1
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Gómez-Leyva Y, Torrecillas A, Aboal M. Cyanotoxins in Epipelic and Epiphytic Cyanobacteria from a Hypersaline Coastal Lagoon, an Environmental Hazard in Climate Warming Times and a Potential Source of New Compounds. Mar Drugs 2024; 22:334. [PMID: 39195450 DOI: 10.3390/md22080334] [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] [Received: 06/07/2024] [Revised: 07/21/2024] [Accepted: 07/22/2024] [Indexed: 08/29/2024] Open
Abstract
Cyanobacterial biodiversity and potential toxicity in coastal lagoons have barely been studied despite these transitional water systems being very important in conservation and for the preservation of economic resources. Most of these transitional systems have been affected by eutrophication, and climate change will severely affect them by promoting cyanobacteria growth, especially in Mediterranean areas. This study aims to characterize the diversity of epipelic and epiphytic cyanobacteria species in a Mediterranean coastal lagoon and their potential for toxins production (microcystins and saxitoxins). Strains were isolated and genetically identified. Toxins were extracted and quantified by LC/MS-MS. All the taxa belong to the former Oscillatoriales. The presence of Nodosilinea and Toxifilum is reported for the first time for Spanish waters, but Pseudanabaena, Phormidium, Geitlerinema and Synechococcus also formed part of benthic mats. All the strains contained Microcystin-YR (MC-YR), but saxitoxin (STX) was present only in the extracts of Nodosilinea and Pseudanabena. MC-LY, MC-LW and [D-Asp3] MC-LR were detected in the extracts of Synechococcus and MC-LF in Toxifilum, but at concentrations that did not permit quantification. Toxins production by epipelic and epiphytic strains in coastal lagoons may represent a hazard, but also an opportunity to obtain potentially interesting compounds that should be further studied.
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Affiliation(s)
- Yerai Gómez-Leyva
- Laboratory of Algology, Faculty of Biology, Espinardo Campus, University of Murcia, E-30100 Murcia, Spain
| | - Alejandro Torrecillas
- Service of Proteomics, CAID Building, Espinardo Campus, University of Murcia, E-30100 Murcia, Spain
| | - Marina Aboal
- Laboratory of Algology, Faculty of Biology, Espinardo Campus, University of Murcia, E-30100 Murcia, Spain
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2
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Hechavarría-Hernández A, Viana JLM, Barbiero L, Rezende-Filho AT, Montes CR, Melfi AJ, Fostier AH. Spatial and seasonal variation of arsenic speciation in Pantanal soda lakes. CHEMOSPHERE 2023; 329:138672. [PMID: 37060957 DOI: 10.1016/j.chemosphere.2023.138672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2022] [Revised: 03/22/2023] [Accepted: 04/10/2023] [Indexed: 05/03/2023]
Abstract
The occurrence of high arsenic concentrations (up to 3000 μg L-1) in water of soda lakes of the Pantanal wetland is a remarkable case of natural arsenic contamination in South America. However, little is known about arsenic speciation in this environment, particularly regarding speciation changes related to lake trophic status and seasonal variations. To fill this gap, arsenic speciation analysis was carried out in surface (SW) and subsurface (SSW) waters sampled in five soda lakes with different eutrophication status, in two dry and one wet season. As(V) was the dominant species in these waters, while As(III), DMA, MMA and likely complex organic species were present in lower amounts. The results allow to conclude that the arsenic speciation in SW and SSW varies seasonally according to the regional wet or dry periods and lake water levels. In eutrophic turbid and in oligotrophic vegetated soda lakes, arsenic speciation was also characterized by spatial differences between edge and center or between the SW and SSW. Cyanobacteria or macrophytes/algae are involved in arsenic biotransformation in soda lakes through its metabolic and detoxification processes. Significant variation in surface water arsenic speciation occurs as a result of seasonal primary production fluctuation or water arsenic concentration changes in the soda lakes, increasing organoarsenics in dry periods, whereas in flood periods, As(V) prevails. Spatial distribution of arsenic species is significantly impacted by biogeochemical conditions at the water/sediment interface in soda lakes.
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Affiliation(s)
| | | | - Laurent Barbiero
- Université P. Sabatier, IRD, CNRS, OMP, Géoscience Environnement Toulouse (GET), 14 Avenue Edouard Belin, F31400, Toulouse, France
| | - Ary Tavares Rezende-Filho
- Faculty of Engineering, Architecture and Urbanism and Geography, Federal University of Mato Grosso do Sul (UFMS), Campo Grande, MS, Brazil
| | | | | | - Anne Helene Fostier
- Institute of Chemistry, University of Campinas, UNICAMP, 6154, 13083-970, Campinas, SP, Brazil.
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3
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Almeida AVM, Vaz MGMV, Castro NVD, Genuário DB, Oder JC, Souza PAMD, Martins SB, Machado M, Nunes-Nesi A, Araújo WL. How diverse a genus can be: An integrated multi-layered analysis into Desmonostoc (Nostocaceae, Cyanobacteriota). Syst Appl Microbiol 2023; 46:126422. [PMID: 37119668 DOI: 10.1016/j.syapm.2023.126422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Revised: 03/29/2023] [Accepted: 04/18/2023] [Indexed: 05/01/2023]
Abstract
Cyanobacteria (Phylum Cyanobacteriota) are Gram-negative bacteria capable of performing oxygenic photosynthesis. Although the taxonomic classification of cyanobacteria was for a long time based primarily on morphological characters, the application of other techniques (e.g. molecular phylogeny), especially in recent decades, has contributed to a better resolution of cyanobacteria systematics, leading to a revision of the phylum. Although Desmonostoc occurs as a new genus/cluster and some species have been described recently, relatively few studies have been carried out to elucidate its diversity, which encompasses strains from different ecological origins, or examine the application of new characterization tools. In this context, the present study investigated the diversity within Desmonostoc, based on morphological, molecular, metabolic, and physiological characteristics. Although the usage of physiological parameters is unusual for a polyphasic approach, they were efficient in the characterization performed here. The phylogenetic analysis based on 16S rRNA gene sequences put all studied strains (25) into the D1 cluster and indicated the emergence of novel sub-clusters. It was also possible to observe that nifD and nifH exhibited different evolutionary histories within the Desmonostoc strains. Collectively, metabolic and physiological data, coupled with the morphometric data, were in general, in good agreement with the separation based on the phylogeny of the 16S rRNA gene. Furthermore, the study provided important information on the diversity of Desmonostoc strains collected from different Brazilian biomes by revealing that they were cosmopolitan strains, acclimatized to low luminous intensities, with a large metabolic diversity and great biotechnological potential.
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Affiliation(s)
- Allan Victor M Almeida
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | | | - Naira Valle de Castro
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | - Diego Bonaldo Genuário
- Biodiversita Tecnologia Microbiana, 13148-153 Paulínia, São Paulo, Brazil; Laboratório de Microbiologia Ambiental, EMBRAPA Meio Ambiente, 13820-000 Jaguariúna, São Paulo, Brazil
| | - Jean Coutinho Oder
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | | | - Sandy Bastos Martins
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | - Mariana Machado
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | - Adriano Nunes-Nesi
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | - Wagner L Araújo
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil.
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4
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Exploring the Relationship between Biosynthetic Gene Clusters and Constitutive Production of Mycosporine-like Amino Acids in Brazilian Cyanobacteria. Molecules 2023; 28:molecules28031420. [PMID: 36771087 PMCID: PMC9918943 DOI: 10.3390/molecules28031420] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 01/12/2023] [Accepted: 01/30/2023] [Indexed: 02/05/2023] Open
Abstract
Cyanobacteria are oxygenic phototrophic prokaryotes that have evolved to produce ultraviolet-screening mycosporine-like amino acids (MAAs) to lessen harmful effects from obligatory exposure to solar UV radiation. The cyanobacterial MAA biosynthetic cluster is formed by a gene encoding 2-epi-5-epi-valiolone synthase (EVS) located immediately upstream from an O-methyltransferase (OMT) encoding gene, which together biosynthesize the expected MAA precursor 4-deoxygadusol. Accordingly, these genes are typically absent in non-producers. In this study, the relationship between gene cluster architecture and constitutive production of MAAs was evaluated in cyanobacteria isolated from various Brazilian biomes. Constitutive production of MAAs was only detected in strains where genes formed a co-linear cluster. Expectedly, this production was enhanced upon exposure of the strains to UV irradiance and by using distinct culture media. Constitutive production of MAAs was not detected in all other strains and, unexpectedly, production could not be induced by exposure to UV irradiation or changing growth media. Other photoprotection strategies which might be employed by these MAA non-producing strains are discussed. The evolutionary and ecological significance of gene order conservation warrants closer experimentation, which may provide a first insight into regulatory interactions of genes encoding enzymes for MAA biosynthesis.
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Oren A, Mareš J, Rippka† R. Validation of the names Cyanobacterium and Cyanobacterium stanieri, and proposal of Cyanobacteriota phyl. nov. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The decision by the International Committee on Systematics of Prokaryotes (ICSP) to place the rank of phylum under the rules of the International Code of Nomenclature of Prokaryotes (ICNP), with phylum names ending in –ota based on the name of a type genus, enables the valid publication of the phylum name Cyanobacteriota with
Cyanobacterium
as the type genus. The names
Cyanobacterium
and its type species Cyanobacterium stanieri were effectively published in 1983 by Rippka and Cohen-Bazire, but the names were not validly published under the rules of the ICNP (then named the International Code of Nomenclature of Bacteria) or the rules of the ICN (International Code of Nomenclature for algae, fungi, and plants, then named the International Code of Botanical Nomenclature). We here propose the names
Cyanobacterium
gen. nov and Cyanobacterium stanieri sp. nov. for valid publication under the provisions of the ICN. Upon validation these names are also validly published under the ICNP according to General Consideration 5 and Rule 30. We also propose the phylum name Cyanobacteriota phyl. nov. under the rules of the ICNP.
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Affiliation(s)
- Aharon Oren
- Department of Plant and Environmental Sciences, The Institute of Life Sciences, The Hebrew University of Jerusalem, Edmond J. Safra Campus, 9190401 Jerusalem, Israel
| | - Jan Mareš
- University of South Bohemia, Faculty of Science, Branišovká 1760, 370 05 České Budějovice, Czech Republic
- Biology Centre of the Czech Academy of Sciences, Institute of Hydrobiology, Na Sádkách 702/7, 370 05 České Budějovice, Czech Republic
| | - Rosmarie Rippka†
- Unité des Cyanobactéries, Institut Pasteur, Centre National de la Recherche Scientifique (CNRS) Unité de Recherche Associée (URA) 2172, 75724, Paris Cedex 15, France
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6
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Elias LP, Menegário AA, Hernández AH, Eismann CE, Martins Viana JL, Pedrobom JH, Geraldo de Oliveira Junior E, Barbiero L, Fostier AH. In situ fractionation and redox speciation of arsenic in soda lakes of Nhecolândia (Pantanal, Brazil) using the diffusive gradients in thin films (DGT) technique. CHEMOSPHERE 2022; 288:132592. [PMID: 34662636 DOI: 10.1016/j.chemosphere.2021.132592] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Revised: 10/12/2021] [Accepted: 10/14/2021] [Indexed: 06/13/2023]
Abstract
In situ fractionation and redox speciation of As in three different saline-alkaline lakes (green, black and crystalline lakes) in the Pantanal of Nhecolândia (Brazil) were performed by using Diffusive Gradients in Thin films (DGT). The results indicated that As is present mainly in dissolved form. Total As concentration was similar when using different filter membranes, demonstrating that the species adsorbed by DGT devices were <10 kDa. Higher concentrations of labile total As were observed in the center of the lakes, indicating that the nature of the organic matter influences the formation of As complexes. Total As concentrations determined by using ZrO2 DGT were consistent with As concentration in ultrafiltered water samples collected in the black lake. However, part of the data about As(III) obtained in grab samples contrasted with DGT results. The differences observed may indicate that alterations in the species occur during the storage period before analysis by ultrafiltration. As(III) concentrations measured by DGT in the black and crystalline lakes were 1-3 μg L-1 and 4-7 μg L-1, respectively, accounting for only 4%-8% of the total DGT inorganic As. In the green lake, As(III) concentrations were significantly higher at the center (217 μg L-1). Both the phytoplankton community and the dissolved organic carbon influence the As speciation and bioavailability in the lakes of Nhecolândia. The DGT approach used in the present work was able to perform As speciation and demonstrates that in situ sampling analytical techniques are essential in understanding As speciation and its behavior in complex natural aquatic systems.
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Affiliation(s)
- Lucas Pellegrini Elias
- São Paulo State University (Unesp), Environmental Studies Center, Av. 24-A, 1515, Postal Code: 13506-900, Rio Claro, SP, Brazil
| | - Amauri Antonio Menegário
- São Paulo State University (Unesp), Environmental Studies Center, Av. 24-A, 1515, Postal Code: 13506-900, Rio Claro, SP, Brazil.
| | - Amauris Hechavarría Hernández
- University of Campinas (Unicamp), Institute of Chemistry, Cidade Universitária "Zeferino Vaz", Postal Code: 13083-970, Campinas, SP, Brazil
| | - Carlos Eduardo Eismann
- São Paulo State University (Unesp), Environmental Studies Center, Av. 24-A, 1515, Postal Code: 13506-900, Rio Claro, SP, Brazil
| | - José Lucas Martins Viana
- University of Campinas (Unicamp), Institute of Chemistry, Cidade Universitária "Zeferino Vaz", Postal Code: 13083-970, Campinas, SP, Brazil
| | - Jorge Henrique Pedrobom
- São Paulo State University (Unesp), Environmental Studies Center, Av. 24-A, 1515, Postal Code: 13506-900, Rio Claro, SP, Brazil
| | | | - Laurent Barbiero
- Université P. Sabatier, IRD, CNRS, OMP, Géoscience Environnement Toulouse (GET), 14 Avenue Edouard Belin, F31400, Toulouse, France
| | - Anne Hélène Fostier
- University of Campinas (Unicamp), Institute of Chemistry, Cidade Universitária "Zeferino Vaz", Postal Code: 13083-970, Campinas, SP, Brazil
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7
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Tang J, Li L, Li M, Du L, Shah MMR, Waleron MM, Waleron M, Waleron KF, Daroch M. Description, Taxonomy, and Comparative Genomics of a Novel species, Thermoleptolyngbya sichuanensis sp. nov., Isolated From Hot Springs of Ganzi, Sichuan, China. Front Microbiol 2021; 12:696102. [PMID: 34566907 PMCID: PMC8461337 DOI: 10.3389/fmicb.2021.696102] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2021] [Accepted: 08/03/2021] [Indexed: 12/23/2022] Open
Abstract
Thermoleptolyngbya is a newly proposed genus of thermophilic cyanobacteria that are often abundant in thermal environments. However, a vast majority of Thermoleptolyngbya strains were not systematically identified, and genomic features of this genus are also sparse. Here, polyphasic approaches were employed to identify a thermophilic strain, PKUAC-SCTA183 (A183 hereafter), isolated from hot spring Erdaoqiao, Ganzi prefecture, China. Whole-genome sequencing of the strain revealed its allocation to Thermoleptolyngbya sp. and genetic adaptations to the hot spring environment. While the results of 16S rRNA were deemed inconclusive, the more comprehensive polyphasic approach encompassing phenetic, chemotaxic, and genomic approaches strongly suggest that a new taxon, Thermoleptolyngbya sichuanensis sp. nov., should be delineated around the A183 strain. The genome-scale phylogeny and average nucleotide/amino-acid identity confirmed the genetic divergence of the A183 strain from other strains of Thermoleptolyngbya along with traditional methods such as 16S-23S ITS and its secondary structure analyses. Comparative genomic and phylogenomic analyses revealed inconsistent genome structures between Thermoleptolyngbya A183 and O-77 strains. Further gene ontology analysis showed that the unique genes of the two strains were distributed in a wide range of functional categories. In addition, analysis of genes related to thermotolerance, signal transduction, and carbon/nitrogen/sulfur assimilation revealed the ability of this strain to adapt to inhospitable niches in hot springs, and these findings were preliminarily confirmed using experimental, cultivation-based approaches.
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Affiliation(s)
- Jie Tang
- Antibiotics Research and Re-evaluation Key Laboratory of Sichuan Province, Sichuan Industrial Institute of Antibiotics, Chengdu University, Chengdu, China
| | - Liheng Li
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, China
| | - Meijin Li
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, China
| | - Lianming Du
- Antibiotics Research and Re-evaluation Key Laboratory of Sichuan Province, Sichuan Industrial Institute of Antibiotics, Chengdu University, Chengdu, China
| | - Md Mahfuzur R Shah
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, China
| | - Michal M Waleron
- Department of Pharmaceutical Microbiology, Faculty of Pharmacy, Medical University of Gdańsk, Gdańsk, Poland
| | - Malgorzata Waleron
- Department of Plant Protection and Biotechnology, Intercollegiate Faculty of Biotechnology, University of Gdańsk and Medical University of Gdańsk, Gdańsk, Poland
| | - Krzysztof F Waleron
- Department of Pharmaceutical Microbiology, Faculty of Pharmacy, Medical University of Gdańsk, Gdańsk, Poland
| | - Maurycy Daroch
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, China
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8
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Whole-genome characterization and comparative genomics of a novel freshwater cyanobacteria species: Pseudanabaena punensis. Mol Phylogenet Evol 2021; 164:107272. [PMID: 34332035 DOI: 10.1016/j.ympev.2021.107272] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Revised: 07/21/2021] [Accepted: 07/26/2021] [Indexed: 11/23/2022]
Abstract
Cyanobacteria are emerging as a potential source of novel, beneficial bioactive compounds. However, some cyanobacteria species can harm water quality and public health through the production of toxins. Therefore, surveying the occurrence and generating genomic resources of cyanobacteria producing harmful compounds could help develop the control methods necessary to manage their growth and limit the release contaminants into the water bodies. Here, we describe a novel strain, Pseudanabaena punensis isolated from the open ends of pipelines supplying freshwater. This isolate was characterized morphologically, biochemically and by whole-genome sequence analysis. We also provide genomic information for P. punensis to help understand and highlight the features unique to this isolate. Morphological and genetic (analysis using 16S rRNA and rbcL genes) data were used to assign this novel strain to phylogenetic and taxonomic groups. The isolate was identified as a filamentous and non-heterocystous cyanobacteria. Based on morphological and 16S rRNA phylogeny, this isolate shares characteristics with the Pseudanabaenaceae family, but remains distinct from well-characterized species suggesting its polyphyletic assemblage. The whole-genome sequence analysis suggests greater genomic and phenotypic plasticity. Genome-wide sequence and comparative genomic analyses, comparing against several closely related species, revealed diverse and important genes associated with synthesizing bioactive compounds, multi-drug resistance pathway, heavy metal resistance, and virulence factors. This isolate also produces several important fatty acids with potential industrial applications. The observations described in this study emphasize both industrial applications and risks associated with the freshwater contamination, and therefore genomic resources provided in this study offer an opportunity for further investigations.
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9
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Guan Y, Jiang N, Wu Y, Yang Z, Bello A, Yang W. Disentangling the role of salinity-sodicity in shaping soil microbiome along a natural saline-sodic gradient. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 765:142738. [PMID: 33097264 DOI: 10.1016/j.scitotenv.2020.142738] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Revised: 09/21/2020] [Accepted: 09/22/2020] [Indexed: 05/16/2023]
Abstract
Increasing salinity and sodicity have been recognized as threats to soil fertility and crop yield worldwide. In recent years, salt-affected soils have received great attentions due to the shortage of arable land. This study therefore aims to characterize soil bacterial community, assembly process and co-occurrence network along natural saline-sodic gradients across Songnen Plain, Northeast China. As revealed by Miseq sequencing, 8482 bacterial OTUs were annotated at 97% identity across 120 soil samples. Our results indicated that soil salinity-sodicity not only significantly decreased bacterial richness and but also impacted bacterial community composition. The dominant bacterial phyla included Proteobacteria (28.89%), Actinobacteria (19.96%) and Gemmatimonadetes (16.71%). By applying threshold indicator species analysis (TITAN), OTUs from Gemmatimonadetes were found to be the taxa with the most prevalent and strongest preference for high salinity-sodicity. Null model analysis revealed that the majority (76.4%) of βNTI values were below -2 or above 2, indicating deterministic process was dominant across all samples. Notably, deterministic process contributed to a greater extent in higher saline-sodic soils. The bacterial co-occurrence network was more complex in slightly saline-sodic soils than in moderately and extremely saline-sodic soils, reflected by more nodes, more hubs and stronger connections, which was mainly driven by soil pH. These results provide strong evidence that salinity-sodicity was a key determinant in shaping soil bacterial community, assembly process and co-occurrence network pattern.
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Affiliation(s)
- Yupeng Guan
- College of Resources and Environment, Northeast Agricultural University, Harbin, China
| | - Nana Jiang
- College of Resources and Environment, Northeast Agricultural University, Harbin, China
| | - Yanxiang Wu
- College of Resources and Environment, Northeast Agricultural University, Harbin, China
| | - Zhongzan Yang
- College of Resources and Environment, Northeast Agricultural University, Harbin, China
| | - Ayodeji Bello
- College of Resources and Environment, Northeast Agricultural University, Harbin, China
| | - Wei Yang
- College of Resources and Environment, Northeast Agricultural University, Harbin, China.
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10
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Malone CFDS, Genuário DB, Vaz MGMV, Fiore MF, Sant'Anna CL. Monilinema gen. nov., a homocytous genus (Cyanobacteria, Leptolyngbyaceae) from saline-alkaline lakes of Pantanal wetlands, Brazil. JOURNAL OF PHYCOLOGY 2021; 57:473-483. [PMID: 33211341 DOI: 10.1111/jpy.13106] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Revised: 08/08/2020] [Accepted: 08/11/2020] [Indexed: 06/11/2023]
Abstract
Cyanobacteria morphotypes with simple morphology, mainly thin filamentous homocytous strains, comprise a taxonomically complex group and represent a challenge in systematic studies. However, the polyphasic approach applied nowadays to investigate the cyanobacterial diversity has emerged as a powerful tool to undercover cryptic taxa and to set up a more natural classification system. Yet, studies exploring the cultured diversity of cyanobacteria from extreme tropical environments have paved the way to the discovery of new cyanobacteria taxa, enabling the description of Pantanalinema, Alkalinema, and Cephalothrix as novel genera from saline-alkaline lakes in Pantanal wetlands (Brazil). The present study investigated a set of cyanobacterial strains resembling Leptolyngbya morphotypes by means of its morphology, 16S ribosomal RNA (16S rRNA) phylogeny, and ITS secondary structures. Based on the shape and structure of their trichomes, the low levels of 16S rRNA identity coupled with the distinct phylogenetic position with regard to well establish genera, and their divergent ecological feature, these strains must be accommodated into a novel genus, named as Monilinema gen. nov., described under the provisions of the International Code of Nomenclature for algae, fungi, and plants. Accordingly, based on the singularity of the D1-D1' and V3 helixes, these strains should be considered as a single species, Monilinema alkalinum.
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Affiliation(s)
| | - Diego Bonaldo Genuário
- Laboratory of Environmental Microbiology, EMBRAPA Environment, 13820-000, Jaguariúna, São Paulo, Brazil
- Biodiversita Microbial Technology, 13087-010, Campinas, SP, Brazil
| | - Marcelo Gomes Marçal Vieira Vaz
- Laboratory of Phycology and Molecular Biology, Department of Plant Biology, University of Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Marli Fátima Fiore
- Center for Nuclear Energy in Agriculture, University of São Paulo, Avenida Centenário 303, 13400-970, Piracicaba, SP, Brazil
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11
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Brenes-Guillén L, Vidaurre-Barahona D, Morales S, Mora-López M, Sittenfeld A, Uribe-Lorío L. Novel Cyanobacterial Diversity Found in Costa Rican Thermal Springs Associated with Rincon de la Vieja and Miravalles Volcanoes: A Polyphasic Approach. JOURNAL OF PHYCOLOGY 2021; 57:183-198. [PMID: 33000870 DOI: 10.1111/jpy.13077] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Revised: 08/28/2020] [Accepted: 09/09/2020] [Indexed: 06/11/2023]
Abstract
Central America is one of the most important biodiversity hot spots in the world, and Costa Rican microbial communities from thermal springs are the best characterized in the isthmus. Miravalles is an inactive quaternary stratovolcano, and the Rincón de la Vieja is a unique active volcano, in whose slopes diverse hydrothermal springs, such as Las Lilas, are located. These springs harbor extensive microbial mats, whose diversity has been studied. Based on their importance as primary producers, in this study we focused on cultured cyanobacterial diversity from two geothermal environments of northern Costa Rica. Several cultural, molecular and taxonomic techniques were employed to maximize the results of a polyphasic approach. Sample collection sites were physicochemically described, and strains were isolated and characterized by light and electron microscopy. Phylogenetic analysis was performed using 16S rRNA gene sequences and amplified ribosomal DNA restriction analysis (ARDRA). Fifty-six phylotypes were isolated and classified into 21 morphotypes and identified in 14 genera, some of them might be new species within these genera. Furthermore, according to phylogenetic analysis, there are three possible new genera in our collection. Miravalles and Las Lilas thermal springs are reservoirs of novel phylogeographic lineages of phototrophic microorganisms. This study is the first report of strains that belong to the genera Gloeocapsa, Stanieria, Microseira, Klisinema and Oculatella isolated from thermal springs and growing at temperatures above 50°C. We also obtained isolates assigned to Synechococcus, Leptolyngbya spp., and Fischerella, which are considered typical strains in these environments.
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Affiliation(s)
- Laura Brenes-Guillén
- Molecular and Biology Research Center, University of Costa Rica, San José, Costa Rica
| | | | - Saylen Morales
- Molecular and Biology Research Center, University of Costa Rica, San José, Costa Rica
| | - Marielos Mora-López
- Molecular and Biology Research Center, University of Costa Rica, San José, Costa Rica
| | - Ana Sittenfeld
- Molecular and Biology Research Center, University of Costa Rica, San José, Costa Rica
| | - Lorena Uribe-Lorío
- Molecular and Biology Research Center, University of Costa Rica, San José, Costa Rica
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12
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Cyanobacterial Mats in Calcite-Precipitating Serpentinite-Hosted Alkaline Springs of the Voltri Massif, Italy. Microorganisms 2020; 9:microorganisms9010062. [PMID: 33383678 PMCID: PMC7824716 DOI: 10.3390/microorganisms9010062] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2020] [Revised: 12/12/2020] [Accepted: 12/15/2020] [Indexed: 01/15/2023] Open
Abstract
(1) Background: Microbial communities in terrestrial, calcifying high-alkaline springs are not well understood. In this study, we investigate the structure and composition of microbial mats in ultrabasic (pH 10–12) serpentinite springs of the Voltri Massif (Italy). (2) Methods: Along with analysis of chemical and mineralogical parameters, environmental DNA was extracted and subjected to analysis of microbial communities based upon next-generation sequencing. (3) Results: Mineral precipitation and microbialite formation occurred, along with mat formation. Analysis of the serpentinite spring microbial community, based on Illumina sequencing of 16S rRNA amplicons, point to the relevance of alkaliphilic cyanobacteria, colonizing carbonate buildups. Cyanobacterial groups accounted for up to 45% of all retrieved sequences; 3–4 taxa were dominant, belonging to the filamentous groups of Leptolyngbyaceae, Oscillatoriales, and Pseudanabaenaceae. The cyanobacterial community found at these sites is clearly distinct from creek water sediment, highlighting their specific adaptation to these environments.
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13
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de Alvarenga LV, Lucius S, Vaz MGMV, Araújo WL, Hagemann M. The novel strain Desmonostoc salinum CCM-UFV059 shows higher salt and desiccation resistance compared to the model strain Nostoc sp. PCC7120. JOURNAL OF PHYCOLOGY 2020; 56:496-506. [PMID: 31925964 DOI: 10.1111/jpy.12968] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2019] [Accepted: 12/04/2019] [Indexed: 06/10/2023]
Abstract
Desmonostoc salinum CCM-UFV059 (Desmonostoc) is a novel cyanobacterial strain of the order Nostocales isolated from a saline-alkaline lake. The acclimation towards salt and desiccation stress of Desmonostoc was compared to the related and well-characterized model strain Nostoc sp. PCC7120 (Nostoc). Salt-stressed cells of Desmonostoc maintained low cellular Na+ concentrations and accumulated high amounts of compatible solutes, mainly sucrose and to a lower extent trehalose. These features permitted Desmonostoc to grow and maintain photosynthesis at 2-fold higher salinities than Nostoc. Moreover, Desmonostoc also induced sucrose over-accumulation under desiccation, which allowed this strain to recover from this stress in contrast to Nostoc. Additional mechanisms such as the presence of highly unsaturated lipids in the membrane and an efficient ion transport system could also explain, at least partially, how Desmonostoc is able to acclimate to high salinities and to resist longer desiccation periods. Collectively, our results provide first insights into the physiological and metabolic adaptations explaining the remarkable high salt and desiccation tolerance, which qualify Desmonostoc as an attractive model for further analysis of stress acclimation among heterocystous N2 -fixing cyanobacteria.
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Affiliation(s)
- Luna Viggiano de Alvarenga
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
- Max-Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
- Institut für Biowissenschaften, Abteilung Pflanzenphysiologie, Universität Rostock, A.-Einstein-Str. 3, Rostock, D-18059, Germany
| | - Stefan Lucius
- Institut für Biowissenschaften, Abteilung Pflanzenphysiologie, Universität Rostock, A.-Einstein-Str. 3, Rostock, D-18059, Germany
| | - Marcelo Gomes Marçal Vieira Vaz
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
- Max-Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
| | - Wagner L Araújo
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
- Max-Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
| | - Martin Hagemann
- Institut für Biowissenschaften, Abteilung Pflanzenphysiologie, Universität Rostock, A.-Einstein-Str. 3, Rostock, D-18059, Germany
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14
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Estimating Water pH Using Cloud-Based Landsat Images for a New Classification of the Nhecolândia Lakes (Brazilian Pantanal). REMOTE SENSING 2020. [DOI: 10.3390/rs12071090] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
The Nhecolândia region, located in the southern portion of the Pantanal wetland area, is a unique lacustrine system where tens of thousands of saline-alkaline and freshwater lakes and ponds coexist in close proximity. These lakes are suspected to be a strong source of greenhouse gases (GHGs) to the atmosphere, the water pH being one of the key factors in controlling the biogeochemical functioning and, consequently, production and emission of GHGs in these lakes. Here, we present a new field-validated classification of the Nhecolândia lakes using water pH values estimated based on a cloud-based Landsat (5 TM, 7 ETM+, and 8 OLI) 2002–2017 time-series in the Google Earth Engine platform. Calibrated top-of-atmosphere (TOA) reflectance collections with the Fmask method were used to ensure the usage of only cloud-free pixels, resulting in a dataset of 2081 scenes. The pH values were predicted by applying linear multiple regression and symbolic regression based on genetic programming (GP). The regression model presented an R2 value of 0.81 and pH values ranging from 4.69 to 11.64. A lake mask was used to extract the predicted pH band that was then classified into three lake classes according to their pH values: Freshwater (pH < 8), oligosaline (pH 8–8.9), and saline (≥9). Nearly 12,150 lakes were mapped with those with saline waters accounting for 7.25%. Finally, a trend surface map was created using the ALOS PRISM Digital Surface Model (DSM) to analyze the correlation between landscape features (topography, connection with the regional drainage system, size, and shape of lakes) and types of lakes. The analysis was in consonance with previous studies that pointed out that saline lakes tend to occur in lower positions compared to freshwater lakes. The results open a relevant perspective for the transfer of locally acquired experimental data to the regional balances of the Nhecolândia lakes.
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15
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Richter L, Hernández AH, Pessôa GS, Arruda MAZ, Rezende-Filho AT, de Almeida RB, Menezes HA, Valles V, Barbiero L, Fostier AH. Dissolved arsenic in the upper Paraguay River basin and Pantanal wetlands. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 687:917-928. [PMID: 31412495 DOI: 10.1016/j.scitotenv.2019.06.147] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2019] [Revised: 06/07/2019] [Accepted: 06/09/2019] [Indexed: 06/10/2023]
Abstract
Although high levels of dissolved arsenic were detected in surface and ground waters of Nhecolândia, a sub-region of the vast Pantanal wetlands in Brazil, the possible sources have not been clearly identified and the potential release from the wetland to the draining rivers has not been investigated. In this study we measured the dissolved As content in all the rivers and small streams that supply the southern Pantanal region, as well as in the two main rivers draining the wetland, i.e., the Cuiaba and Paraguay rivers and tributaries. In addition, Arsenic in surface waters, perched water-table, soils and sediments from 3 experimental sites located in the heart of Nhecolândia were compared. On the one hand, the results show the absence of As contamination in rivers that supply the Pantanal floodplain, as well as a lack of significant release from the floodplain to the main drains. The As contents in the rivers are <2 μg L-1, with variations that depend on the lithology and on the geomorphology at the collection point (uplands or floodplain). On the other hand, they confirm the regional extension of As contamination in Nhecolândia's alkaline waters with some values above 3 mg L-1. Arsenic is mainly in the arsenate form, and increases with the evaporation process estimated from sodium ion concentrations. The pH of soil solution and surface water increases rapidly during evapo-concentration up to values above 9 or 10, preventing adsorption processes on oxides and clay minerals and promoting the retention of dissolved arsenic in solution. Solutions from organic soil horizons show higher As contents in relation to Na, attributed to the formation of ternary complex As-(Fe/Al)-OM. In this alkaline pH range, despite high levels of dissolved As, soil horizons and lake sediments in contact with these waters show As values that correspond to uncontaminated environments.
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Affiliation(s)
- Larissa Richter
- University of Campinas, Chemistry Institute, Campinas, SP, Brazil
| | | | - Gustavo S Pessôa
- University of Campinas, Chemistry Institute, Campinas, SP, Brazil
| | | | | | | | - Hebert A Menezes
- Federal University of South Mato Grosso (FAENG), Campo Grande, MS, Brazil
| | - Vincent Valles
- Université d'Avignon et des Pays de Vaucluse (UAPV), France
| | - Laurent Barbiero
- University of Campinas, Chemistry Institute, Campinas, SP, Brazil; Institut de Recherche pour le Développement (IRD), GET, Toulouse, France; São Carlos Federal University (UFSCar), Sorocaba, SP, Brazil; São Paulo University (CENA-USP), Piracicaba, SP, Brazil.
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16
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Arsenic-contaminated sediment from mining areas as source of morphological and phylogenetic distinct cyanobacterial lineages. ALGAL RES 2019. [DOI: 10.1016/j.algal.2019.101589] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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17
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Patel HM, Rastogi RP, Trivedi U, Madamwar D. Cyanobacterial diversity in mat sample obtained from hypersaline desert, Rann of Kachchh. 3 Biotech 2019; 9:304. [PMID: 31355113 DOI: 10.1007/s13205-019-1837-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Accepted: 07/15/2019] [Indexed: 01/18/2023] Open
Abstract
Rann of Kachchh (RoK) is a unique geoformation, which is exposed to dynamic environmental changes such as salinity, temperature, and nutrients throughout the year. In this study, the pooled mat sample was examined for the cyanobacterial community structure using culture-dependent and culture-independent approaches. Taxonomic profiling was studied using amplicon sequencing that revealed the enrichment of Pseudanabaenales and Oscillatoriales by QIIME and MG-RAST, respectively. Other abundant orders were represented by Chroococcales, Nostocales, and unclassified cyanobacteria by both approaches. Nine cyanobacterial cultures were isolated from mat samples showing 90-98% similarities with available sequences in GenBank. The culture-dependent study suggested that mat was dominated by cyanobacterial orders such as Oscillatoriales-filamentous and Chroococcales-unicellular. Our results from the culture-dependent approach also indicated that despite high similarities in gene sequences, six cyanobacteria fall into the separate clade in the phylogenetic analysis that could be signs of evolution due to an extreme environment. Cultured isolates are correlated well with abundant taxa from amplicon sequencing. Further, protein profiling was done specifically for phycobiliproteins which will be helpful to elucidate their roles in light harvesting and energy transfer mechanism in the unique environment of RoK.
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18
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Uribe-Lorío L, Brenes-Guillén L, Hernández-Ascencio W, Mora-Amador R, González G, Ramírez-Umaña CJ, Díez B, Pedrós-Alió C. The influence of temperature and pH on bacterial community composition of microbial mats in hot springs from Costa Rica. Microbiologyopen 2019; 8:e893. [PMID: 31271524 PMCID: PMC6813449 DOI: 10.1002/mbo3.893] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2019] [Revised: 05/01/2019] [Accepted: 05/20/2019] [Indexed: 11/27/2022] Open
Abstract
We used the 16S rRNA gene pyrosequencing approach to investigate the microbial diversity and community composition in several Costa Rican hot springs alongside the latitudinal axis of the country, with a range of temperatures (37–63°C), pH (6–7.5) and other geochemical conditions. A principal component analyses of the physicochemical parameters showed the samples were separated into three geochemically distinct habitats associated with the location (North, Central, and South). Cyanobacteria and Chloroflexi comprised 93% of the classified community, the former being the most abundant phylum in all samples except for Rocas Calientes 1, (63°C, pH 6), where Chloroflexi and Deinococcus‐Thermus represented 84% of the OTUs. Chloroflexi were more abundant as temperature increased. Proteobacteria, Bacteriodetes and Deinococcus‐Thermus comprised 5% of the OTUs represented. Other Phyla were present in very small percentages (<1%). A LINKTREE analysis showed that the community structure of the mats was shaped primarily by pH, separating samples with pH > 6.6 from samples with pH < 6.4. Thus, both pH and temperature were relevant for community composition even within the moderate ranges of variables studied. These results provide a basis for an understanding of the physicochemical influences in moderately thermophilic microbial mats.
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Affiliation(s)
- Lorena Uribe-Lorío
- Centro de Investigación en Biología Celular y Molecular (CIBCM), Universidad de Costa Rica, Ciudad Universitaria Rodrigo Facio, San José, Costa Rica
| | - Laura Brenes-Guillén
- Centro de Investigación en Biología Celular y Molecular (CIBCM), Universidad de Costa Rica, Ciudad Universitaria Rodrigo Facio, San José, Costa Rica
| | - Walter Hernández-Ascencio
- Centro de Investigación en Biología Celular y Molecular (CIBCM), Universidad de Costa Rica, Ciudad Universitaria Rodrigo Facio, San José, Costa Rica
| | - Raúl Mora-Amador
- Escuela Centroamericana de Geología, Universidad de Costa Rica, San José, Costa Rica
| | - Gino González
- Escuela Centroamericana de Geología, Universidad de Costa Rica, San José, Costa Rica
| | | | - Beatriz Díez
- Departamento de Microbiología y Genética, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Carlos Pedrós-Alió
- Departamento de Biología de Sistemas, Centro Nacional de Biotecnología, CSIC, Madrid, Spain
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19
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Cellamare M, Duval C, Drelin Y, Djediat C, Touibi N, Agogué H, Leboulanger C, Ader M, Bernard C. Characterization of phototrophic microorganisms and description of new cyanobacteria isolated from the saline-alkaline crater-lake Dziani Dzaha (Mayotte, Indian Ocean). FEMS Microbiol Ecol 2019; 94:5033403. [PMID: 29878107 DOI: 10.1093/femsec/fiy108] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2018] [Accepted: 06/03/2018] [Indexed: 11/14/2022] Open
Abstract
The saline-alkaline crater-lake Dziani Dzaha (Mayotte, Indian Ocean) is dominated by the bloom-forming cyanobacterium Arthrospira. However, the rest of the phototrophic community remains underexplored because of their minute dimension or lower biomass. To characterize the phototrophic microorganisms living in this ecosystem considered as a modern analog of Precambrian environments, several strains were isolated from the water column and stromatolites and analyzed using the polyphasic approach. Based on morphological, ultrastructural and molecular (16S rRNA gene, 18S rRNA gene, 16S-23S internal transcribed spacer (ITS) region and cpcBA-IGS locus) methods, seven filamentous cyanobacteria and the prasinophyte Picocystis salinarum were identified. Two new genera and four new cyanobacteria species belonging to the orders Oscillatoriales (Desertifilum dzianense sp. nov.) and Synechococcales (Sodalinema komarekii gen. nov., sp. nov., Sodaleptolyngbya stromatolitii gen. nov., sp. nov. and Haloleptolyngbya elongata sp. nov.) were described. This approach also allowed to identify Arthrospira fusiformis with exclusively straight trichomes instead of the spirally coiled form commonly observed in the genus. This study evidenced the importance of using the polyphasic approach to solve the complex taxonomy of cyanobacteria and to study algal assemblages from unexplored ecosystems.
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Affiliation(s)
- M Cellamare
- UMR 7245 MCAM MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France.,Phyto-Quality, 15 rue Pétrarque, 75116 Paris, France
| | - C Duval
- UMR 7245 MCAM MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France
| | - Y Drelin
- UMR 7245 MCAM MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France
| | - C Djediat
- UMR 7245 MCAM MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France.,Electron Microscopy Platform, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France
| | - N Touibi
- UMR 7245 MCAM MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France.,Electron Microscopy Platform, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France
| | - H Agogué
- UMR 7266 LIENSs CNRS, Université de La Rochelle, F-17000 La Rochelle, France
| | - C Leboulanger
- UMR 9190 MARBEC IRD-CNRS, Université de Montpellier-IFREMER, Avenue Jean Monnet, F-34200 Sète, France
| | - M Ader
- Institut de Physique du Globe de Paris-Sorbonne Paris Cité, Université Paris Diderot, UMR 7154 CNRS, F-75005 Paris, France
| | - C Bernard
- UMR 7245 MCAM MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 rue Buffon, F-75231 Paris Cedex 05, France
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20
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Shishido TK, Jokela J, Humisto A, Suurnäkki S, Wahlsten M, Alvarenga DO, Sivonen K, Fewer DP. The Biosynthesis of Rare Homo-Amino Acid Containing Variants of Microcystin by a Benthic Cyanobacterium. Mar Drugs 2019; 17:md17050271. [PMID: 31067786 PMCID: PMC6562525 DOI: 10.3390/md17050271] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 05/02/2019] [Accepted: 05/05/2019] [Indexed: 02/05/2023] Open
Abstract
Microcystins are a family of chemically diverse hepatotoxins produced by distantly related cyanobacteria and are potent inhibitors of eukaryotic protein phosphatases 1 and 2A. Here we provide evidence for the biosynthesis of rare variants of microcystin that contain a selection of homo-amino acids by the benthic cyanobacterium Phormidium sp. LP904c. This strain produces at least 16 microcystin chemical variants many of which contain homophenylalanine or homotyrosine. We retrieved the complete 54.2 kb microcystin (mcy) gene cluster from a draft genome assembly. Analysis of the substrate specificity of McyB1 and McyC adenylation domain binding pockets revealed divergent substrate specificity sequences, which could explain the activation of homo-amino acids which were present in 31% of the microcystins detected and included variants such as MC-LHty, MC-HphHty, MC-LHph and MC-HphHph. The mcy gene cluster did not encode enzymes for the synthesis of homo-amino acids but may instead activate homo-amino acids produced during the synthesis of anabaenopeptins. We observed the loss of microcystin during cultivation of a closely related strain, Phormidium sp. DVL1003c. This study increases the knowledge of benthic cyanobacterial strains that produce microcystin variants and broadens the structural diversity of known microcystins.
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Affiliation(s)
- Tânia Keiko Shishido
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
- Institute of Biotechnology, Helsinki Institute of Life Science, University of Helsinki, Viikinkaari 5D, FI-0014 Helsinki, Finland.
| | - Jouni Jokela
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
| | - Anu Humisto
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
| | - Suvi Suurnäkki
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
- Department of Biological and Environmental Science, University of Jyväskylä, FI-40014 Jyväskylä, Finland.
| | - Matti Wahlsten
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
| | - Danillo O Alvarenga
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
| | - Kaarina Sivonen
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
| | - David P Fewer
- Department of Microbiology, University of Helsinki, Viikinkaari 9, FI-0014 Helsinki, Finland.
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21
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Lima ARJ, Siqueira AS, de Vasconcelos JM, Pereira JS, de Azevedo JSN, Moraes PHG, Aguiar DCF, de Lima CPS, Vianez-Júnior JLSG, Nunes MRT, Xavier LP, Dall'Agnol LT, Goncalves EC. Insights Into Limnothrix sp. Metabolism Based on Comparative Genomics. Front Microbiol 2018; 9:2811. [PMID: 30515147 PMCID: PMC6256058 DOI: 10.3389/fmicb.2018.02811] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 11/01/2018] [Indexed: 11/22/2022] Open
Abstract
Currently only four genome sequences for Limnothrix spp. are publicly available, and information on the genetic properties of cyanobacteria belonging to this genus is limited. In this study, we report the draft genome of Limnothrix sp. CACIAM 69d, isolated from the reservoir of a hydroelectric dam located in the Amazon ecosystem, from where cyanobacterial genomic data are still scarce. Comparative genomic analysis of Limnothrix revealed the presence of key enzymes in the cyanobacterial central carbon metabolism and how it is well equipped for environmental sulfur and nitrogen acquisition. Additionally, this work covered the analysis of Limnothrix CRISPR-Cas systems, pathways related to biosynthesis of secondary metabolites and assembly of extracellular polymeric substances and their exportation. A trans-AT PKS gene cluster was identified in two strains, possibly related to the novel toxin Limnothrixin biosynthesis. Overall, the draft genome of Limnothrix sp. CACIAM 69d adds new data to the small Limnothrix genome library and contributes to a growing representativeness of cyanobacterial genomes from the Amazon region. The comparative genomic analysis of Limnothrix made it possible to highlight unique genes for each strain and understand the overall features of their metabolism.
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Affiliation(s)
- Alex Ranieri Jerônimo Lima
- Laboratório de Tecnologia Biomolecular, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | - Andrei Santos Siqueira
- Laboratório de Tecnologia Biomolecular, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | - Janaina Mota de Vasconcelos
- Laboratório de Tecnologia Biomolecular, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | - James Siqueira Pereira
- Laboratório de Biodiversidade Molecular, Universidade Federal Rural da Amazônia, Campus de Capanema, Capanema, Brazil
| | - Juliana Simão Nina de Azevedo
- Laboratório de Biodiversidade Molecular, Universidade Federal Rural da Amazônia, Campus de Capanema, Capanema, Brazil
| | | | | | | | | | | | - Luciana Pereira Xavier
- Laboratório de Biotecnologia de Enzimas e Biotransformações, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
| | - Leonardo Teixeira Dall'Agnol
- Grupo de Pesquisa em Biodiversidade, Bioprospecção e Biotecnologia, Universidade Federal do Maranhão, São Luís, Brazil
| | - Evonnildo Costa Goncalves
- Laboratório de Tecnologia Biomolecular, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belém, Brazil
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22
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de Alvarenga LV, Vaz MGMV, Genuário DB, Esteves-Ferreira AA, Almeida AVM, de Castro NV, Lizieri C, Souza JJLL, Schaefer CEGR, Nunes-Nesi A, Araújo WL. Extending the ecological distribution of Desmonostoc genus: proposal of Desmonostoc salinum sp. nov., a novel Cyanobacteria from a saline-alkaline lake. Int J Syst Evol Microbiol 2018; 68:2770-2782. [PMID: 29985124 DOI: 10.1099/ijsem.0.002878] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Abstract
Cyanobacteria is an ancient phylum of oxygenic photosynthetic microorganisms found in almost all environments of Earth. In recent years, the taxonomic placement of some cyanobacterial strains, including those belonging to the genus Nostocsensu lato, have been reevaluated by means of a polyphasic approach. Thus, 16S rRNA gene phylogeny and 16S-23S internal transcribed spacer (ITS) secondary structures coupled with morphological, ecological and physiological data are considered powerful tools for a better taxonomic and systematics resolution, leading to the description of novel genera and species. Additionally, underexplored and harsh environments, such as saline-alkaline lakes, have received special attention given they can be a source of novel cyanobacterial taxa. Here, a filamentous heterocytous strain, Nostocaceae CCM-UFV059, isolated from Laguna Amarga, Chile, was characterized applying the polyphasic approach; its fatty acid profile and physiological responses to salt (NaCl) were also determined. Morphologically, this strain was related to morphotypes of the Nostocsensu lato group, being phylogenetically placed into the typical cluster of the genus Desmonostoc. CCM-UFV059 showed identity of the 16S rRNA gene as well as 16S-23S secondary structures that did not match those from known described species of the genus Desmonostoc, as well as distinct ecological and physiological traits. Taken together, these data allowed the description of the first strain of a member of the genus Desmonostoc from a saline-alkaline lake, named Desmonostoc salinum sp. nov., under the provisions of the International Code of Nomenclature for algae, fungi and plants. This finding extends the ecological coverage of the genus Desmonostoc, contributing to a better understanding of cyanobacterial diversity and systematics.
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Affiliation(s)
- Luna Viggiano de Alvarenga
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Marcelo Gomes Marçal Vieira Vaz
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Diego Bonaldo Genuário
- 3Laboratório de Microbiologia Ambiental, EMBRAPA Meio Ambiente, 13820-000, Jaguariúna, São Paulo, Brazil
| | - Alberto A Esteves-Ferreira
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Allan V Martins Almeida
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Naira Valle de Castro
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Claudineia Lizieri
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,‡Present address: Instituto de Engenharia e Tecnologia, Centro Universitário de Belo Horizonte, UniBH, 30455-610, Belo Horizonte, Minas Gerais, Brazil
| | - José João L L Souza
- 4Departamento de Solos, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,5Departamento de Geografia, Universidade Federal do Rio Grande do Norte, 59300-000, Caicó, Rio Grande do Norte, Brazil
| | | | - Adriano Nunes-Nesi
- 1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - Wagner L Araújo
- 2Max Planck Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil.,1Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
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Genuário DB, de Souza WR, Monteiro RTR, Sant´Anna CL, Melo IS. Amazoninema gen. nov., (Synechococcales, Pseudanabaenaceae) a novel cyanobacteria genus from Brazilian Amazonian rivers. Int J Syst Evol Microbiol 2018; 68:2249-2257. [DOI: 10.1099/ijsem.0.002821] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Affiliation(s)
- Diego Bonaldo Genuário
- EMBRAPA Environment, Laboratory of Environmental Microbiology, Rodovia SP 340, Km 127,5, 13820-000, Jaguariúna, São Paulo, Brazil
| | - Wallace Rafael de Souza
- EMBRAPA Environment, Laboratory of Environmental Microbiology, Rodovia SP 340, Km 127,5, 13820-000, Jaguariúna, São Paulo, Brazil
- University of São Paulo, Center for Nuclear Energy in Agriculture, Laboratory of Applied Ecology, 13400-970, Piracicaba, São Paulo, Brazil
| | - Regina Teresa Rosin Monteiro
- University of São Paulo, Center for Nuclear Energy in Agriculture, Laboratory of Applied Ecology, 13400-970, Piracicaba, São Paulo, Brazil
| | - Célia Leite Sant´Anna
- Institute of Botany, Nucleus of Phycology, Avenida Miguel Estéfano 3687, 04301-012 São Paulo, SP, Brazil
| | - Itamar Soares Melo
- EMBRAPA Environment, Laboratory of Environmental Microbiology, Rodovia SP 340, Km 127,5, 13820-000, Jaguariúna, São Paulo, Brazil
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24
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Barbiero L, Siqueira Neto M, Braz RR, Carmo JBD, Rezende Filho AT, Mazzi E, Fernandes FA, Damatto SR, Camargo PBD. Biogeochemical diversity, O 2-supersaturation and hot moments of GHG emissions from shallow alkaline lakes in the Pantanal of Nhecolândia, Brazil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 619-620:1420-1430. [PMID: 29734618 DOI: 10.1016/j.scitotenv.2017.11.197] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2017] [Revised: 11/10/2017] [Accepted: 11/17/2017] [Indexed: 05/20/2023]
Abstract
Nhecolândia is a vast sub-region of the Pantanal wetland in Brazil with great diversity in surface water chemistry evolving in a sodic alkaline pathway under the influence of evaporation. In this region, >15,000 shallow lakes are likely to contribute an enormous quantity of greenhouse gas to the atmosphere, but the diversity of the biogeochemical scenarios and their variability in time and space is a major challenge to estimate the regional contribution. From 4 selected alkaline lakes, we compiled measurements of the physico-chemical characteristics of water and sediments, gas fluxes in floating chambers, and sedimentation rates to illustrate this diversity. Although these lakes have a similar chemical composition, the results confirm a difference between the black-water and green-water alkaline lakes, corresponding to distinct biogeochemical functioning. This difference does not appear to affect lake sedimentation rates, but is reflected in gas emissions. Black-water lakes are CO2 and CH4 sources, with fairly constant emissions throughout the seasons. Annual carbon dioxide and methane emissions approach 0.86molm-2y-1 and 0.07molm-2y-1, respectively, and no clear trend towards N2O capture or emission was observed. By contrast, green-water lakes are CO2 and N2O sinks but important CH4 sources with fluxes varying significantly throughout the seasons, depending on the magnitude of the phytoplankton bloom. The results highlight important daily and seasonal variations in gas fluxes, and in particular a hot moments for methane emissions, when the O2-supersaturation is reached during the afternoon under extreme bloom and sunny weather conditions, provoking an abrupt O2 purging of the lakes. Taking into account the seasonal variability, annual methane emissions are around 10.2molm-2y-1, i.e., much higher than reported in previous studies for alkaline lakes in Nhecolândia. Carbon dioxide and nitrous oxide consumption is estimated about 1.9molm-2y-1 and 0.73mmolm-2y-1, respectively. However, these balances must be better constrained with systematic and targeted measurements throughout the seasons.
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Affiliation(s)
- Laurent Barbiero
- Laboratorio de Ecologia Isotópica, Centro de Energia Nuclear na Agricultura (CENA), Universidade de São Paulo, Piracicaba, SP 13416-000, Brazil; Instituto de Química, Universidade estadual de Campinas, Campinas, SP 13083-970, Brazil; Géoscience Environnement Toulouse (GET), IRD, CNRS, Université P. Sabatier de Toulouse, F31400, France.
| | - Marcos Siqueira Neto
- Laboratorio de Biogeoquímica Ambiental, Centro de Energia Nuclear na Agricultura (CENA), Universidade de São Paulo, Piracicaba, SP 13416-000, Brazil
| | - Rosangela Rodrigues Braz
- Laboratorio de Ecologia Isotópica, Centro de Energia Nuclear na Agricultura (CENA), Universidade de São Paulo, Piracicaba, SP 13416-000, Brazil
| | - Janaina Braga do Carmo
- Centro de Ciências e Tecnologias para a Sustentabilidade, Universidade Federal de São Carlos, Sorocaba, SP 18052-780, Brazil
| | - Ary Tavares Rezende Filho
- Faculdade de Engenharias, Arquitetura e Urbanismo e Geografia (FAENG), Universidade Federal do Mato-Grosso do Sul, Campo Grande, MS 79070-900, Brazil
| | - Edmar Mazzi
- Laboratorio de Ecologia Isotópica, Centro de Energia Nuclear na Agricultura (CENA), Universidade de São Paulo, Piracicaba, SP 13416-000, Brazil
| | | | - Sandra Regina Damatto
- Departamento de Metrologia das Radiações, Instituto de Pesquisas Energéticas e Nucleares (IPEN), Universidade de São Paulo, São Paulo, SP 05508-000, Brazil
| | - Plinio Barbosa de Camargo
- Laboratorio de Ecologia Isotópica, Centro de Energia Nuclear na Agricultura (CENA), Universidade de São Paulo, Piracicaba, SP 13416-000, Brazil
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25
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Andreote APD, Dini-Andreote F, Rigonato J, Machineski GS, Souza BCE, Barbiero L, Rezende-Filho AT, Fiore MF. Contrasting the Genetic Patterns of Microbial Communities in Soda Lakes with and without Cyanobacterial Bloom. Front Microbiol 2018; 9:244. [PMID: 29520256 PMCID: PMC5827094 DOI: 10.3389/fmicb.2018.00244] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2017] [Accepted: 01/31/2018] [Indexed: 11/29/2022] Open
Abstract
Soda lakes have high levels of sodium carbonates and are characterized by salinity and elevated pH. These ecosystems are found across Africa, Europe, Asia, Australia, North, Central, and South America. Particularly in Brazil, the Pantanal region has a series of hundreds of shallow soda lakes (ca. 600) potentially colonized by a diverse haloalkaliphilic microbial community. Biological information of these systems is still elusive, in particular data on the description of the main taxa involved in the biogeochemical cycling of life-important elements. Here, we used metagenomic sequencing to contrast the composition and functional patterns of the microbial communities of two distinct soda lakes from the sub-region Nhecolândia, state of Mato Grosso do Sul, Brazil. These two lakes differ by permanent cyanobacterial blooms (Salina Verde, green-water lake) and by no record of cyanobacterial blooms (Salina Preta, black-water lake). The dominant bacterial species in the Salina Verde bloom was Anabaenopsis elenkinii. This cyanobacterium altered local abiotic parameters such as pH, turbidity, and dissolved oxygen and consequently the overall structure of the microbial community. In Salina Preta, the microbial community had a more structured taxonomic profile. Therefore, the distribution of metabolic functions in Salina Preta community encompassed a large number of taxa, whereas, in Salina Verde, the functional potential was restrained across a specific set of taxa. Distinct signatures in the abundance of genes associated with the cycling of carbon, nitrogen, and sulfur were found. Interestingly, genes linked to arsenic resistance metabolism were present at higher abundance in Salina Verde and they were associated with the cyanobacterial bloom. Collectively, this study advances fundamental knowledge on the composition and genetic potential of microbial communities inhabiting tropical soda lakes.
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Affiliation(s)
- Ana P. D. Andreote
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Francisco Dini-Andreote
- Microbial Ecology Cluster, Genomics Research in Ecology and Evolution in Nature, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, Netherlands
| | - Janaina Rigonato
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, Brazil
| | | | - Bruno C. E. Souza
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Laurent Barbiero
- Observatoire Midi-Pyrénées, Géosciences Environnement Toulouse, Institut de Recherche pour le Développement, Centre National de la Recherche Scientifique, Université Paul Sabatier, Toulouse, France
| | - Ary T. Rezende-Filho
- Faculty of Engineering, Architecture and Urbanism and Geography, Federal University of Mato Grosso do Sul, Campo Grande, Brazil
| | - Marli F. Fiore
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, Brazil
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26
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Jokela J, Heinilä LMP, Shishido TK, Wahlsten M, Fewer DP, Fiore MF, Wang H, Haapaniemi E, Permi P, Sivonen K. Production of High Amounts of Hepatotoxin Nodularin and New Protease Inhibitors Pseudospumigins by the Brazilian Benthic Nostoc sp. CENA543. Front Microbiol 2017; 8:1963. [PMID: 29062311 PMCID: PMC5640712 DOI: 10.3389/fmicb.2017.01963] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2017] [Accepted: 09/25/2017] [Indexed: 01/26/2023] Open
Abstract
Nostoc is a cyanobacterial genus, common in soils and a prolific producer of natural products. This research project aimed to explore and characterize Brazilian cyanobacteria for new bioactive compounds. Here we report the production of hepatotoxins and new protease inhibitors from benthic Nostoc sp. CENA543 isolated from a small, shallow, saline-alkaline lake in the Nhecolândia, Pantanal wetland area in Brazil. Nostoc sp. CENA543 produces exceptionally high amounts of nodularin-R. This is the first free-living Nostoc that produces nodularin at comparable levels as the toxic, bloom-forming, Nodularia spumigena. We also characterized pseudospumigins A-F, which are a novel family of linear tetrapeptides. Pseudospumigins are structurally related to linear tetrapeptide spumigins and aeruginosins both present in N. spumigena but differ in respect to their diagnostic amino acid, which is Ile/Leu/Val in pseudospumigins, Pro/mPro in spumigins, and Choi in aeruginosins. The pseudospumigin gene cluster is more similar to the spumigin biosynthetic gene cluster than the aeruginosin gene cluster. Pseudospumigin A inhibited trypsin (IC50 4.5 μM after 1 h) in a similar manner as spumigin E from N. spumigena but was almost two orders of magnitude less potent. This study identifies another location and environment where the hepatotoxic nodularin has the potential to cause the death of eukaryotic organisms.
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Affiliation(s)
- Jouni Jokela
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Lassi M P Heinilä
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Tânia K Shishido
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Matti Wahlsten
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - David P Fewer
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Marli F Fiore
- Center for Nuclear Energy in Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Hao Wang
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Esa Haapaniemi
- Department of Chemistry, University of Jyväskylä, Helsinki, Finland
| | - Perttu Permi
- Department of Chemistry, University of Jyväskylä, Helsinki, Finland.,Department of Biological and Environmental Science, Nanoscience Center, University of Jyväskylä, Helsinki, Finland
| | - Kaarina Sivonen
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
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27
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Genuário DB, Vaz MGMV, Melo ISD. Phylogenetic insights into the diversity of homocytous cyanobacteria from Amazonian rivers. Mol Phylogenet Evol 2017; 116:120-135. [PMID: 28830829 DOI: 10.1016/j.ympev.2017.08.010] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Revised: 06/05/2017] [Accepted: 08/17/2017] [Indexed: 01/23/2023]
Abstract
The Amazon Rainforest holds great tropical biodiversity, mainly because of its favourable climatic conditions. The high temperatures, luminosity and humidity coupled with the nutritional simplicity of cyanobacteria allow undiscovered diversity to flourish within this group of microorganisms. Some efforts to reveal this diversity have been attempted; however, most were focused on the microscopic observation of environmental samples without any genetic information. Very few studies focusing on morphological, ecological and molecular criteria have been conducted, and none have been devoted to homocytous cyanobacteria forms in Amazonia region. Therefore, the genetic relationships amongst strains retrieved from this ecosystem with regard to other environments from Brazil and the world have not been tested and, consequently, the Amazonian strains would naturally be assumed as novel to science. To examine these relationships, cultured homocytous cyanobacteria isolated from two Amazonian rivers (Amazonas and Solimões) were evaluated using a phylogenetic perspective, considering the 16S rRNA gene sequence. A total of eleven homocytous cyanobacterial strains were isolated. Morphologically, they were identified as Pseudanabaena, Leptolyngbya, Planktothrix and Phormidium, but genetically they were included in the typical clusters of Planktothrix, Pseudanabaena, Cephalothrix, Pantanalinema and Alkalinema. These three latter genera have been detected in other Brazilian ecosystems only (Pantanal, Atlantic Rainforest and Pampa), while those remaining have been extensively found in many parts of the world. The data provided here indicate that Amazonian rivers support a homocytous cyanobacterial diversity previously reported from other geographical and ecological environments.
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Affiliation(s)
- Diego Bonaldo Genuário
- Laboratory of Environmental Microbiology, EMBRAPA Environment, 13820-000 Jaguariúna, São Paulo, Brazil
| | - Marcelo Gomes Marçal Vieira Vaz
- Laboratório de Ficologia e Biologia Molecular, Unidade de Crescimento de Plantas, Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-900 Viçosa, Minas Gerais, Brazil
| | - Itamar Soares de Melo
- Laboratory of Environmental Microbiology, EMBRAPA Environment, 13820-000 Jaguariúna, São Paulo, Brazil.
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28
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Suradkar A, Villanueva C, Gaysina LA, Casamatta DA, Saraf A, Dighe G, Mergu R, Singh P. Nostoc thermotolerans sp. nov., a soil-dwelling species of Nostoc (Cyanobacteria). Int J Syst Evol Microbiol 2017; 67:1296-1305. [PMID: 28109209 DOI: 10.1099/ijsem.0.001800] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A filamentous, soil-dwelling cyanobacterial strain (9C-PST) was isolated from Mandsaur, Madhya Pradesh, India, and is described as a new species of the genus Nostoc. Extensive morphological and molecular characterization along with a thorough assessment of ecology was performed. The style of filament orientation, type and nature of the sheath (e.g. distribution and visibility across the trichome), and vegetative and heterocyte cell dimensions and shape were assessed for over one year using both the laboratory grown culture and the naturally occurring samples. Sequencing of the 16S rRNA gene showed 94 % similarity with Nostocpiscinale CENA21 while analyses of the secondary structures of the 16S-23S ITS region showed unique folding patterns that differentiated this strain from other species of Nostoc. The level of rbcl and rpoC1 gene sequence similarity was 91 and 94 % to Nostocsp. PCC 7524 and Nostocpiscinale CENA21, respectively, while the nifD gene sequence similarity was found to be 99 % with Nostocpiscinale CENA21. The phenotypic, ecological, genetic and phylogenetic observations indicate that the strain 9C-PST represents a novel species of the genus Nostoc with the name proposed being Nostoc thermotolerans sp. nov. according to the International Code of Nomenclature for Algae, Fungi, and Plants.
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Affiliation(s)
- Archana Suradkar
- Microbial Culture Collection (MCC), National Centre for Cell Science (NCCS), Pune, India
| | - Chelsea Villanueva
- Department of Biology, University of North Florida, Jacksonville, FL 32224, USA
| | - Lira A Gaysina
- Department of Bioecology and Biological Education, M. Akmullah Bashkir State Pedagogical University, Ufa 450000, Russian Federation.,All-Russian Research Institute of Phytopathology, Moscow Region, Odintsovo district, B.Vyazyomy, Institute street, 5, Russian Federation
| | - Dale A Casamatta
- Department of Biology, University of North Florida, Jacksonville, FL 32224, USA
| | - Aniket Saraf
- Microbial Culture Collection (MCC), National Centre for Cell Science (NCCS), Pune, India
| | - Gandhali Dighe
- Microbial Culture Collection (MCC), National Centre for Cell Science (NCCS), Pune, India
| | - Ratnaprabha Mergu
- Microbial Culture Collection (MCC), National Centre for Cell Science (NCCS), Pune, India
| | - Prashant Singh
- Microbial Culture Collection (MCC), National Centre for Cell Science (NCCS), Pune, India
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29
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Genuário DB, Andreote APD, Vaz MGMV, Fiore MF. Heterocyte-forming cyanobacteria from Brazilian saline-alkaline lakes. Mol Phylogenet Evol 2017; 109:105-112. [DOI: 10.1016/j.ympev.2016.12.032] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2016] [Revised: 12/22/2016] [Accepted: 12/28/2016] [Indexed: 10/20/2022]
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30
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Esteves-Ferreira AA, Cavalcanti JHF, Vaz MGMV, Alvarenga LV, Nunes-Nesi A, Araújo WL. Cyanobacterial nitrogenases: phylogenetic diversity, regulation and functional predictions. Genet Mol Biol 2017; 40:261-275. [PMID: 28323299 PMCID: PMC5452144 DOI: 10.1590/1678-4685-gmb-2016-0050] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2016] [Accepted: 12/21/2016] [Indexed: 12/21/2022] Open
Abstract
Cyanobacteria is a remarkable group of prokaryotic photosynthetic microorganisms, with several genera capable of fixing atmospheric nitrogen (N2) and presenting a wide range of morphologies. Although the nitrogenase complex is not present in all cyanobacterial taxa, it is spread across several cyanobacterial strains. The nitrogenase complex has also a high theoretical potential for biofuel production, since H2 is a by-product produced during N2 fixation. In this review we discuss the significance of a relatively wide variety of cell morphologies and metabolic strategies that allow spatial and temporal separation of N2 fixation from photosynthesis in cyanobacteria. Phylogenetic reconstructions based on 16S rRNA and nifD gene sequences shed light on the evolutionary history of the two genes. Our results demonstrated that (i) sequences of genes involved in nitrogen fixation (nifD) from several morphologically distinct strains of cyanobacteria are grouped in similarity with their morphology classification and phylogeny, and (ii) nifD genes from heterocytous strains share a common ancestor. By using this data we also discuss the evolutionary importance of processes such as horizontal gene transfer and genetic duplication for nitrogenase evolution and diversification. Finally, we discuss the importance of H2 synthesis in cyanobacteria, as well as strategies and challenges to improve cyanobacterial H2 production.
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Affiliation(s)
- Alberto A Esteves-Ferreira
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil.,Max-Planck-partner group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil
| | - João Henrique Frota Cavalcanti
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil.,Max-Planck-partner group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil
| | - Marcelo Gomes Marçal Vieira Vaz
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil.,Max-Planck-partner group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil
| | - Luna V Alvarenga
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil.,Max-Planck-partner group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil
| | - Adriano Nunes-Nesi
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil.,Max-Planck-partner group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil
| | - Wagner L Araújo
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil.,Max-Planck-partner group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, MG, Brazil
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31
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Sciuto K, Moro I. Detection of the new cosmopolitan genus Thermoleptolyngbya (Cyanobacteria, Leptolyngbyaceae) using the 16S rRNA gene and 16S-23S ITS region. Mol Phylogenet Evol 2016; 105:15-35. [PMID: 27546720 DOI: 10.1016/j.ympev.2016.08.010] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2016] [Revised: 07/19/2016] [Accepted: 08/15/2016] [Indexed: 01/22/2023]
Abstract
Cyanobacteria are widespread prokaryotes that are able to live in extreme conditions such as thermal springs. Strains attributable to the genus Leptolyngbya are among the most common cyanobacteria sampled from thermal environments. Leptolyngbya is a character-poor taxon that was demonstrated to be polyphyletic based on molecular analyses. The recent joining of 16S rRNA gene phylogenies with 16S-23S ITS secondary structure analysis is a useful approach to detect new cryptic taxa and has led to the separation of new genera from Leptolyngbya and to the description of new species inside this genus and in other related groups. In this study, phylogenetic investigations based on both the 16S rRNA gene and the 16S-23S ITS region were performed alongside 16S rRNA and 16S-23S ITS secondary structure analyses on cyanobacteria of the family Leptolyngbyaceae. These analyses focused on filamentous strains sampled from thermal springs with a morphology ascribable to the genus Leptolyngbya. The phylogenetic reconstructions showed that the Leptolyngbya-like thermal strains grouped into a monophyletic lineage that was distinct from Leptolyngbya. The 16S-23S ITS secondary structure results supported the separation of this cluster. A new genus named Thermoleptolyngbya was erected to encompass these strains, and two species were described inside this new taxon: T. albertanoae and T. oregonensis.
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MESH Headings
- Base Sequence
- Cyanobacteria/classification
- Cyanobacteria/genetics
- Cyanobacteria/ultrastructure
- DNA, Ribosomal Spacer/genetics
- Ecosystem
- Geography
- Nucleic Acid Conformation
- Phylogeny
- RNA, Bacterial/chemistry
- RNA, Bacterial/genetics
- RNA, Ribosomal, 16S/chemistry
- RNA, Ribosomal, 16S/genetics
- RNA, Ribosomal, 23S/chemistry
- RNA, Ribosomal, 23S/genetics
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Affiliation(s)
- Katia Sciuto
- Department of Biology, University of Padova, via U. Bassi 58/B, 35131 Padova, Italy.
| | - Isabella Moro
- Department of Biology, University of Padova, via U. Bassi 58/B, 35131 Padova, Italy
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32
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Barbiero L, Berger G, Rezende Filho AT, Meunier JF, Martins-Silva ER, Furian S. Organic Control of Dioctahedral and Trioctahedral Clay Formation in an Alkaline Soil System in the Pantanal Wetland of Nhecolândia, Brazil. PLoS One 2016; 11:e0159972. [PMID: 27463379 PMCID: PMC4962978 DOI: 10.1371/journal.pone.0159972] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Accepted: 07/10/2016] [Indexed: 11/26/2022] Open
Abstract
Recent studies have focused on the formation of authigenic clays in an alkaline soil system surrounding lakes of the Nhecolândia region, Pantanal wetland. The presence of trioctahedral Mg-smectites (stevensite and saponite types), which requires low Al and Fe contents in the soil solution for its formation, contrasts with the neoformation of dioctahedral Fe-mica (glauconite, and Fe-illite), which instead requires solutions relatively enriched in Al and Fe. This study aims to understand the conditions of co-existence of both, Mg-smectite and Fe-mica a common clay association in former or modern alkaline soil systems and sediments. The study was carried out along an alkaline soil catena representative of the region. The soil organization revealed that Mg-smectite occur in top soil close to the lake, whereas Fe-mica dominate in the clay fraction of deeper greenish horizons a few meters apart. We propose here that this spatial distribution is controlled by the lateral transfer of Fe and Al with organic ligands. Alkaline organic rich solutions (DOC up to 738 mg L-1) collected in the watertable were centrifuged and filtered through membranes of decreasing pore size (0.45 μm, 0.2 μm, 30 KDa, 10 KDa, 3 KDa) to separate colloidal and dissolved fractions. Fe, Al, Si, Mg and K were analysed for each fraction. Although the filtration had no influence on Si and K contents, almost 90% of Fe (up to 2.3 mg L-1) and Al (up to 7 mg L-1) are retained at the first cutoff threshold of 0.45μm. The treatment of the same solutions by oxygen peroxide before filtration shows that a large proportion of Fe and Al were bonded to organic colloids in alkaline soil solution at the immediate lake border, allowing Mg-smectite precipitation. The fast mineralization of the organic matter a few meters apart from the lake favors the release of Fe and Al necessary for Fe-mica neoformation. In comparison with chemical and mineralogical characteristics of alkaline environments described in the literature, the study suggests that the co-existence of trioctahedral Mg-smectite and dioctahedral Fe-mica should be regarded as a standard occurrence in alkaline soil systems with organic rich waters.
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Affiliation(s)
- Laurent Barbiero
- Géosciences Environnement Toulouse (GET), Observatoire de Midi-Pyrénées, Université de Toulouse, CNRS, IRD, 14 Avenue Edouard Belin, F-31400 Toulouse, France
- * E-mail:
| | - Gilles Berger
- Institut de Recherche en Astrophysique et Planétologie (IRAP), Observatoire de Midi-Pyrénées, Université de Toulouse, CNRS, IRD, 14 Avenue Edouard Belin, F-31400 Toulouse, France
| | - Ary T. Rezende Filho
- FAENG—Faculdade de Engenharias, Arquitetura e Urbanismo e Geografia, Universidade Federal do Mato-Grosso do Sul, Cidade Universitária s/n, Caixa Postal 549, 79070–900 Campo Grande-MS, Brazil
| | - Jean-François Meunier
- Laboratoire de Chimie de Coordination (LCC), Université de Toulouse, CNRS, 205 route de Narbonne F-31077, Toulouse, France
| | - Elisângela R. Martins-Silva
- Departamento de Ciências Agrárias e Ambientais, Universidade Estadual de Santa Cruz, Salobrinho 45662900, Ilhéus, Brazil
| | - Sonia Furian
- Departamento de Geografia (DG) Universidade de São Paulo, Avenida Pr. Lineu Prestes 338, Cidade Universitária 05508–900, São Paulo, Brazil
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Halotia gen. nov., a phylogenetically and physiologically coherent cyanobacterial genus isolated from marine coastal environments. Int J Syst Evol Microbiol 2015; 65:663-675. [DOI: 10.1099/ijs.0.070078-0] [Citation(s) in RCA: 67] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Nostoc
is a common and well-studied genus of cyanobacteria and, according to molecular phylogeny, is a polyphyletic group. Therefore, revisions of this genus are urged in an attempt to clarify its taxonomy. Novel strains isolated from underexplored environments and assigned morphologically to the genus
Nostoc
are not genetically related to the ‘true Nostoc’ group. In this study, four strains isolated from biofilms collected in Antarctica and five strains originated from Brazilian mangroves were evaluated. Despite their morphological similarities to other morphotypes of
Nostoc
, these nine strains differed from other morphotypes in ecological, physiological and genetic aspects. Based on the phylogeny of the 16S rRNA gene, the Antarctic sequences were grouped together with the sequences of the Brazilian mangrove isolates and Nostoc sp. Mollenhauer 1 : 1-067 in a well-supported cluster (74 % bootstrap value, maximum-likelihood). This novel cluster was separated phylogenetically from the ‘true Nostoc’ clade and from the clades of the morphologically similar genera Mojavia and Desmonostoc. The 16S rRNA gene sequences generated in this study exhibited 96 % similarity to sequences from the nostocacean genera mentioned above. Physiologically, these nine strains showed the capacity to grow in a salinity range of 1–10 % NaCl, indicating their tolerance of saline conditions. These results provide support for the description of a new genus, named Halotia gen. nov., which is related morphologically to the genera
Nostoc
, Mojavia and Desmonostoc. Within this new genus, three novel species were recognized and described based on morphology and internal transcribed spacer secondary structures: Halotia branconii sp. nov., Halotia longispora sp. nov. and Halotia wernerae sp. nov., under the provisions of the International Code of Nomenclature for Algae, Fungi and Plants.
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Vaz MGMV, Genuário DB, Andreote APD, Malone CFS, Sant’Anna CL, Barbiero L, Fiore MF. Pantanalinema gen. nov. and Alkalinema gen. nov.: novel pseudanabaenacean genera (Cyanobacteria) isolated from saline–alkaline lakes. Int J Syst Evol Microbiol 2015; 65:298-308. [DOI: 10.1099/ijs.0.070110-0] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The genus
Leptolyngbya
Anagnostidis & Komárek (1988) was described from a set of strains identified as ‘LPP-group B’. The morphology within this group is not particularly informative and underestimates the group’s genetic diversity. In the present study, two new pseudanabaenacean genera related to
Leptolyngbya
morphotypes, Pantanalinema gen. nov. and Alkalinema gen. nov., are described under the provisions of the International Code of Nomenclature for Algae, Fungi and Plants, based on a polyphasic approach. Pantanalinema gen. nov. (type species Pantanalinema rosaneae sp. nov.) has sheaths and trichomes with slight gliding motility, which distinguish this genus from Alkalinema gen. nov. (type species Alkalinema pantanalense sp. nov.), which possesses trichomes arranged in an ornate (interwoven) pattern. 16S rRNA gene sequences of strains of Pantanalinema and Alkalinema exhibited low identity to each other (≤91.6 %) and to other sequences from known pseudanabaenacean genera (≤94.3 and 93.7 %, respectively). In a phylogenetic reconstruction, six sequences from strains of Pantanalinema and four from strains of Alkalinema formed two separate and robust clades (99 % bootstrap value), with the genera Oculatella and Phormidesmis, respectively, as the closest related groups. 16S–23S rRNA intergenic spacer sequences and secondary structures of strains of Pantanalinema and Alkalinema did not correspond to any previous descriptions. The strains of Pantanalinema and Alkalinema were able to survive and produce biomass at a range of pH (pH 4–11) and were also able to alter the culture medium to pH values ranging from pH 8.4 to 9.9. These data indicate that cyanobacterial communities in underexplored environments, such as the Pantanal wetlands, are promising sources of novel taxa.
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Affiliation(s)
| | - Diego Bonaldo Genuário
- University of São Paulo, Center for Nuclear Energy in Agriculture, Avenida Centenário 303, 13400-970 Piracicaba, SP, Brazil
| | - Ana Paula Dini Andreote
- University of São Paulo, Center for Nuclear Energy in Agriculture, Avenida Centenário 303, 13400-970 Piracicaba, SP, Brazil
| | | | | | - Laurent Barbiero
- IRD, CNRS, UPS, OMP, Géoscience Environnement Toulouse, 19 Av. Edouard Belin, F-31400 Toulouse, France
- University of São Paulo, Center for Nuclear Energy in Agriculture, Avenida Centenário 303, 13400-970 Piracicaba, SP, Brazil
| | - Marli Fátima Fiore
- University of São Paulo, Center for Nuclear Energy in Agriculture, Avenida Centenário 303, 13400-970 Piracicaba, SP, Brazil
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