, Leipzig, Germany
| | - Ulisses Nunes da Rocha
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research-UFZ, Leipzig, Germany
| | - Alexandre Soares Rosado
- Microbial Ecogenomics and Biotechnology Laboratory, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.,Red Sea Research Center, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.,Bioscience Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
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10
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Severgnini M, Canini F, Consolandi C, Camboni T, Paolo D'Acqui L, Mascalchi C, Ventura S, Zucconi L. Highly differentiated soil bacterial communities in Victoria Land macro-areas (Antarctica). FEMS Microbiol Ecol 2021; 97:6307020. [PMID: 34151349 DOI: 10.1093/femsec/fiab087] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Accepted: 06/17/2021] [Indexed: 11/13/2022] Open
Abstract
Ice-free areas of Victoria Land, in Antarctica, are characterized by different terrestrial ecosystems, that are dominated by microorganisms supporting highly adapted communities. Despite the unique conditions of these ecosystems, reports on their bacterial diversity are still fragmentary. From this perspective, 60 samples from 14 localities were analyzed. These localities were distributed in coastal sites with differently developed biological soil crusts, inner sites in the McMurdo Dry Valleys with soils lacking of plant coverage, and a site called Icarus Camp, with a crust developed on a thin locally weathered substrate of the underlying parent granitic-rock. Bacterial diversity was studied through 16S rRNA metabarcoding sequencing. Communities diversity, composition and the abundance and composition of different taxonomic groups were correlated to soil physicochemical characteristics. Firmicutes, Bacteroidetes, Cyanobacteria and Proteobacteria dominated these communities. Most phyla were mainly driven by soil granulometry, an often disregarded parameter and other abiotic parameters. Bacterial composition differed greatly among the three macrohabitats, each having a distinct bacterial profile. Communities within the two main habitats (coastal and inner ones) were well differentiated from each other as well, therefore depending on site-specific physicochemical characteristics. A core community of the whole samples was observed, mainly represented by Firmicutes and Bacteroidetes.
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Affiliation(s)
- Marco Severgnini
- Institute of Biomedical Technologies, National Research Council (ITB-CNR), via f.lli Cervi, 93, 20054, Segrate, Italy
| | - Fabiana Canini
- Department of Ecological and Biological Sciences, University of Tuscia, Largo dell'Università s.n.c., 01100, Viterbo, Italy
| | - Clarissa Consolandi
- Institute of Biomedical Technologies, National Research Council (ITB-CNR), via f.lli Cervi, 93, 20054, Segrate, Italy
| | - Tania Camboni
- Institute of Biomedical Technologies, National Research Council (ITB-CNR), via f.lli Cervi, 93, 20054, Segrate, Italy
| | - Luigi Paolo D'Acqui
- Terrestria Ecosystems Research Institute, National Research Council (IRET-CNR), Via Madonna del Piano 10, 50019, Sesto Fiorentino, Italy
| | - Cristina Mascalchi
- Terrestria Ecosystems Research Institute, National Research Council (IRET-CNR), Via Madonna del Piano 10, 50019, Sesto Fiorentino, Italy
| | - Stefano Ventura
- Terrestria Ecosystems Research Institute, National Research Council (IRET-CNR), Via Madonna del Piano 10, 50019, Sesto Fiorentino, Italy.,The Italian Embassy in Israel, Trade Tower, 25 Hamered Street, 68125, Tel Aviv, Israel
| | - Laura Zucconi
- Department of Ecological and Biological Sciences, University of Tuscia, Largo dell'Università s.n.c., 01100, Viterbo, Italy
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Pino-Otín MR, Langa E, Val J, Mainar AM, Ballestero D. Impact of citronellol on river and soil environments using non-target model organisms and natural populations. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 287:112303. [PMID: 33714735 DOI: 10.1016/j.jenvman.2021.112303] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Revised: 02/24/2021] [Accepted: 02/26/2021] [Indexed: 06/12/2023]
Abstract
Citronellol is an acyclic monoterpenoid with a wide range of pharmacological activities (antibacterial, antifungal, anti-lice, repellent, lipolytic, anti-allergic, anti-inflammatory, antispasmodic, antidiabetic, anti-cholesterol, among other) and potential to replace synthetic products. However, the impact of citronellol on the environment remains unknown. We analysed, for the first time, the environmental impact of citronellol on river and soil environments using non-target model organisms and natural populations. The acute toxicity of citronellol on the aquatic invertebrate Daphnia magna, the plant Allium cepa L and the earthworm Eisenia fetida was quantified. The effect of citronellol in a river ecosystem was analysed using river periphyton communities taxonomically characterised and a river microbial community characterised through 16 S rRNA gene sequencing. Finally, a microbial community from natural soil was used to monitor the effect of citronellol on the soil ecosystem. The results showed that E. fetida was most sensitive to citronellol (LC50 = 12.34 mg/L), followed by D. magna (LC50 = 14.11 mg/L). Citronellol affected the photosynthesis of the fluvial periphyton (LC50 = 94.10 mg/L) and was phytotoxic for A. cepa. Furthermore, citronellol modified the growth and metabolism of both fluvial (LC50 = 0.19% v/v) and edaphic (LC50 = 5.07% v/v) bacterial populations. The metabolism of the microorganisms in the soil and water exposed to citronellol decreased with respect to the control, especially their ability to metabolise carbohydrates. Our results show that citronellol has a negative impact on the environment. Although acute effects cannot be expected, it is necessary to quantify the environmental levels as well as the long-term and persistent effects of this monoterpene.
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Affiliation(s)
| | - Elisa Langa
- Universidad San Jorge, Villanueva de Gállego, 50830, Zaragoza, Spain.
| | - Jonatan Val
- Universidad San Jorge, Villanueva de Gállego, 50830, Zaragoza, Spain.
| | - Ana M Mainar
- I3A, Universidad de Zaragoza, c/ Mariano Esquillor s/n, 50018, Zaragoza, Spain.
| | - Diego Ballestero
- Universidad San Jorge, Villanueva de Gállego, 50830, Zaragoza, Spain.
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Del Moral Á, Garrido-Benavent I, Durán J, Lehmann JR, Rodríguez A, Heiðmarsson S, de Los Ríos A. Are recently deglaciated areas at both poles colonised by the same bacteria? FEMS Microbiol Lett 2021; 368:6122588. [PMID: 33507249 DOI: 10.1093/femsle/fnab011] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Accepted: 01/25/2021] [Indexed: 01/05/2023] Open
Abstract
Polar glacier forefields offer an unprecedented framework for studying community assembly processes in regions that are geographically and climatically isolated. Through amplicon sequence variant (ASV) inference, we compared the composition and structure of soil bacterial communities from glacier forefields in Iceland and Antarctica to assess overlap between communities and the impact of established cryptogamic covers on the uniqueness of their taxa. These pioneer microbial communities were found to share only 8% of ASVs and each taxonomic group's contribution to the shared ASV data subset was heterogeneous and independent of their relative abundance. Although the presence of ASVs specific to one glacier forefield and/or different cryptogam cover values confirms the existence of habitat specialist bacteria, our data show that the influence of cryptogams on the edaphic bacterial community structure also varied also depending on the taxonomic group. Hence, the establishment of distinct cryptogamic covers is probably not the only factor driving the uniqueness of bacterial communities at both poles. The structure of bacterial communities colonising deglaciated areas seems also conditioned by lineage-specific limitations in their dispersal capacity and/or their establishment and persistence in these isolated and hostile regions.
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Affiliation(s)
- Álvaro Del Moral
- Department of Biogeochemistry and Microbial Ecology, National Museum of Natural Sciences (MNCN), CSIC, Serrano 115 dpdo, E-28006 Madrid, Spain.,AstrobiologyOU, School of Environment, Earth and Ecosystem Sciences, STEM Faculty, The Open University, Walton Hall, Kents Hill, MK7 6AA, Milton Keynes, UK
| | - Isaac Garrido-Benavent
- Department of Biogeochemistry and Microbial Ecology, National Museum of Natural Sciences (MNCN), CSIC, Serrano 115 dpdo, E-28006 Madrid, Spain
| | - Jorge Durán
- Centre for Functional Ecology, Department of Life Sciences, University of Coimbra, Calzada Martin de Freitas, 3000-456 Coimbra, Portugal
| | - Jan R Lehmann
- Remote Sensing and Spatial Modelling, Institute of Landscape Ecology, University of Münster, Heisenbergstrasse 2, 48149 Münster, Germany
| | - Alexandra Rodríguez
- Centre for Functional Ecology, Department of Life Sciences, University of Coimbra, Calzada Martin de Freitas, 3000-456 Coimbra, Portugal
| | - Starri Heiðmarsson
- Icelandic Institute of Natural History, Borgir vio Noroursloo 600-Akureyri, Iceland
| | - Asunción de Los Ríos
- Department of Biogeochemistry and Microbial Ecology, National Museum of Natural Sciences (MNCN), CSIC, Serrano 115 dpdo, E-28006 Madrid, Spain
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Eor JY, Tan PL, Son YJ, Lee CS, Kim SH. Milk products fermented by
Lactobacillus
strains modulate the gut–bone axis in an ovariectomised murine model. INT J DAIRY TECHNOL 2020. [DOI: 10.1111/1471-0307.12708] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Ju Young Eor
- College of Life Sciences and Biotechnology Korea University Seoul 02841 South Korea
- Institute of Life Science and Natural Resources Korea University Seoul136‐713South Korea
| | - Pei Lei Tan
- College of Life Sciences and Biotechnology Korea University Seoul 02841 South Korea
| | - Yoon Ji Son
- College of Life Sciences and Biotechnology Korea University Seoul 02841 South Korea
- Institute of Life Science and Natural Resources Korea University Seoul136‐713South Korea
| | - Chul Sang Lee
- College of Life Sciences and Biotechnology Korea University Seoul 02841 South Korea
| | - Sae Hun Kim
- College of Life Sciences and Biotechnology Korea University Seoul 02841 South Korea
- Institute of Life Science and Natural Resources Korea University Seoul136‐713South Korea
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