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Li Y, Wang Y, Lin X, Sun S, Wu A, Ge Y, Yuan M, Wang J, Deng X, Tian Y. Algicidal bacteria-derived membrane vesicles as shuttles mediating cross-kingdom interactions between bacteria and algae. SCIENCE ADVANCES 2024; 10:eadn4526. [PMID: 39110793 PMCID: PMC11305373 DOI: 10.1126/sciadv.adn4526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Accepted: 06/28/2024] [Indexed: 08/10/2024]
Abstract
Bacterial membrane vesicles (BMVs) are crucial biological vehicles for facilitating interspecies and interkingdom interactions. However, the extent and mechanisms of BMV involvement in bacterial-algal communication remain elusive. This study provides evidence of BMVs delivering cargos to targeted microalgae. Membrane vesicles (MVs) from Chitinimonas prasina LY03 demonstrated an algicidal profile similar to strain LY03. Further investigation revealed Tambjamine LY2, an effective algicidal compound, selectively packaged into LY03-MVs. Microscopic imaging demonstrated efficient delivery of Tambjamine LY2 to microalgae Heterosigma akashiwo and Thalassiosira pseudonana through membrane fusion. In addition, the study demonstrated the versatile cargo delivery capabilities of BMVs to algae, including the transfer of MV-carried nucleic acids into algal cells and the revival of growth in iron-depleted microalgae by MVs. Collectively, our findings reveal a previously unknown mechanism by which algicidal bacteria store hydrophobic algicidal compounds in MVs to trigger target microalgae death and highlight BMV potency in understanding and engineering bacterial-algae cross-talk.
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Affiliation(s)
- Yixin Li
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Yuezhou Wang
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Xiaolan Lin
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Shuqian Sun
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Anan Wu
- State Key Laboratory for Physical Chemistry of Solid Surface, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
| | - Yintong Ge
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Menghui Yuan
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Jianhua Wang
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Xianming Deng
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Yun Tian
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
- Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, Xiamen University, Xiamen 361102, China
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2
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Gambarini V, Drost CJ, Kingsbury JM, Weaver L, Pantos O, Handley KM, Lear G. Uncoupled: investigating the lack of correlation between the transcription of putative plastic-degrading genes in the global ocean microbiome and marine plastic pollution. ENVIRONMENTAL MICROBIOME 2024; 19:34. [PMID: 38750536 PMCID: PMC11097532 DOI: 10.1186/s40793-024-00575-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Accepted: 05/01/2024] [Indexed: 05/18/2024]
Abstract
BACKGROUND Plastic pollution is a severe threat to marine ecosystems. While some microbial enzymes can degrade certain plastics, the ability of the global ocean microbiome to break down diverse environmental plastics remains limited. We employed metatranscriptomic data from an international ocean survey to explore global and regional patterns in microbial plastic degradation potential. RESULTS On a global oceanic scale, we found no significant correlation between levels of plastic pollution and the expression of genes encoding enzymes putatively identified as capable of plastic degradation. Even when looking at different regional scales, ocean depth layers, or plastic types, we found no strong or even moderate correlation between plastic pollution and relative abundances of transcripts for enzymes with presumed plastic biodegradation potential. Our data, however, indicate that microorganisms in the Southern Ocean show a higher potential for plastic degradation, making them more appealing candidates for bioprospecting novel plastic-degrading enzymes. CONCLUSION Our research contributes to understanding the complex global relationship between plastic pollution and microbial plastic degradation potential. We reveal that the transcription of putative plastic-degrading genes in the global ocean microbiome does not correlate to marine plastic pollution, highlighting the ongoing danger that plastic poses to marine environments threatened by plastic pollution.
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Affiliation(s)
- Victor Gambarini
- School of Biological Sciences, University of Auckland, 3a Symonds Street, Auckland, 1010, New Zealand
- Centre for eResearch, University of Auckland, 23 Symonds Street, Auckland, 1010, New Zealand
| | - Cornelis J Drost
- Centre for eResearch, University of Auckland, 23 Symonds Street, Auckland, 1010, New Zealand
| | - Joanne M Kingsbury
- The Institute of Environmental Science and Research, 27 Creyke Road, Ilam, Christchurch, 8041, New Zealand
| | - Louise Weaver
- The Institute of Environmental Science and Research, 27 Creyke Road, Ilam, Christchurch, 8041, New Zealand
| | - Olga Pantos
- The Institute of Environmental Science and Research, 27 Creyke Road, Ilam, Christchurch, 8041, New Zealand
| | - Kim M Handley
- School of Biological Sciences, University of Auckland, 3a Symonds Street, Auckland, 1010, New Zealand
| | - Gavin Lear
- School of Biological Sciences, University of Auckland, 3a Symonds Street, Auckland, 1010, New Zealand.
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3
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Chen CY, Liu PY, Chang YH, Nagarajan D, Latagan MJD, de Luna MDG, Chen JH, Chang JS. Optimizing cultivation strategies and scaling up for fucoxanthin production using Pavlova sp. BIORESOURCE TECHNOLOGY 2024; 399:130609. [PMID: 38508283 DOI: 10.1016/j.biortech.2024.130609] [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: 01/03/2024] [Revised: 03/16/2024] [Accepted: 03/17/2024] [Indexed: 03/22/2024]
Abstract
The microalgal-based production of fucoxanthin has emerged as an imperative research endeavor due to its antioxidant, and anticancer properties. In this study, three brown marine microalgae, namely Skeletonema costatum, Chaetoceros gracilis, and Pavlova sp., were screened for fucoxanthin production. All strains displayed promising results, with Pavlova sp. exhibiting the highest fucoxanthin content (27.91 mg/g) and productivity (1.16 mg/L·day). Moreover, the influence of various cultivation parameters, such as culture media, salinity, sodium nitrate concentration, inoculum size, light intensity, and iron concentration, were investigated and optimized, resulting in a maximum fucoxanthin productivity of 7.89 mg/L·day. The investigation was further expanded to large-scale outdoor cultivation using 50 L tubular photobioreactors, illustrating the potential of Pavlova sp. and the cultivation process for future commercialization. The biomass and fucoxanthin productivity for the large-scale cultivation were 70.7 mg/L·day and 4.78 mg/L·day, respectively. Overall, the findings demonstrated considerable opportunities for fucoxanthin synthesis via microalgae cultivation and processing.
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Affiliation(s)
- Chun-Yen Chen
- University Center for Bioscience and Biotechnology, National Cheng Kung University, Tainan, Taiwan; Department of Biotechnology and Bioindustry Sciences, National Cheng Kung University, Tainan 701, Taiwan
| | - Ping-Yung Liu
- Department of Chemical Engineering, National Cheng Kung University, Tainan, Taiwan
| | - Yu-Han Chang
- Department of Chemical Engineering, National Cheng Kung University, Tainan, Taiwan
| | - Dillirani Nagarajan
- Institute of Aquatic Science and Technology, College of Hydrosphere Science, National Kaohsiung University of Science and Technology, Nanzih Campus, Kaohsiung City, Taiwan
| | - Mary Joy D Latagan
- Energy Engineering Program, National Graduate School of Engineering, University of the Philippines Diliman, Quezon City 1101, Philippines
| | - Mark Daniel G de Luna
- Energy Engineering Program, National Graduate School of Engineering, University of the Philippines Diliman, Quezon City 1101, Philippines; Environmental Engineering Program, National Graduate School of Engineering, University of the Philippines, Diliman, Quezon City 1101, Philippines; Department of Chemical Engineering, University of the Philippines Diliman, Quezon City 1101, Philippines
| | - Jih-Heng Chen
- Department of Chemical and Materials Engineering, National Kaohsiung University of Science and Technology, Kaohsiung 807, Taiwan
| | - Jo-Shu Chang
- Department of Chemical Engineering, National Cheng Kung University, Tainan, Taiwan; Department of Chemical and Materials Engineering, Tunghai University, Taichung 407, Taiwan; Research Center for Smart Sustainable Circular Economy, Tunghai University, Taichung 407, Taiwan; Department of Chemical Engineering and Materials Science, Yuan Ze University, Chung-Li, Taiwan.
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4
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Sun X, Xiao Y, Yong C, Sun H, Li S, Huang H, Jiang H. Interactions between the nitrogen-fixing cyanobacterium Trichodesmium and siderophore-producing cyanobacterium Synechococcus under iron limitation. ISME COMMUNICATIONS 2024; 4:ycae072. [PMID: 38873030 PMCID: PMC11171426 DOI: 10.1093/ismeco/ycae072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Revised: 04/07/2024] [Indexed: 06/15/2024]
Abstract
As diazotrophic cyanobacteria of tremendous biomass, Trichodesmium continuously provide a nitrogen source for carbon-fixing cyanobacteria and drive the generation of primary productivity in marine environments. However, ocean iron deficiencies limit growth and metabolism of Trichodesmium. Recent studies have shown the co-occurrence of Trichodesmium and siderophore-producing Synechococcus in iron-deficient oceans, but whether siderophores secreted by Synechococcus can be used by Trichodesmium to adapt to iron deficiency is not clear. We constructed a mutant Synechococcus strain unable to produce siderophores to explore this issue. Synechococcus filtrates with or without siderophores were added into a Trichodesmium microbial consortium consisting of Trichodesmium erythraeum IMS 101 as the dominant microbe with chronic iron deficiency. By analyzing the physiological phenotype, metagenome, and metatranscriptome, we investigated the interactions between the nitrogen-fixing cyanobacterium Tricodesmium and siderophore-producing cyanobacterium Synechococcus under conditions of iron deficiency. The results indicated that siderophores secreted by Synechococcus are likely to chelate with free iron in the culture medium of the Trichodesmium consortium, reducing the concentration of bioavailable iron and posing greater challenges to the absorption of iron by Trichodesmium. These findings revealed the characteristics of iron-competitive utilization between diazotrophic cyanobacteria and siderophore-producing cyanobacteria, as well as potential interactions, and provide a scientific basis for understanding the regulatory effects of nutrient limitation on marine primary productivity.
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Affiliation(s)
- Xumei Sun
- School of Marine Sciences, Ningbo University, 818 Fenghua Road, Ningbo, Zhejiang, 315211, People’s Republic of China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), 1 Jintang Road, Zhuhai, Guangdong, 519000, People’s Republic of China
| | - Yan Xiao
- School of Life Sciences, Central China Normal University, 152 Luoyu Road, Wuhan, Hubei, 430079, People’s Republic of China
| | - Chengwen Yong
- School of Marine Sciences, Ningbo University, 818 Fenghua Road, Ningbo, Zhejiang, 315211, People’s Republic of China
| | - Hansheng Sun
- School of Marine Sciences, Ningbo University, 818 Fenghua Road, Ningbo, Zhejiang, 315211, People’s Republic of China
| | - Shuangqing Li
- School of Marine Sciences, Ningbo University, 818 Fenghua Road, Ningbo, Zhejiang, 315211, People’s Republic of China
| | - Hailong Huang
- School of Marine Sciences, Ningbo University, 818 Fenghua Road, Ningbo, Zhejiang, 315211, People’s Republic of China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), 1 Jintang Road, Zhuhai, Guangdong, 519000, People’s Republic of China
| | - Haibo Jiang
- School of Marine Sciences, Ningbo University, 818 Fenghua Road, Ningbo, Zhejiang, 315211, People’s Republic of China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), 1 Jintang Road, Zhuhai, Guangdong, 519000, People’s Republic of China
- School of Life Sciences, Central China Normal University, 152 Luoyu Road, Wuhan, Hubei, 430079, People’s Republic of China
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5
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Sharpe G, Zhao L, Meyer MG, Gong W, Burns SM, Tagliabue A, Buck KN, Santoro AE, Graff JR, Marchetti A, Gifford S. Synechococcus nitrogen gene loss in iron-limited ocean regions. ISME COMMUNICATIONS 2023; 3:107. [PMID: 37783796 PMCID: PMC10545762 DOI: 10.1038/s43705-023-00314-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Revised: 09/15/2023] [Accepted: 09/21/2023] [Indexed: 10/04/2023]
Abstract
Synechococcus are the most abundant cyanobacteria in high latitude regions and are responsible for an estimated 17% of annual marine net primary productivity. Despite their biogeochemical importance, Synechococcus populations have been unevenly sampled across the ocean, with most studies focused on low-latitude strains. In particular, the near absence of Synechococcus genomes from high-latitude, High Nutrient Low Chlorophyll (HNLC) regions leaves a gap in our knowledge of picocyanobacterial adaptations to iron limitation and their influence on carbon, nitrogen, and iron cycles. We examined Synechococcus populations from the subarctic North Pacific, a well-characterized HNLC region, with quantitative metagenomics. Assembly with short and long reads produced two near complete Synechococcus metagenome-assembled genomes (MAGs). Quantitative metagenome-derived abundances of these populations matched well with flow cytometry counts, and the Synechococcus MAGs were estimated to comprise >99% of the Synechococcus at Station P. Whereas the Station P Synechococcus MAGs contained multiple genes for adaptation to iron limitation, both genomes lacked genes for uptake and assimilation of nitrate and nitrite, suggesting a dependence on ammonium, urea, and other forms of recycled nitrogen leading to reduced iron requirements. A global analysis of Synechococcus nitrate reductase abundance in the TARA Oceans dataset found nitrate assimilation genes are also lower in other HNLC regions. We propose that nitrate and nitrite assimilation gene loss in Synechococcus may represent an adaptation to severe iron limitation in high-latitude regions where ammonium availability is higher. Our findings have implications for models that quantify the contribution of cyanobacteria to primary production and subsequent carbon export.
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Affiliation(s)
- Garrett Sharpe
- Environment Ecology and Energy Program, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Liang Zhao
- Earth, Marine and Environmental Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Meredith G Meyer
- Earth, Marine and Environmental Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Weida Gong
- Earth, Marine and Environmental Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Shannon M Burns
- College of Marine Science, University of South Florida, St. Petersburg, FL, USA
| | | | - Kristen N Buck
- College of Marine Science, University of South Florida, St. Petersburg, FL, USA
- College of Earth, Ocean, and Atmospheric Sciences, Oregon State University, Corvallis, OR, USA
| | - Alyson E Santoro
- Department of Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, CA, USA
| | - Jason R Graff
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA
| | - Adrian Marchetti
- Earth, Marine and Environmental Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - Scott Gifford
- Earth, Marine and Environmental Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
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6
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Cruz-López R, Carrano CJ. Iron uptake, transport and storage in marine brown algae. Biometals 2023; 36:371-383. [PMID: 36930341 DOI: 10.1007/s10534-023-00489-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2021] [Accepted: 01/10/2023] [Indexed: 03/18/2023]
Abstract
Iron is a vital although biologically inaccessible trace nutrient for nearly all forms of life but "free" iron can be deleterious to cells and thus iron uptake and storage must be carefully controlled. The marine environment is particularly iron poor making mechanisms for its uptake and storage even more imperative. In this brief review we explore the known and potential iron uptake and storage pathways for the biologically and economically important marine brown macroalgae (seaweeds/kelps).
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Affiliation(s)
- Ricardo Cruz-López
- Instituto de Investigaciones Oceanológicas (IIO), Universidad Autónoma de Baja California (UABC), Ensenada, Baja California, México.
| | - Carl J Carrano
- Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA, 92182-1030, USA
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7
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de Souza Viana LM, Constantino WD, Tostes ECL, Luze FHR, de Barros Salomão MSM, de Jesus TB, de Carvalho CEV. Seasonal variation, contribution and dynamics of trace elements in the drainage basin and estuary of the Serinhaém river, BA. MARINE POLLUTION BULLETIN 2023; 188:114653. [PMID: 36764148 DOI: 10.1016/j.marpolbul.2023.114653] [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: 11/01/2022] [Revised: 01/15/2023] [Accepted: 01/20/2023] [Indexed: 06/18/2023]
Abstract
In the present study a mass balance calculation was used to quantify trace elements (Al, Ba, Cd, Cr, Cu, Fe, Mn, Pb, Ti, V and Zn) fluxes exported from the Serinhaém River estuary to the Atlantic Ocean. The studied elements exportation in the particulate fraction showed higher fluxes in the first sampling campaign and a high export rate to the Atlantic Ocean during this period. The physical-chemical parameters showed the highest values in sampling campaign 1. These variations are probably the cause of the different trace elements behavior in fluvial and estuarine areas, where removal and addition processes between particulate and dissolved phases took place, affecting distribution coefficient and fluxes to the Atlantic Ocean. EPA ecosystems present values in accordance with Brazilian legislation for pristine areas, however, monitoring programs must be carried out in the region, to avoid future environmental problems.
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Affiliation(s)
- Luísa Maria de Souza Viana
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Av. Alberto Lamego, 2000 - Parque Califórnia, CEP: 28013-602 Campos dos Goytacazes, Rio de Janeiro, Brazil.
| | - Wendel Dias Constantino
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Av. Alberto Lamego, 2000 - Parque Califórnia, CEP: 28013-602 Campos dos Goytacazes, Rio de Janeiro, Brazil
| | - Eloá Côrrea Lessa Tostes
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Av. Alberto Lamego, 2000 - Parque Califórnia, CEP: 28013-602 Campos dos Goytacazes, Rio de Janeiro, Brazil
| | - Felipe Henrique Rossi Luze
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Av. Alberto Lamego, 2000 - Parque Califórnia, CEP: 28013-602 Campos dos Goytacazes, Rio de Janeiro, Brazil
| | - Marcos Sarmet Moreira de Barros Salomão
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Av. Alberto Lamego, 2000 - Parque Califórnia, CEP: 28013-602 Campos dos Goytacazes, Rio de Janeiro, Brazil
| | - Taíse Bonfim de Jesus
- Departamento de Ciências Exatas, Universidade Estadual de Feira de Santana, Feira de Santana, Bahia, Brazil
| | - Carlos Eduardo Veiga de Carvalho
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Av. Alberto Lamego, 2000 - Parque Califórnia, CEP: 28013-602 Campos dos Goytacazes, Rio de Janeiro, Brazil
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8
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Lobus NV, Kulikovskiy MS. The Co-Evolution Aspects of the Biogeochemical Role of Phytoplankton in Aquatic Ecosystems: A Review. BIOLOGY 2023; 12:biology12010092. [PMID: 36671784 PMCID: PMC9855382 DOI: 10.3390/biology12010092] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Revised: 12/12/2022] [Accepted: 01/03/2023] [Indexed: 01/11/2023]
Abstract
In freshwater and marine ecosystems, the phytoplankton community is based on microalgae and cyanobacteria, which include phylogenetically very diverse groups of oxygenic photoautotrophs. In the process of evolution, they developed a wide range of bio(geo)chemical adaptations that allow them to effectively use solar radiation, CO2, and nutrients, as well as major and trace elements, to form O2 and organic compounds with a high chemical bond energy. The inclusion of chemical elements in the key processes of energy and plastic metabolism in the cell is determined by redox conditions and the abundance and metabolic availability of elements in the paleoenvironment. Geochemical evolution, which proceeded simultaneously with the evolution of biosystems, contributed to an increase in the number of metals and trace elements acting as cofactors of enzymes involved in metabolism and maintaining homeostasis in the first photoautotrophs. The diversity of metal-containing enzymes and the adaptive ability to replace one element with another without losing the functional properties of enzymes ensured the high ecological plasticity of species and allowed microalgae and cyanobacteria to successfully colonize a wide variety of habitats. In this review, we consider the main aspects of the modern concepts of the biogeochemical evolution of aquatic ecosystems and the role of some metals in the main bioenergetic processes in photosynthetic prokaryotes and eukaryotes. We present generalized data on the efficiency of the assimilation of key nutrients by phytoplankton and their importance in the cycle of carbon, silicon, nitrogen, phosphorus, sulfur, and iron. This article presents modern views on the evolutionary prerequisites for the formation of elemental signatures in different systematic groups of microalgae, as well as the possibility of using the stoichiometric ratio in the study of biological and geochemical processes in aquatic ecosystems.
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9
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Behnke J, Cai Y, Gu H, LaRoche J. Short-term response to iron resupply in an iron-limited open ocean diatom reveals rapid decay of iron-responsive transcripts. PLoS One 2023; 18:e0280827. [PMID: 36693065 PMCID: PMC9873189 DOI: 10.1371/journal.pone.0280827] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Accepted: 01/09/2023] [Indexed: 01/25/2023] Open
Abstract
In large areas of the ocean, iron concentrations are insufficient to promote phytoplankton growth. Numerous studies have been conducted to characterize the effect of iron on algae and how algae cope with fluctuating iron concentrations. Fertilization experiments in low-iron areas resulted primarily in diatom-dominated algal blooms, leading to laboratory studies on diatoms comparing low- and high-iron conditions. Here, we focus on the short-term temporal response following iron addition to an iron-starved open ocean diatom, Thalassiosira oceanica. We employed the NanoString platform and analyzed a high-resolution time series on 54 transcripts encoding proteins involved in photosynthesis, N-linked glycosylation, iron transport, as well as transcription factors. Nine transcripts were iron-responsive, with an immediate response to the addition of iron. The fastest response observed was the decrease in transcript levels of proteins involved in iron uptake, followed by an increase in transcript levels of iron-containing enzymes and a simultaneous decrease in the transcript levels of their iron-free replacement enzymes. The transcription inhibitor actinomycin D was used to understand the underlying mechanisms of the decrease of the iron-responsive transcripts and to determine their half-lives. Here, Mn-superoxide dismutase (Mn-SOD), plastocyanin (PETE), ferredoxin (PETF) and cellular repressor of EA1-stimulated genes (CREGx2) revealed longer than average half-lives. Four iron-responsive transcripts showed statistically significant differences in their decay rates between the iron-recovery samples and the actD treatment. These differences suggest regulatory mechanisms influencing gene transcription and mRNA stability. Overall, our study contributes towards a detailed understanding of diatom cell biology in the context of iron fertilization response and provides important observations to assess oceanic diatom responses following sudden changes in iron concentrations.
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Affiliation(s)
- Joerg Behnke
- Department of Biology, Dalhousie University, Halifax, Nova Scotia, Canada
- * E-mail: (JB); (JL)
| | - Yun Cai
- Department of Mathematics & Statistics, Dalhousie University, Halifax, Nova Scotia, Canada
| | - Hong Gu
- Department of Mathematics & Statistics, Dalhousie University, Halifax, Nova Scotia, Canada
| | - Julie LaRoche
- Department of Biology, Dalhousie University, Halifax, Nova Scotia, Canada
- * E-mail: (JB); (JL)
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Kazamia E, Mach J, McQuaid JB, Gao X, Coale TH, Malych R, Camadro J, Lesuisse E, Allen AE, Bowler C, Sutak R. In vivo localization of iron starvation induced proteins under variable iron supplementation regimes in Phaeodactylum tricornutum. PLANT DIRECT 2022; 6:e472. [PMID: 36582220 PMCID: PMC9792268 DOI: 10.1002/pld3.472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Revised: 11/03/2022] [Accepted: 11/30/2022] [Indexed: 06/17/2023]
Abstract
UNLABELLED The model pennate diatom Phaeodactylum tricornutum is able to assimilate a range of iron sources. It therefore provides a platform to study different mechanisms of iron processing concomitantly in the same cell. In this study, we follow the localization of three iron starvation induced proteins (ISIPs) in vivo, driven by their native promoters and tagged by fluorophores in an engineered line of P. tricornutum. We find that the localization patterns of ISIPs are dynamic and variable depending on the overall iron status of the cell and the source of iron it is exposed to. Notwithstanding, a shared destination of the three ISIPs both under ferric iron and siderophore-bound iron supplementation is a globular compartment in the vicinity of the chloroplast. In a proteomic analysis, we identify that the cell engages endocytosis machinery involved in the vesicular trafficking as a response to siderophore molecules, even when these are not bound to iron. Our results suggest that there may be a direct vesicle traffic connection between the diatom cell membrane and the periplastidial compartment (PPC) that co-opts clathrin-mediated endocytosis and the "cytoplasm to vacuole" (Cvt) pathway, for proteins involved in iron assimilation. Proteomics data are available via ProteomeXchange with identifier PXD021172. HIGHLIGHT The marine diatom P. tricornutum engages a vesicular network to traffic siderophores and phytotransferrin from the cell membrane directly to a putative iron processing site in the vicinity of the chloroplast.
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Affiliation(s)
- Elena Kazamia
- Institut de Biologie de l'ENS (IBENS), Département de Biologie, École Normale Supérieure, CNRS, INSERMUniversité PSLParisFrance
| | - Jan Mach
- Department of Parasitology, Faculty of ScienceCharles UniversityVestecCzech Republic
| | - Jeffrey B. McQuaid
- Microbial and Environmental GenomicsJ. Craig Venter InstituteLa JollaCaliforniaUSA
- The Alfred Wegener InstituteHelmholtz Centre for Polar and Marine ResearchBremerhavenGermany
| | - Xia Gao
- Institut de Biologie de l'ENS (IBENS), Département de Biologie, École Normale Supérieure, CNRS, INSERMUniversité PSLParisFrance
| | - Tyler H. Coale
- Scripps Institution of Oceanography, Integrative Oceanography DivisionUniversity of California, San DiegoLa JollaCaliforniaUSA
| | - Ronald Malych
- Department of Parasitology, Faculty of ScienceCharles UniversityVestecCzech Republic
| | | | | | - Andrew E. Allen
- Microbial and Environmental GenomicsJ. Craig Venter InstituteLa JollaCaliforniaUSA
- Scripps Institution of Oceanography, Integrative Oceanography DivisionUniversity of California, San DiegoLa JollaCaliforniaUSA
| | - Chris Bowler
- Institut de Biologie de l'ENS (IBENS), Département de Biologie, École Normale Supérieure, CNRS, INSERMUniversité PSLParisFrance
| | - Robert Sutak
- Department of Parasitology, Faculty of ScienceCharles UniversityVestecCzech Republic
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11
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Laglera LM, Uskaikar H, Klaas C, Naqvi SWA, Wolf-Gladrow DA, Tovar-Sánchez A. Dissolved and particulate iron redox speciation during the LOHAFEX fertilization experiment. MARINE POLLUTION BULLETIN 2022; 184:114161. [PMID: 36179387 DOI: 10.1016/j.marpolbul.2022.114161] [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: 07/14/2022] [Revised: 09/15/2022] [Accepted: 09/17/2022] [Indexed: 06/16/2023]
Abstract
The redox speciation of iron was determined during the iron fertilization LOHAFEX and for the first time, the chemiluminescence assay of filtered and unfiltered samples was systematically compared. We hypothesize that higher chemiluminescence in unfiltered samples was caused by Fe(II) adsorbed onto biological particles. Dissolved and particulate Fe(II) increased in the mixed layer steadily 6-fold during the first two weeks and decreased back to initial levels by the end of LOHAFEX. Both Fe(II) forms did not show diel cycles downplaying the role of photoreduction. The chemiluminescence of unfiltered samples across the patch boundaries showed strong gradients, correlated significantly to biomass and the photosynthetic efficiency and were higher at night, indicative of a biological control. At 150 m deep, a secondary maximum of dissolved Fe(II) was associated with maxima of nitrite and ammonium despite high oxygen concentrations. We hypothesize that during LOHAFEX, iron redox speciation was mostly regulated by trophic interactions.
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Affiliation(s)
- Luis M Laglera
- FI-TRACE, Departamento de Química, Universidad de las Islas Baleares, Palma, Balearic Islands 07122, Spain; Laboratori Interdisciplinari sobre Canvi Climàtic, Universidad de las Islas Baleares, Palma, Balearic Islands 07122, Spain.
| | - Hema Uskaikar
- National Institute of Oceanography, Dona Paula, Goa, India
| | - Christine Klaas
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570 Bremerhaven, Germany
| | | | - Dieter A Wolf-Gladrow
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570 Bremerhaven, Germany
| | - Antonio Tovar-Sánchez
- Department of Ecology and Coastal Management, Andalusian Institute for Marine Science, ICMAN (CSIC), Campus Universitario Río San Pedro, Puerto Real, Cádiz, Spain
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12
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Enzingmüller-Bleyl TC, Boden JS, Herrmann AJ, Ebel KW, Sánchez-Baracaldo P, Frankenberg-Dinkel N, Gehringer MM. On the trail of iron uptake in ancestral Cyanobacteria on early Earth. GEOBIOLOGY 2022; 20:776-789. [PMID: 35906866 DOI: 10.1111/gbi.12515] [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: 05/16/2022] [Revised: 06/28/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
Cyanobacteria oxygenated Earth's atmosphere ~2.4 billion years ago, during the Great Oxygenation Event (GOE), through oxygenic photosynthesis. Their high iron requirement was presumably met by high levels of Fe(II) in the anoxic Archean environment. We found that many deeply branching Cyanobacteria, including two Gloeobacter and four Pseudanabaena spp., cannot synthesize the Fe(II) specific transporter, FeoB. Phylogenetic and relaxed molecular clock analyses find evidence that FeoB and the Fe(III) transporters, cFTR1 and FutB, were present in Proterozoic, but not earlier Archaean lineages of Cyanobacteria. Furthermore Pseudanabaena sp. PCC7367, an early diverging marine, benthic strain grown under simulated Archean conditions, constitutively expressed cftr1, even after the addition of Fe(II). Our genetic profiling suggests that, prior to the GOE, ancestral Cyanobacteria may have utilized alternative metal iron transporters such as ZIP, NRAMP, or FicI, and possibly also scavenged exogenous siderophore bound Fe(III), as they only acquired the necessary Fe(II) and Fe(III) transporters during the Proterozoic. Given that Cyanobacteria arose 3.3-3.6 billion years ago, it is possible that limitations in iron uptake may have contributed to the delay in their expansion during the Archean, and hence the oxygenation of the early Earth.
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Affiliation(s)
| | - Joanne S Boden
- School of Geographical Sciences, Faculty of Science, University of Bristol, Bristol, UK
- School of Earth and Environmental Sciences, University of St. Andrews, St. Andrews, UK
| | - Achim J Herrmann
- Department of Microbiology, University of Kaiserslautern, Kaiserslautern, Germany
| | - Katharina W Ebel
- Department of Microbiology, University of Kaiserslautern, Kaiserslautern, Germany
| | | | | | - Michelle M Gehringer
- Department of Microbiology, University of Kaiserslautern, Kaiserslautern, Germany
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13
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Castell C, Díaz-Santos E, Heredia-Martínez LG, López-Maury L, Ortega JM, Navarro JA, Roncel M, Hervás M. Iron Deficiency Promotes the Lack of Photosynthetic Cytochrome c550 and Affects the Binding of the Luminal Extrinsic Subunits to Photosystem II in the Diatom Phaeodactylum tricornutum. Int J Mol Sci 2022; 23:ijms232012138. [PMID: 36292994 PMCID: PMC9603157 DOI: 10.3390/ijms232012138] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Revised: 10/06/2022] [Accepted: 10/08/2022] [Indexed: 12/04/2022] Open
Abstract
In the diatom Phaeodactylum tricornutum, iron limitation promotes a decrease in the content of photosystem II, as determined by measurements of oxygen-evolving activity, thermoluminescence, chlorophyll fluorescence analyses and protein quantification methods. Thermoluminescence experiments also indicate that iron limitation induces subtle changes in the energetics of the recombination reaction between reduced QB and the S2/S3 states of the water-splitting machinery. However, electron transfer from QA to QB, involving non-heme iron, seems not to be significantly inhibited. Moreover, iron deficiency promotes a severe decrease in the content of the extrinsic PsbV/cytochrome c550 subunit of photosystem II, which appears in eukaryotic algae from the red photosynthetic lineage (including diatoms) but is absent in green algae and plants. The decline in the content of cytochrome c550 under iron-limiting conditions is accompanied by a decrease in the binding of this protein to photosystem II, and also of the extrinsic PsbO subunit. We propose that the lack of cytochrome c550, induced by iron deficiency, specifically affects the binding of other extrinsic subunits of photosystem II, as previously described in cyanobacterial PsbV mutants.
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14
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Rawat D, Sharma U, Poria P, Finlan A, Parker B, Sharma RS, Mishra V. Iron-dependent mutualism between Chlorella sorokiniana and Ralstonia pickettii forms the basis for a sustainable bioremediation system. ISME COMMUNICATIONS 2022; 2:83. [PMID: 36407791 PMCID: PMC9476460 DOI: 10.1038/s43705-022-00161-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/09/2021] [Revised: 06/15/2022] [Accepted: 07/14/2022] [Indexed: 01/11/2023]
Abstract
Phototrophic communities of autotrophic microalgae and heterotrophic bacteria perform complex tasks of nutrient acquisition and tackling environmental stress but remain underexplored as a basis for the bioremediation of emerging pollutants. In industrial monoculture designs, poor iron uptake by microalgae limits their productivity and biotechnological efficacy. Iron supplementation is expensive and ineffective because iron remains insoluble in an aqueous medium and is biologically unavailable. However, microalgae develop complex interkingdom associations with siderophore-producing bacteria that help solubilize iron and increase its bioavailability. Using dye degradation as a model, we combined environmental isolations and synthetic ecology as a workflow to design a simplified microbial community based on iron and carbon exchange. We established a mutualism between the previously non-associated alga Chlorella sorokiniana and siderophore-producing bacterium Ralstonia pickettii. Siderophore-mediated increase in iron bioavailability alleviated Fe stress for algae and increased the reductive iron uptake mechanism and bioremediation potential. In exchange, C. sorokiniana produced galactose, glucose, and mannose as major extracellular monosaccharides, supporting bacterial growth. We propose that extracellular iron reduction by ferrireductase is crucial for azoreductase-mediated dye degradation in microalgae. These results demonstrate that iron bioavailability, often overlooked in cultivation, governs microalgal growth, enzymatic processes, and bioremediation potential. Our results suggest that phototrophic communities with an active association for iron and carbon exchange have the potential to overcome challenges associated with micronutrient availability, while scaling up bioremediation designs.
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Affiliation(s)
- Deepak Rawat
- Bioresources & Environmental Biotechnology Laboratory, Department of Environmental Studies, University of Delhi, Delhi, 110007 India
- Department of Biochemical Engineering, Bernard Katz Building, University College London, Gower Street, London, WC1E 6BT UK
- Department of Environmental Studies, Janki Devi Memorial College, University of Delhi, Delhi, 110060 India
| | - Udita Sharma
- Bioresources & Environmental Biotechnology Laboratory, Department of Environmental Studies, University of Delhi, Delhi, 110007 India
| | - Pankaj Poria
- Bioresources & Environmental Biotechnology Laboratory, Department of Environmental Studies, University of Delhi, Delhi, 110007 India
| | - Arran Finlan
- Department of Biochemical Engineering, Bernard Katz Building, University College London, Gower Street, London, WC1E 6BT UK
| | - Brenda Parker
- Department of Biochemical Engineering, Bernard Katz Building, University College London, Gower Street, London, WC1E 6BT UK
| | - Radhey Shyam Sharma
- Bioresources & Environmental Biotechnology Laboratory, Department of Environmental Studies, University of Delhi, Delhi, 110007 India
- Delhi School of Climate Change & Sustainability, Institute of Eminence, University of Delhi, Delhi, 110007 India
| | - Vandana Mishra
- Bioresources & Environmental Biotechnology Laboratory, Department of Environmental Studies, University of Delhi, Delhi, 110007 India
- Centre for Interdisciplinary Studies on Mountain & Hill Environment, University of Delhi, Delhi, 110007 India
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15
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Swanner ED, Wüstner M, Leung T, Pust J, Fatka M, Lambrecht N, Chmiel HE, Strauss H. Seasonal phytoplankton and geochemical shifts in the subsurface chlorophyll maximum layer of a dimictic ferruginous lake. Microbiologyopen 2022; 11:e1287. [PMID: 35765183 PMCID: PMC9108440 DOI: 10.1002/mbo3.1287] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Accepted: 04/27/2022] [Indexed: 11/10/2022] Open
Abstract
Subsurface chlorophyll maxima layers (SCML) are ubiquitous features of stratified aquatic systems. Availability of the micronutrient iron is known to influence marine SCML, but iron has not been explored in detail as a factor in the development of freshwater SCML. This study investigates the relationship between dissolved iron and the SCML within the dimictic, ferruginous lake Grosses Heiliges Meer in northern Germany. The occurrence of the SCML under nonferruginous conditions in the spring and ferruginous conditions in the fall are context to explore temporal changes in the phytoplankton community and indicators of primary productivity. Results indicate that despite more abundant chlorophyll in the spring, the SCML sits below a likely primary productivity maximum within the epilimnion, inferred based on colocated dissolved oxygen, δ13 CDIC , and pH maxima. The peak amount of chlorophyll in the SCML is lower in the fall than in the spring, but in the fall the SCML is colocated with elevated dissolved iron concentrations and a local δ13 CDIC maximum. Cyanobacteria and Chlorophyta have elevated abundances within the SCML in the fall. Further investigation of the relationship of iron to primary productivity within ferruginous SCML may help to understand the environmental controls on primary productivity in past ferruginous oceans.
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Affiliation(s)
| | - Marina Wüstner
- Center for Applied GeoscienceUniversity of TübingenTübingenGermany
| | - Tania Leung
- Department of Geological & Atmospheric SciencesIowa State UniversityAmesIowaUSA
| | - Jürgen Pust
- Naturschutzgebietes Heiliges MeerLandschaftsverband Westfalen‐Lippe (LWL) Museum für NaturkundeReckeGermany
| | - Micah Fatka
- Department of Geological & Atmospheric SciencesIowa State UniversityAmesIowaUSA
| | - Nick Lambrecht
- Department of Geological & Atmospheric SciencesIowa State UniversityAmesIowaUSA
| | - Hannah E. Chmiel
- Environmental Engineering InstituteÉcole Polytechnique Fédérale de LausanneLausanneSwitzerland
| | - Harald Strauss
- Institute for Geology and PaleontologyUniversity of MünsterMünsterGermany
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16
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Hogle SL, Hackl T, Bundy RM, Park J, Satinsky B, Hiltunen T, Biller S, Berube PM, Chisholm SW. Siderophores as an iron source for picocyanobacteria in deep chlorophyll maximum layers of the oligotrophic ocean. THE ISME JOURNAL 2022; 16:1636-1646. [PMID: 35241788 PMCID: PMC9122953 DOI: 10.1038/s41396-022-01215-w] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/14/2021] [Revised: 02/08/2022] [Accepted: 02/14/2022] [Indexed: 11/09/2022]
Abstract
Prochlorococcus and Synechococcus are the most abundant photosynthesizing organisms in the oceans. Gene content variation among picocyanobacterial populations in separate ocean basins often mirrors the selective pressures imposed by the region's distinct biogeochemistry. By pairing genomic datasets with trace metal concentrations from across the global ocean, we show that the genomic capacity for siderophore-mediated iron uptake is widespread in Synechococcus and low-light adapted Prochlorococcus populations from deep chlorophyll maximum layers of iron-depleted regions of the oligotrophic Pacific and S. Atlantic oceans: Prochlorococcus siderophore consumers were absent in the N. Atlantic ocean (higher new iron flux) but constituted up to half of all Prochlorococcus genomes from metagenomes in the N. Pacific (lower new iron flux). Picocyanobacterial siderophore consumers, like many other bacteria with this trait, also lack siderophore biosynthesis genes indicating that they scavenge exogenous siderophores from seawater. Statistical modeling suggests that the capacity for siderophore uptake is endemic to remote ocean regions where atmospheric iron fluxes are the smallest, especially at deep chlorophyll maximum and primary nitrite maximum layers. We argue that abundant siderophore consumers at these two common oceanographic features could be a symptom of wider community iron stress, consistent with prior hypotheses. Our results provide a clear example of iron as a selective force driving the evolution of marine picocyanobacteria.
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Affiliation(s)
- Shane L Hogle
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA. .,Department of Biology, University of Turku, Turku, Finland.
| | - Thomas Hackl
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.,Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, The Netherlands
| | - Randelle M Bundy
- School of Oceanography, University of Washington, Seattle, WA, USA
| | - Jiwoon Park
- School of Oceanography, University of Washington, Seattle, WA, USA
| | - Brandon Satinsky
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
| | - Teppo Hiltunen
- Department of Biology, University of Turku, Turku, Finland
| | - Steven Biller
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.,Department of Biological Sciences, Wellesley College, Wellesley, MA, USA
| | - Paul M Berube
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
| | - Sallie W Chisholm
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA. .,Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.
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17
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Zoccarato L, Sher D, Miki T, Segrè D, Grossart HP. A comparative whole-genome approach identifies bacterial traits for marine microbial interactions. Commun Biol 2022; 5:276. [PMID: 35347228 PMCID: PMC8960797 DOI: 10.1038/s42003-022-03184-4] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2020] [Accepted: 12/30/2021] [Indexed: 12/11/2022] Open
Abstract
Microbial interactions shape the structure and function of microbial communities with profound consequences for biogeochemical cycles and ecosystem health. Yet, most interaction mechanisms are studied only in model systems and their prevalence is unknown. To systematically explore the functional and interaction potential of sequenced marine bacteria, we developed a trait-based approach, and applied it to 473 complete genomes (248 genera), representing a substantial fraction of marine microbial communities. We identified genome functional clusters (GFCs) which group bacterial taxa with common ecology and life history. Most GFCs revealed unique combinations of interaction traits, including the production of siderophores (10% of genomes), phytohormones (3-8%) and different B vitamins (57-70%). Specific GFCs, comprising Alpha- and Gammaproteobacteria, displayed more interaction traits than expected by chance, and are thus predicted to preferentially interact synergistically and/or antagonistically with bacteria and phytoplankton. Linked trait clusters (LTCs) identify traits that may have evolved to act together (e.g., secretion systems, nitrogen metabolism regulation and B vitamin transporters), providing testable hypotheses for complex mechanisms of microbial interactions. Our approach translates multidimensional genomic information into an atlas of marine bacteria and their putative functions, relevant for understanding the fundamental rules that govern community assembly and dynamics.
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Affiliation(s)
- Luca Zoccarato
- Department of Plankton and Microbial Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB), 16775, Stechlin, Germany.
| | - Daniel Sher
- Department of Marine Biology, Leon H. Charney School of Marine Sciences, University of Haifa, 3498838, Haifa, Israel.
| | - Takeshi Miki
- Faculty of Advanced Science and Technology, Ryukoku University, 520-2194, Otsu, Japan
| | - Daniel Segrè
- Departments of Biology, Biomedical Engineering, Physics, Boston University, 02215, Boston, MA, USA
- Bioinformatics Program & Biological Design Center, Boston University, 02215, Boston, MA, USA
| | - Hans-Peter Grossart
- Department of Plankton and Microbial Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB), 16775, Stechlin, Germany.
- Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), 14195, Berlin, Germany.
- Institute of Biochemistry and Biology, Potsdam University, 14476, Potsdam, Germany.
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18
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Walworth NG, Saito MA, Lee MD, McIlvin MR, Moran DM, Kellogg RM, Fu FX, Hutchins DA, Webb EA. Why Environmental Biomarkers Work: Transcriptome-Proteome Correlations and Modeling of Multistressor Experiments in the Marine Bacterium Trichodesmium. J Proteome Res 2021; 21:77-89. [PMID: 34855411 DOI: 10.1021/acs.jproteome.1c00517] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Ocean microbial communities are important contributors to the global biogeochemical reactions that sustain life on Earth. The factors controlling these communities are being increasingly explored using metatranscriptomic and metaproteomic environmental biomarkers. Using published proteomes and transcriptomes from the abundant colony-forming cyanobacterium Trichodesmium (strain IMS101) grown under varying Fe and/or P limitation in low and high CO2, we observed robust correlations of stress-induced proteins and RNAs (i.e., involved in transport and homeostasis) that yield useful information on the nutrient status under low and/or high CO2. Conversely, transcriptional and translational correlations of many other central metabolism pathways exhibit broad discordance. A cellular RNA and protein production/degradation model demonstrates how biomolecules with small initial inventories, such as environmentally responsive proteins, achieve large increases in fold-change units as opposed to those with a higher basal expression and inventory such as metabolic systems. Microbial cells, due to their immersion in the environment, tend to show large adaptive responses in both RNA and protein that result in transcript-protein correlations. These observations and model results demonstrate multi-omic coherence for environmental biomarkers and provide the underlying mechanism for those observations, supporting the promise for global application in detecting responses to environmental stimuli in a changing ocean.
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Affiliation(s)
- Nathan G Walworth
- Marine and Environmental Biology, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089, United States
| | - Mak A Saito
- Marine Chemistry and Geochemistry Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
| | - Michael D Lee
- Blue Marble Space Institute of Science, Seattle, Washington 98104, United States.,Exobiology Branch, NASA Ames Research Center, Moffett Field, California 94035, United States
| | - Matthew R McIlvin
- Marine Chemistry and Geochemistry Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
| | - Dawn M Moran
- Marine Chemistry and Geochemistry Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
| | - Riss M Kellogg
- Marine Chemistry and Geochemistry Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, United States
| | - Fei-Xue Fu
- Marine and Environmental Biology, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089, United States
| | - David A Hutchins
- Marine and Environmental Biology, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089, United States
| | - Eric A Webb
- Marine and Environmental Biology, Department of Biological Sciences, University of Southern California, Los Angeles, California 90089, United States
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19
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Gomes MP, Kochi LY, Freitas PL, Figueredo CC, Juneau P. Periphytic Algae and Cyanobacteria from the Rio Doce Basin Respond Differently to Metals and Salinity, Showing Different Potential for Bioremediation. PLANTS (BASEL, SWITZERLAND) 2021; 10:plants10112349. [PMID: 34834712 PMCID: PMC8624130 DOI: 10.3390/plants10112349] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/02/2021] [Revised: 10/20/2021] [Accepted: 10/27/2021] [Indexed: 05/05/2023]
Abstract
We have studied the isolated and combined effects of metals (Fe and Mn) and NaCl the on growth, physiology, and metal-uptake capacity of two photosynthetic periphytic species-Synechococcus elongatus (Cyanobacteria) and Chlorococcum infusionum (Chlorophyta)-isolated from an impacted area of the Rio Doce River (Brazil) after the Fundão dam collapse. The effective concentrations found to reduce 10 and 50% growth were 15.2 and 31.6 mg Fe L-1, and 2.5 and 7.9 mg Mn L-1 for S. elongatus and 53.9 and 61.6 mg Fe L-1, and 53.2 and 60.9 mg Mn L-1 for C. infusionum. Although the metal toxicity was related to oxidative stress, both species showed activation of antioxidant systems under phytotoxic concentrations of Fe and Mn. By binding large concentrations of metals on its cell surface and thus avoiding their entrance into the cells, C. infusionum presents greater resistance to Fe and Mn than S. elongatus. Under environmental realistic concentrations of Fe and Mn in river water from the Rio Doce Basin, S. elongatus and C. infusionum showed a metal removal efficiency of 42 and 65% and 53 and 79%, respectively after 96 h. These species were insensitive to increased NaCl concentrations which, in addition, did not disrupt the metal removal capacity of the species. Due to their salt and metal tolerance, S. elongatus and C. infusionum can be used for the remediation of waters contaminated with Fe and Mn.
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Affiliation(s)
- Marcelo Pedrosa Gomes
- Laboratório de Fisiologia de Plantas sob Estresse, Departamento de Botânica, Setor de Ciências Biológicas, Universidade Federal do Paraná, Avenida Coronel Francisco H. dos Santos, 100, Centro Politécnico Jardim das Américas, C.P. 19031, Curitiba 81531-980, Brazil; (L.Y.K.); (P.L.F.)
- Correspondence: (M.P.G.); (P.J.); Tel.: +55-413-361-1586 (M.P.G.); +1-514-987-3000 (ext. 3988) (P.J.)
| | - Letícia Yoshie Kochi
- Laboratório de Fisiologia de Plantas sob Estresse, Departamento de Botânica, Setor de Ciências Biológicas, Universidade Federal do Paraná, Avenida Coronel Francisco H. dos Santos, 100, Centro Politécnico Jardim das Américas, C.P. 19031, Curitiba 81531-980, Brazil; (L.Y.K.); (P.L.F.)
| | - Patrícia Lawane Freitas
- Laboratório de Fisiologia de Plantas sob Estresse, Departamento de Botânica, Setor de Ciências Biológicas, Universidade Federal do Paraná, Avenida Coronel Francisco H. dos Santos, 100, Centro Politécnico Jardim das Américas, C.P. 19031, Curitiba 81531-980, Brazil; (L.Y.K.); (P.L.F.)
| | - Cleber Cunha Figueredo
- Departamento de Botânica, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerias, Avenida Antônio Carlos, 6627, Pampulha, C.P. 486, Belo Horizonte 31270-901, Brazil;
| | - Philippe Juneau
- Ecotoxicology of Aquatic Microorganisms Laboratory, GRIL, EcotoQ, TOXEN, Department of Biological Sciences, Université du Québec à Montréal, Montréal, QC H3C 3P8, Canada
- Correspondence: (M.P.G.); (P.J.); Tel.: +55-413-361-1586 (M.P.G.); +1-514-987-3000 (ext. 3988) (P.J.)
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20
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Riediger M, Hernández-Prieto MA, Song K, Hess WR, Futschik ME. Genome-wide identification and characterization of Fur-binding sites in the cyanobacteria Synechocystis sp. PCC 6803 and PCC 6714. DNA Res 2021; 28:6407143. [PMID: 34672328 PMCID: PMC8634477 DOI: 10.1093/dnares/dsab023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Accepted: 10/16/2021] [Indexed: 11/16/2022] Open
Abstract
The Ferric uptake regulator (Fur) is crucial to both pathogenic and non-pathogenic bacteria for the maintenance of iron homeostasis as well as the defence against reactive oxygen species. Based on datasets from the genome-wide mapping of transcriptional start sites and transcriptome data, we identified a high confidence regulon controlled by Fur for the model cyanobacterium Synechocystis sp. PCC 6803 and its close relative, strain 6714, based on the conserved strong iron starvation response and Fur-binding site occurrence. This regulon comprises 33 protein-coding genes and the sRNA IsaR1 that are under the control of 16 or 14 individual promoters in strains 6803 and 6714, respectively. The associated gene functions are mostly restricted to transporters and enzymes involved in the uptake and storage of iron ions, with few exceptions or unknown functional relevance. Within the isiABC operon, we identified a previously neglected gene encoding a small cysteine-rich protein, which we suggest calling, IsiE. The regulation of iron uptake, storage, and utilization ultimately results from the interplay between the Fur regulon, several other transcription factors, the FtsH3 protease, and the sRNA IsaR1.
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Affiliation(s)
- Matthias Riediger
- Institute of Biology III, Faculty of Biology, University of Freiburg, 79104 Freiburg, Germany
| | - Miguel A Hernández-Prieto
- ARC Centre of Excellence for Translational Photosynthesis & School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Kuo Song
- Institute of Biology III, Faculty of Biology, University of Freiburg, 79104 Freiburg, Germany
| | - Wolfgang R Hess
- Institute of Biology III, Faculty of Biology, University of Freiburg, 79104 Freiburg, Germany
| | - Matthias E Futschik
- SysBioLab, Centre of Marine Sciences (CCMAR), University of Algarve, 8005-139 Faro, Portugal.,MRC London Institute of Medical Sciences (LMS), Faculty of Medicine, Imperial College London, London W12 0NN, UK
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21
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König D, Conway TM, Ellwood MJ, Homoky WB, Tagliabue A. Constraints on the Cycling of Iron Isotopes From a Global Ocean Model. GLOBAL BIOGEOCHEMICAL CYCLES 2021; 35:e2021GB006968. [PMID: 35860342 PMCID: PMC9285799 DOI: 10.1029/2021gb006968] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Revised: 08/05/2021] [Accepted: 08/11/2021] [Indexed: 06/15/2023]
Abstract
Although iron (Fe) is a key regulator of primary production over much of the ocean, many components of the marine iron cycle are poorly constrained, which undermines our understanding of climate change impacts. In recent years, a growing number of studies (often part of GEOTRACES) have used Fe isotopic signatures (δ56Fe) to disentangle different aspects of the marine Fe cycle. Characteristic δ56Fe endmembers of external sources and assumed isotopic fractionation during biological Fe uptake or recycling have been used to estimate relative source contributions and investigate internal transformations, respectively. However, different external sources and fractionation processes often overlap and act simultaneously, complicating the interpretation of oceanic Fe isotope observations. Here we investigate the driving forces behind the marine dissolved Fe isotopic signature (δ56Fediss) distribution by incorporating Fe isotopes into the global ocean biogeochemical model PISCES. We find that distinct external source endmembers acting alongside fractionation during organic complexation and phytoplankton uptake are required to reproduce δ56Fediss observations along GEOTRACES transects. δ56Fediss distributions through the water column result from regional imbalances of remineralization and abiotic removal processes. They modify δ56Fediss directly and transfer surface ocean signals to the interior with opposing effects. Although attributing crustal compositions to sedimentary Fe sources in regions with low organic carbon fluxes improves our isotope model, δ56Fediss signals from hydrothermal or sediment sources cannot be reproduced accurately by simply adjusting δ56Fe endmember values. This highlights that additional processes must govern the exchange and/or speciation of Fe supplied by these sources to the ocean.
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Affiliation(s)
- D. König
- School of Environmental SciencesUniversity of LiverpoolLiverpoolUK
| | - T. M. Conway
- College of Marine ScienceUniversity of South FloridaSt PetersburgFLUSA
| | - M. J. Ellwood
- Research School of Earth SciencesAustralian National UniversityCanberraACTAustralia
| | - W. B. Homoky
- School of Earth and EnvironmentUniversity of LeedsLeedsUK
| | - A. Tagliabue
- School of Environmental SciencesUniversity of LiverpoolLiverpoolUK
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22
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Cyanochelins, an Overlooked Class of Widely Distributed Cyanobacterial Siderophores, Discovered by Silent Gene Cluster Awakening. Appl Environ Microbiol 2021; 87:e0312820. [PMID: 34132591 DOI: 10.1128/aem.03128-20] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Cyanobacteria require iron for growth and often inhabit iron-limited habitats, yet only a few siderophores are known to be produced by them. We report that cyanobacterial genomes frequently encode polyketide synthase (PKS)/nonribosomal peptide synthetase (NRPS) biosynthetic pathways for synthesis of lipopeptides featuring β-hydroxyaspartate (β-OH-Asp), a residue known to be involved in iron chelation. Iron starvation triggered the synthesis of β-OH-Asp lipopeptides in the cyanobacteria Rivularia sp. strain PCC 7116, Leptolyngbya sp. strain NIES-3755, and Rubidibacter lacunae strain KORDI 51-2. The induced compounds were confirmed to bind iron by mass spectrometry (MS) and were capable of Fe3+ to Fe2+ photoreduction, accompanied by their cleavage, when exposed to sunlight. The siderophore from Rivularia, named cyanochelin A, was structurally characterized by MS and nuclear magnetic resonance (NMR) and found to contain a hydrophobic tail bound to phenolate and oxazole moieties followed by five amino acids, including two modified aspartate residues for iron chelation. Phylogenomic analysis revealed 26 additional cyanochelin-like gene clusters across a broad range of cyanobacterial lineages. Our data suggest that cyanochelins and related compounds are widespread β-OH-Asp-featuring cyanobacterial siderophores produced by phylogenetically distant species upon iron starvation. Production of photolabile siderophores by phototrophic cyanobacteria raises questions about whether the compounds facilitate iron monopolization by the producer or, rather, provide Fe2+ for the whole microbial community via photoreduction. IMPORTANCE All living organisms depend on iron as an essential cofactor for indispensable enzymes. However, the sources of bioavailable iron are often limited. To face this problem, microorganisms synthesize low-molecular-weight metabolites capable of iron scavenging, i.e., the siderophores. Although cyanobacteria inhabit the majority of the Earth's ecosystems, their repertoire of known siderophores is remarkably poor. Their genomes are known to harbor a rich variety of gene clusters with unknown function. Here, we report the awakening of a widely distributed class of silent gene clusters by iron starvation to yield cyanochelins, β-hydroxy aspartate lipopeptides involved in iron acquisition. Our results expand the limited arsenal of known cyanobacterial siderophores and propose products with ecological function for a number of previously orphan gene clusters.
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23
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Shaked Y, Twining BS, Tagliabue A, Maldonado MT. Probing the Bioavailability of Dissolved Iron to Marine Eukaryotic Phytoplankton Using In Situ Single Cell Iron Quotas. GLOBAL BIOGEOCHEMICAL CYCLES 2021; 35:e2021GB006979. [PMID: 35865367 PMCID: PMC9286392 DOI: 10.1029/2021gb006979] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2021] [Revised: 06/09/2021] [Accepted: 06/29/2021] [Indexed: 05/08/2023]
Abstract
We present a new approach for quantifying the bioavailability of dissolved iron (dFe) to oceanic phytoplankton. Bioavailability is defined using an uptake rate constant (kin-app) computed by combining data on: (a) Fe content of individual in situ phytoplankton cells; (b) concurrently determined seawater dFe concentrations; and (c) growth rates estimated from the PISCES model. We examined 930 phytoplankton cells, collected between 2002 and 2016 from 45 surface stations during 11 research cruises. This approach is only valid for cells that have upregulated their high-affinity Fe uptake system, so data were screened, yielding 560 single cell k in-app values from 31 low-Fe stations. We normalized k in-app to cell surface area (S.A.) to account for cell-size differences. The resulting bioavailability proxy (k in-app/S.A.) varies among cells, but all values are within bioavailability limits predicted from defined Fe complexes. In situ dFe bioavailability is higher than model Fe-siderophore complexes and often approaches that of highly available inorganic Fe'. Station averaged k in-app/S.A. are also variable but show no systematic changes across location, temperature, dFe, and phytoplankton taxa. Given the relative consistency of k in-app/S.A. among stations (ca. five-fold variation), we computed a grand-averaged dFe availability, which upon normalization to cell carbon (C) yields k in-app/C of 42,200 ± 11,000 L mol C-1 d-1. We utilize k in-app/C to calculate dFe uptake rates and residence times in low Fe oceanic regions. Finally, we demonstrate the applicability of k in-app/C for constraining Fe uptake rates in earth system models, such as those predicting climate mediated changes in net primary production in the Fe-limited Equatorial Pacific.
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Affiliation(s)
- Yeala Shaked
- Freddy and Nadine Herrmann Institute of Earth SciencesHebrew UniversityJerusalemIsrael
- Interuniversity Institute for Marine SciencesEilatIsrael
| | | | | | - Maria T. Maldonado
- Department of Earth, Ocean and Atmospheric SciencesUniversity of British ColumbiaVancouverCanada
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24
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Zhang K, Li J, Zhou Z, Huang R, Lin S. Roles of Alkaline Phosphatase PhoA in Algal Metabolic Regulation under Phosphorus-replete Conditions. JOURNAL OF PHYCOLOGY 2021; 57:703-707. [PMID: 33608874 DOI: 10.1111/jpy.13151] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2020] [Revised: 01/24/2021] [Accepted: 02/10/2021] [Indexed: 06/12/2023]
Abstract
Alkaline phosphatase (AP) in plants and algae is known to hydrolyze dissolved organophosphate (DOP) in order to obtain phosphorus when the preferred dissolved inorganic phosphorus (DIP) is present in limited supply. By conducting comparative analyses of physiologies and transcriptomes on a mutant of PhoA type AP (mPhoA) and wild type (WT) of the marine diatom Phaeodactylum tricornutum CCAP 1055/1 under P-replete and P-depleted conditions, we document other roles of this gene than DOP scavenging. PhoA mutation created by CRISPR/Cas9 diminished its DOP hydrolase activity but led to significant increases in cellular contents of pigment, carbon, and lipids, photosynthetic rate, growth rate, and the transcriptional levels of their corresponding metabolic pathways. All the results in concert indicate that besides P-nutrient scavenging under DIP deficiency, AP also functions, under the P-replete condition, to constrain pigment biosynthesis, photosynthesis, fatty acid biosynthesis, and cell division. These functions have important implications in maintaining metabolic homeostasis and preventing premature cell division.
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Affiliation(s)
- Kaidian Zhang
- State Key Laboratory of Marine Environmental Science and College of Ocean and Earth Sciences, Xiamen University, Xiamen, Fujian, China
- Department of Marine Sciences, University of Connecticut, Groton, Connecticut, USA
| | - Jiashun Li
- State Key Laboratory of Marine Environmental Science and College of Ocean and Earth Sciences, Xiamen University, Xiamen, Fujian, China
| | - Zhi Zhou
- State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, Hainan, China
| | - Ruiping Huang
- State Key Laboratory of Marine Environmental Science and College of Ocean and Earth Sciences, Xiamen University, Xiamen, Fujian, China
| | - Senjie Lin
- State Key Laboratory of Marine Environmental Science and College of Ocean and Earth Sciences, Xiamen University, Xiamen, Fujian, China
- Department of Marine Sciences, University of Connecticut, Groton, Connecticut, USA
- Laboratory of Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
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25
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Muratore D, Weitz JS. Infect while the iron is scarce: nutrient-explicit phage-bacteria games. THEOR ECOL-NETH 2021. [DOI: 10.1007/s12080-021-00508-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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26
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Jeong Y, Hong SJ, Cho SH, Yoon S, Lee H, Choi HK, Kim DM, Lee CG, Cho S, Cho BK. Multi-Omic Analyses Reveal Habitat Adaptation of Marine Cyanobacterium Synechocystis sp. PCC 7338. Front Microbiol 2021; 12:667450. [PMID: 34054774 PMCID: PMC8155712 DOI: 10.3389/fmicb.2021.667450] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2021] [Accepted: 04/19/2021] [Indexed: 11/13/2022] Open
Abstract
Cyanobacteria are considered as promising microbial cell factories producing a wide array of bio-products. Among them, Synechocystis sp. PCC 7338 has the advantage of growing in seawater, rather than requiring arable land or freshwater. Nonetheless, how this marine cyanobacterium grows under the high salt stress condition remains unknown. Here, we determined its complete genome sequence with the embedded regulatory elements and analyzed the transcriptional changes in response to a high-salt environment. Complete genome sequencing revealed a 3.70 mega base pair genome and three plasmids with a total of 3,589 genes annotated. Differential RNA-seq and Term-seq data aligned to the complete genome provided genome-wide information on genetic regulatory elements, including promoters, ribosome-binding sites, 5'- and 3'-untranslated regions, and terminators. Comparison with freshwater Synechocystis species revealed Synechocystis sp. PCC 7338 genome encodes additional genes, whose functions are related to ion channels to facilitate the adaptation to high salt and high osmotic pressure. Furthermore, a ferric uptake regulator binding motif was found in regulatory regions of various genes including SigF and the genes involved in energy metabolism, suggesting the iron-regulatory network is connected to not only the iron acquisition, but also response to high salt stress and photosynthesis. In addition, the transcriptomics analysis demonstrated a cyclic electron transport through photosystem I was actively used by the strain to satisfy the demand for ATP under high-salt environment. Our comprehensive analyses provide pivotal information to elucidate the genomic functions and regulations in Synechocystis sp. PCC 7338.
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Affiliation(s)
- Yujin Jeong
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon, South Korea
| | - Seong-Joo Hong
- Department of Biological Engineering, Inha University, Incheon, South Korea.,Department of Biological Sciences and Bioengineering, Inha University, Incheon, South Korea
| | - Sang-Hyeok Cho
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon, South Korea
| | - Seonghoon Yoon
- Department of Biological Engineering, Inha University, Incheon, South Korea.,Department of Biological Sciences and Bioengineering, Inha University, Incheon, South Korea
| | - Hookeun Lee
- Institute of Pharmaceutical Research, College of Pharmacy, Gachon University, Incheon, South Korea
| | | | - Dong-Myung Kim
- Department of Chemical Engineering and Applied Chemistry, Chungnam National University, Daejeon, South Korea
| | - Choul-Gyun Lee
- Department of Biological Engineering, Inha University, Incheon, South Korea.,Department of Biological Sciences and Bioengineering, Inha University, Incheon, South Korea
| | - Suhyung Cho
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon, South Korea.,Innovative Biomaterials Center, KI for the BioCentury, Korea Advanced Institute of Science and Technology, Daejeon, South Korea
| | - Byung-Kwan Cho
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon, South Korea.,Innovative Biomaterials Center, KI for the BioCentury, Korea Advanced Institute of Science and Technology, Daejeon, South Korea.,Intelligent Synthetic Biology Center, Daejeon, South Korea
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27
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Koksharova OA, Butenko IO, Pobeguts OV, Safronova NA, Govorun VM. β-N-Methylamino-L-Alanine (BMAA) Causes Severe Stress in Nostoc sp. PCC 7120 Cells under Diazotrophic Conditions: A Proteomic Study. Toxins (Basel) 2021; 13:325. [PMID: 33946501 PMCID: PMC8147232 DOI: 10.3390/toxins13050325] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2021] [Revised: 04/07/2021] [Accepted: 04/28/2021] [Indexed: 12/24/2022] Open
Abstract
Non-proteinogenic neurotoxic amino acid β-N-methylamino-L-alanine (BMAA) is synthesized by cyanobacteria, diatoms, and dinoflagellates, and is known to be a causative agent of human neurodegenerative diseases. Different phytoplankton organisms' ability to synthesize BMAA could indicate the importance of this molecule in the interactions between microalgae in nature. We were interested in the following: what kinds of mechanisms underline BMAA's action on cyanobacterial cells in different nitrogen supply conditions. Herein, we present a proteomic analysis of filamentous cyanobacteria Nostoc sp. PCC 7120 cells that underwent BMAA treatment in diazotrophic conditions. In diazotrophic growth conditions, to survive, cyanobacteria can use only biological nitrogen fixation to obtain nitrogen for life. Note that nitrogen fixation is an energy-consuming process. In total, 1567 different proteins of Nostoc sp. PCC 7120 were identified by using LC-MS/MS spectrometry. Among them, 123 proteins belonging to different functional categories were selected-due to their notable expression differences-for further functional analysis and discussion. The presented proteomic data evidences that BMAA treatment leads to very strong (up to 80%) downregulation of α (NifD) and β (NifK) subunits of molybdenum-iron protein, which is known to be a part of nitrogenase. This enzyme is responsible for catalyzing nitrogen fixation. The genes nifD and nifK are under transcriptional control of a global nitrogen regulator NtcA. In this study, we have found that BMAA impacts in a total of 22 proteins that are under the control of NtcA. Moreover, BMAA downregulates 18 proteins that belong to photosystems I or II and light-harvesting complexes; BMAA treatment under diazotrophic conditions also downregulates five subunits of ATP synthase and enzyme NAD(P)H-quinone oxidoreductase. Therefore, we can conclude that the disbalance in energy and metabolite amounts leads to severe intracellular stress that induces the upregulation of stress-activated proteins, such as starvation-inducible DNA-binding protein, four SOS-response enzymes, and DNA repair enzymes, nine stress-response enzymes, and four proteases. The presented data provide new leads into the ecological impact of BMAA on microalgal communities that can be used in future investigations.
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Affiliation(s)
- Olga A. Koksharova
- Lomonosov Moscow State University, Belozersky Institute of Physico-Chemical Biology, Leninskie Gory, 1-40, 119991 Moscow, Russia;
- Institute of Molecular Genetics of National Research Center “Kurchatov Institute”, Kurchatov Square, 2, 123182 Moscow, Russia
| | - Ivan O. Butenko
- Scientific-Research Institute of Physical-Chemical Medicine, 119435 Moscow, Russia; (I.O.B.); (O.V.P.); (V.M.G.)
| | - Olga V. Pobeguts
- Scientific-Research Institute of Physical-Chemical Medicine, 119435 Moscow, Russia; (I.O.B.); (O.V.P.); (V.M.G.)
| | - Nina A. Safronova
- Lomonosov Moscow State University, Belozersky Institute of Physico-Chemical Biology, Leninskie Gory, 1-40, 119991 Moscow, Russia;
| | - Vadim M. Govorun
- Scientific-Research Institute of Physical-Chemical Medicine, 119435 Moscow, Russia; (I.O.B.); (O.V.P.); (V.M.G.)
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28
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Liu LM, Li DL, Deng B, Wang XW, Jiang HB. Special roles for efflux systems in iron homeostasis of non-siderophore-producing cyanobacteria. Environ Microbiol 2021; 24:551-565. [PMID: 33817959 DOI: 10.1111/1462-2920.15506] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2020] [Accepted: 04/03/2021] [Indexed: 11/28/2022]
Abstract
In oligotrophic oceans, low bioavailability of Fe is a key factor limiting primary productivity. However, excessive Fe in cells leads to the Fenton reaction, which is toxic to cells. Cyanobacteria must strictly maintain intracellular Fe homeostasis. Here, we knocked out a series of genes encoding efflux systems in Synechocystis sp. PCC 6803, and found eight genes that are required for high Fe detoxification. Unexpectedly, the HlyBD-TolC efflux system plays an important role in the adaptation of Synechocystis under Fe-deficient conditions. Mutants of HlyD and TolC grew worse than the wild-type strain under low-Fe conditions and showed significantly lower intracellular Fe contents than the wild-type strain. We excluded the possibility that the low Fe sensitivity of the HlyBD-TolC mutants was caused by a loss of the S-layer, the main extracellular protein secreted via this efflux system. Inactivation of the HlyD protein influenced type IV pili formation and direct inactivation of type IV pili related genes affected the adaptation to low-Fe conditions. HlyBD-TolC system is likely involved in the formation of type IV pili and indirectly influenced Fe acquisition. Our findings suggest that efflux system in non-siderophore-producing cyanobacteria can facilitate Fe uptake and help cells adapt to Fe-deficient conditions via novel pathways.
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Affiliation(s)
- Ling-Mei Liu
- School of Life Sciences, Central China Normal University, Wuhan, Hubei, 430079, China.,Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, Guangdong, 519080, China
| | - Ding-Lan Li
- School of Life Sciences, Central China Normal University, Wuhan, Hubei, 430079, China
| | - Bin Deng
- School of Life Sciences, Central China Normal University, Wuhan, Hubei, 430079, China
| | - Xin-Wei Wang
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, Guangdong, 519080, China.,School of Marine Sciences, Ningbo University, Ningbo, Zhejiang, 315211, China
| | - Hai-Bo Jiang
- School of Life Sciences, Central China Normal University, Wuhan, Hubei, 430079, China.,Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai, Guangdong, 519080, China.,School of Marine Sciences, Ningbo University, Ningbo, Zhejiang, 315211, China
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29
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Hanikenne M, Esteves SM, Fanara S, Rouached H. Coordinated homeostasis of essential mineral nutrients: a focus on iron. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:2136-2153. [PMID: 33175167 DOI: 10.1093/jxb/eraa483] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2020] [Accepted: 10/13/2020] [Indexed: 05/22/2023]
Abstract
In plants, iron (Fe) transport and homeostasis are highly regulated processes. Fe deficiency or excess dramatically limits plant and algal productivity. Interestingly, complex and unexpected interconnections between Fe and various macro- and micronutrient homeostatic networks, supposedly maintaining general ionic equilibrium and balanced nutrition, are currently being uncovered. Although these interactions have profound consequences for our understanding of Fe homeostasis and its regulation, their molecular bases and biological significance remain poorly understood. Here, we review recent knowledge gained on how Fe interacts with micronutrient (e.g. zinc, manganese) and macronutrient (e.g. sulfur, phosphate) homeostasis, and on how these interactions affect Fe uptake and trafficking. Finally, we highlight the importance of developing an improved model of how Fe signaling pathways are integrated into functional networks to control plant growth and development in response to fluctuating environments.
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Affiliation(s)
- Marc Hanikenne
- InBioS - PhytoSystems, Functional Genomics and Plant Molecular Imaging, University of Liège, 4000 Liège, Belgium
| | - Sara M Esteves
- InBioS - PhytoSystems, Functional Genomics and Plant Molecular Imaging, University of Liège, 4000 Liège, Belgium
| | - Steven Fanara
- InBioS - PhytoSystems, Functional Genomics and Plant Molecular Imaging, University of Liège, 4000 Liège, Belgium
| | - Hatem Rouached
- BPMP, Univ. Montpellier, CNRS, INRA, Montpellier SupAgro, Montpellier, France
- Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, MI, USA
- Plant Resilience Institute, Michigan State University, East Lansing, MI, USA
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30
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Hettiarachchi E, Ivanov S, Kieft T, Goldstein HL, Moskowitz BM, Reynolds RL, Rubasinghege G. Atmospheric Processing of Iron-Bearing Mineral Dust Aerosol and Its Effect on Growth of a Marine Diatom, Cyclotella meneghiniana. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:871-881. [PMID: 33382945 DOI: 10.1021/acs.est.0c06995] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Iron (Fe) is a growth-limiting micronutrient for phytoplankton in major areas of oceans and deposited wind-blown desert dust is a primary Fe source to these regions. Simulated atmospheric processing of four mineral dust proxies and two natural dust samples followed by subsequent growth studies of the marine planktic diatom Cyclotella meneghiniana in artificial sea-water (ASW) demonstrated higher growth response to ilmenite (FeTiO3) and hematite (α-Fe2O3) mixed with TiO2 than hematite alone. The processed dust treatment enhanced diatom growth owing to dissolved Fe (DFe) content. The fresh dust-treated cultures demonstrated growth enhancements without adding such dissolved Fe. These significant growth enhancements and dissolved Fe measurements indicated that diatoms acquire Fe from solid particles. When diatoms were physically separated from mineral dust particles, the growth responses become smaller. The post-mineralogy analysis of mineral dust proxies added to ASW showed a diatom-induced increased formation of goethite, where the amount of goethite formed correlated with observed enhanced growth. The current work suggests that ocean primary productivity may not only depend on dissolved Fe but also on suspended solid Fe particles and their mineralogy. Further, the diatom C. meneghiniana benefits more from mineral dust particles in direct contact with cells than from physically impeded particles, suggesting the possibility for alternate Fe-acquisition mechanism/s.
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Affiliation(s)
- Eshani Hettiarachchi
- Department of Chemistry, New Mexico Institute of Mining and Technology, Socorro, New Mexico 87801, United States
| | - Sergei Ivanov
- Center for Integrated Nanotechnologies, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Thomas Kieft
- Department of Biology, New Mexico Institute of Mining and Technology, Socorro, New Mexico 87801, United States
| | - Harland L Goldstein
- Geosciences and Environmental Change Science Center, U.S. Geological Survey, Denver, Colorado 80225, United States
| | - Bruce M Moskowitz
- Institute for Rock Magnetism, Department of Earth and Environmental Sciences, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Richard L Reynolds
- Geosciences and Environmental Change Science Center, U.S. Geological Survey, Denver, Colorado 80225, United States
- Institute for Rock Magnetism, Department of Earth and Environmental Sciences, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Gayan Rubasinghege
- Department of Chemistry, New Mexico Institute of Mining and Technology, Socorro, New Mexico 87801, United States
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31
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Sutak R, Camadro JM, Lesuisse E. Iron Uptake Mechanisms in Marine Phytoplankton. Front Microbiol 2020; 11:566691. [PMID: 33250865 PMCID: PMC7676907 DOI: 10.3389/fmicb.2020.566691] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Accepted: 10/19/2020] [Indexed: 12/20/2022] Open
Abstract
Oceanic phytoplankton species have highly efficient mechanisms of iron acquisition, as they can take up iron from environments in which it is present at subnanomolar concentrations. In eukaryotes, three main models were proposed for iron transport into the cells by first studying the kinetics of iron uptake in different algal species and then, more recently, by using modern biological techniques on the model diatom Phaeodactylum tricornutum. In the first model, the rate of uptake is dependent on the concentration of unchelated Fe species, and is thus limited thermodynamically. Iron is transported by endocytosis after carbonate-dependent binding of Fe(III)' (inorganic soluble ferric species) to phytotransferrin at the cell surface. In this strategy the cells are able to take up iron from very low iron concentration. In an alternative model, kinetically limited for iron acquisition, the extracellular reduction of all iron species (including Fe') is a prerequisite for iron acquisition. This strategy allows the cells to take up iron from a great variety of ferric species. In a third model, hydroxamate siderophores can be transported by endocytosis (dependent on ISIP1) after binding to the FBP1 protein, and iron is released from the siderophores by FRE2-dependent reduction. In prokaryotes, one mechanism of iron uptake is based on the use of siderophores excreted by the cells. Iron-loaded siderophores are transported across the cell outer membrane via a TonB-dependent transporter (TBDT), and are then transported into the cells by an ABC transporter. Open ocean cyanobacteria do not excrete siderophores but can probably use siderophores produced by other organisms. In an alternative model, inorganic ferric species are transported through the outer membrane by TBDT or by porins, and are taken up by the ABC transporter system FutABC. Alternatively, ferric iron of the periplasmic space can be reduced by the alternative respiratory terminal oxidase (ARTO) and the ferrous ions can be transported by divalent metal transporters (FeoB or ZIP). After reoxidation, iron can be taken up by the high-affinity permease Ftr1.
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Affiliation(s)
- Robert Sutak
- Department of Parasitology, Faculty of Science, Charles University, BIOCEV, Vestec, Czechia
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32
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Comparative Proteomic Profiling of Marine and Freshwater Synechocystis Strains Using Liquid Chromatography-Tandem Mass Spectrometry. JOURNAL OF MARINE SCIENCE AND ENGINEERING 2020. [DOI: 10.3390/jmse8100790] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Freshwater Synechocystis sp. PCC 6803 has been considered to be a platform for the production of the next generation of biofuels and is used as a model organism in various fields. Various genomics, transcriptomics, metabolomics, and proteomics studies have been performed on this strain, whereas marine Synechocystis sp. PCC 7338 has not been widely studied despite its wide distribution. This study analyzed the proteome profiles of two Synechocystis strains using a liquid chromatography–tandem mass spectrometry-based bottom-up proteomic approach. Proteomic profiling of Synechocystis sp. PCC 7338 was performed for the first time with a data-dependent acquisition method, revealing 18,779 unique peptides and 1794 protein groups. A data-independent acquisition method was carried out for the comparative quantitation of Synechocystis sp. PCC 6803 and 7338. Among 2049 quantified proteins, 185 up- and 211 down-regulated proteins were defined in Synechocystis sp. PCC 7338. Some characteristics in the proteome of Synechocystis sp. PCC 7338 were revealed, such as its adaptation to living conditions, including the down-regulation of some photosynthesis proteins, the up-regulation of kdpB, and the use of osmolyte glycine as a substrate in C1 metabolism for the regulation of carbon flow. This study will facilitate further studies on Synechocystis 7338 to define in depth the proteomic differences between it and other Synechocystis strains.
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33
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Zheng P, Chen L, Zhong S, Wei X, Zhao Q, Pan Q, Kang Z, Liu J. A Cu-only superoxide dismutase from stripe rust fungi functions as a virulence factor deployed for counter defense against host-derived oxidative stress. Environ Microbiol 2020; 22:5309-5326. [PMID: 32985748 DOI: 10.1111/1462-2920.15236] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Revised: 09/10/2020] [Accepted: 09/13/2020] [Indexed: 12/13/2022]
Abstract
Plants quickly accumulate reactive oxygen species (ROS) to resist against pathogen invasion, while pathogens strive to escape host immune surveillance by degrading ROS. However, the nature of the strategies that fungal pathogens adopt to counteract host-derived oxidative stress is manifold and requires deep investigation. In this study, a superoxide dismutase (SOD) from Puccinia striiformis f. sp. tritici (Pst) PsSOD2 with a signal peptide (SP) and the glycophosphatidyl inositol (GPI) anchor, strongly induced during infection, was analysed for its biological characteristics and potential role in wheat-Pst interactions. The results showed that PsSOD2 encodes a Cu-only SOD and responded to ROS treatment. Heterologous complementation assays in Saccharomyces cerevisiae suggest that the SP of PsSOD2 is functional for its secretion. Transient expression in Nicotiana benthamiana leaves revealed that PsSOD2 is localized to the plasma membrane. In addition, knockdown of PsSOD2 by host-induced gene silencing reduced Pst virulence and resulted in restricted hyphal development and increased ROS accumulation. In contrast, heterologous transient assays of PsSOD2 suppressed flg22-elicited ROS production. Taken together, our data indicate that PsSOD2, as a virulence factor, was induced and localized to the plasma membrane where it may function to scavenge host-derived ROS for promoting fungal infection.
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Affiliation(s)
- Peijing Zheng
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Liyang Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Suye Zhong
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Xiaobo Wei
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Qi Zhao
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Science, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Qinglin Pan
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Zhensheng Kang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, China.,College of Plant Scicence, Tarim University, Alaer, Xinjiang, 843300, China
| | - Jie Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, 712100, China
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Seasonal Variations of Dissolved Iron Concentration in Active Layer and Rivers in Permafrost Areas, Russian Far East. WATER 2020. [DOI: 10.3390/w12092579] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Dissolved iron (dFe) in boreal rivers may play an important role in primary production in high-latitude oceans. However, iron behavior in soils and dFe discharge mechanism from soil to the rivers are poorly understood. To better understand iron dynamics on the watershed scale, we observed the seasonal changes in dFe and Dissolved Organic Carbon (DOC) concentrations in the river as well as dFe concentration in soil pore waters in permafrost watershed from May to October. During snowmelt season, high dFe production (1.38–4.70 mg L−1) was observed in surface soil pore waters. Correspondingly, riverine dFe and DOC concentrations increased to 1.10 mg L−1 and 32.3 mg L−1, and both were the highest in the year. After spring floods, riverine dFe and DOC concentrations decreased to 0.15 mg L−1 and 7.62 mg L−1, and dFe concentration in surface soil pore waters also decreased to 0.20–1.28 mg L−1. In late July, riverine dFe and DOC concentrations increased to 0.33 mg L−1 and 23.6 mg L−1 in response to heavy rainfall. In August and September, considerable increases in dFe concentrations (2.00–6.90 mg L−1) were observed in subsurface soil pore waters, probably because infiltrated rainwater developed reducing conditions. This dFe production was confirmed widely in permafrost wetlands in valley areas. Overall, permafrost wetlands in valley areas are hotspots of dFe production and greatly contribute to dFe and DOC discharge to rivers, especially during snowmelt and rainy seasons.
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35
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Yang R, Wei D, Xie J. Diatoms as cell factories for high-value products: chrysolaminarin, eicosapentaenoic acid, and fucoxanthin. Crit Rev Biotechnol 2020; 40:993-1009. [DOI: 10.1080/07388551.2020.1805402] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Runqing Yang
- School of Food Science and Engineering, South China University of Technology, Guangzhou, People’s Republic of China
| | - Dong Wei
- School of Food Science and Engineering, South China University of Technology, Guangzhou, People’s Republic of China
| | - Jun Xie
- Key Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Chinese Academy of Fishery Sciences Pearl River Fisheries Research Institute, Guangzhou, People’s Republic of China
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36
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Rizkallah MR, Frickenhaus S, Trimborn S, Harms L, Moustafa A, Benes V, Gäbler-Schwarz S, Beszteri S. Deciphering Patterns of Adaptation and Acclimation in the Transcriptome of Phaeocystis antarctica to Changing Iron Conditions 1. JOURNAL OF PHYCOLOGY 2020; 56:747-760. [PMID: 32068264 DOI: 10.1111/jpy.12979] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2019] [Accepted: 01/21/2020] [Indexed: 06/10/2023]
Abstract
The haptophyte Phaeocystis antarctica is endemic to the Southern Ocean, where iron supply is sporadic and its availability limits primary production. In iron fertilization experiments, P. antarctica showed a prompt and steady increase in cell abundance compared to heavily silicified diatoms along with enhanced colony formation. Here we utilized a transcriptomic approach to investigate molecular responses to alleviation of iron limitation in P. antarctica. We analyzed the transcriptomic response before and after (14 h, 24 h and 72 h) iron addition to a low-iron acclimated culture. After iron addition, we observed indicators of a quick reorganization of cellular energetics, from carbohydrate catabolism and mitochondrial energy production to anabolism. In addition to typical substitution responses from an iron-economic toward an iron-sufficient state for flavodoxin (ferredoxin) and plastocyanin (cytochrome c6 ), we found other genes utilizing the same strategy involved in nitrogen assimilation and fatty acid desaturation. Our results shed light on a number of adaptive mechanisms that P. antarctica uses under low iron, including the utilization of a Cu-dependent ferric reductase system and indication of mixotrophic growth. The gene expression patterns underpin P. antarctica as a quick responder to iron addition.
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Affiliation(s)
| | - Stephan Frickenhaus
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570, Bremerhaven, Germany
- Centre for Industrial Mathematics, University of Bremen, Bibliothekstrasse 1, 28359 Postfach 330440, 28334, Bremen, Germany
| | - Scarlett Trimborn
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570, Bremerhaven, Germany
- Department of Marine Botany, University of Bremen, Bibliothekstrasse 1, 28359 Postfach 330440, 28334, Bremen, Germany
| | - Lars Harms
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570, Bremerhaven, Germany
- Helmholtz Institute for Functional Marine Biodiversity at the University of Oldenburg (HIFMB), Ammerländer Herrstrasse 231, 26129, Oldenburg, Germany
| | - Ahmed Moustafa
- Department of Biology, American University in Cairo, P.O. Box 74, 11835, Cairo, Egypt
| | - Vladimir Benes
- European Molecular Biology Laboratory, Meyerhofstraße 1, 69117, Heidelberg, Germany
| | - Steffi Gäbler-Schwarz
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570, Bremerhaven, Germany
| | - Sara Beszteri
- Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570, Bremerhaven, Germany
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37
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Shaked Y, Buck KN, Mellett T, Maldonado MT. Insights into the bioavailability of oceanic dissolved Fe from phytoplankton uptake kinetics. THE ISME JOURNAL 2020; 14:1182-1193. [PMID: 32024947 PMCID: PMC7174416 DOI: 10.1038/s41396-020-0597-3] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Revised: 01/12/2020] [Accepted: 01/21/2020] [Indexed: 12/05/2022]
Abstract
Phytoplankton growth in large parts of the world ocean is limited by low availability of dissolved iron (dFe), restricting oceanic uptake of atmospheric CO2. The bioavailability of dFe in seawater is however difficult to appraise since it is bound by a variety of poorly characterized organic ligands. Here, we propose a new approach for evaluating seawater dFe bioavailability based on its uptake rate constant by Fe-limited cultured phytoplankton. We utilized seven phytoplankton species of diverse classes, sizes, and provenances to probe for dFe bioavailability in 12 seawater samples from several ocean basins and depths. All tested phytoplankton acquired organically bound Fe in any given sample at similar rates (after normalizing to cellular surface area), confirming that multiple, Fe-limited phytoplankton species can be used to probe dFe bioavailability in seawater. These phytoplankton-based uptake rate constants allowed us to compare water types, and obtain a grand average estimate of seawater dFe bioavailability. Among water types, dFe bioavailability varied by approximately four-fold, and did not clearly correlate with Fe concentrations or any of the measured Fe speciation parameters. Compared with well-studied Fe complexes, seawater dFe is more available than model siderophore Fe, but less available than inorganic Fe. Exposure of seawater to sunlight, however, significantly enhanced dFe bioavailability. The rate constants established in this work, not only facilitate comparison between water types, but also allow calculation of Fe uptake rates by phytoplankton in the ocean based on measured dFe concentrations. The approach established and verified in this study, opens a new way for determining dFe bioavailability in samples across the ocean, and enables modeling of in situ Fe uptake rates by phytoplankton using dFe concentrations from GEOTRACES datasets.
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Affiliation(s)
- Yeala Shaked
- The Fredy and Nadine Herrmann Institute of Earth Sciences, Hebrew University of Jerusalem, Jerusalem, Israel.
- Interuniversity Institute for Marine Sciences, Eilat, Israel.
| | - Kristen N Buck
- College of Marine Science, University of South Florida, Tampa, FL, USA
| | - Travis Mellett
- College of Marine Science, University of South Florida, Tampa, FL, USA
| | - Maria T Maldonado
- Earth, Ocean and Atmospheric Sciences Department, University of British Columbia, Vancouver, BC, Canada
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38
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Moniruzzaman M, Martinez-Gutierrez CA, Weinheimer AR, Aylward FO. Dynamic genome evolution and complex virocell metabolism of globally-distributed giant viruses. Nat Commun 2020; 11:1710. [PMID: 32249765 PMCID: PMC7136201 DOI: 10.1038/s41467-020-15507-2] [Citation(s) in RCA: 107] [Impact Index Per Article: 26.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Accepted: 03/09/2020] [Indexed: 01/11/2023] Open
Abstract
The discovery of eukaryotic giant viruses has transformed our understanding of the limits of viral complexity, but the extent of their encoded metabolic diversity remains unclear. Here we generate 501 metagenome-assembled genomes of Nucleo-Cytoplasmic Large DNA Viruses (NCLDV) from environments around the globe, and analyze their encoded functional capacity. We report a remarkable diversity of metabolic genes in widespread giant viruses, including many involved in nutrient uptake, light harvesting, and nitrogen metabolism. Surprisingly, numerous NCLDV encode the components of glycolysis and the TCA cycle, suggesting that they can re-program fundamental aspects of their host's central carbon metabolism. Our phylogenetic analysis of NCLDV metabolic genes and their cellular homologs reveals distinct clustering of viral sequences into divergent clades, indicating that these genes are virus-specific and were acquired in the distant past. Overall our findings reveal that giant viruses encode complex metabolic capabilities with evolutionary histories largely independent of cellular life, strongly implicating them as important drivers of global biogeochemical cycles.
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Affiliation(s)
| | | | - Alaina R Weinheimer
- Department of Biological Sciences, Virginia Tech, Blacksburg, VA, 24061, USA
| | - Frank O Aylward
- Department of Biological Sciences, Virginia Tech, Blacksburg, VA, 24061, USA.
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39
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Schulz F, Roux S, Paez-Espino D, Jungbluth S, Walsh DA, Denef VJ, McMahon KD, Konstantinidis KT, Eloe-Fadrosh EA, Kyrpides NC, Woyke T. Giant virus diversity and host interactions through global metagenomics. Nature 2020; 578:432-436. [PMID: 31968354 PMCID: PMC7162819 DOI: 10.1038/s41586-020-1957-x] [Citation(s) in RCA: 156] [Impact Index Per Article: 39.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2019] [Accepted: 01/09/2020] [Indexed: 12/11/2022]
Abstract
Our current knowledge about nucleocytoplasmic large DNA viruses (NCLDVs) is largely derived from viral isolates that are co-cultivated with protists and algae. Here we reconstructed 2,074 NCLDV genomes from sampling sites across the globe by building on the rapidly increasing amount of publicly available metagenome data. This led to an 11-fold increase in phylogenetic diversity and a parallel 10-fold expansion in functional diversity. Analysis of 58,023 major capsid proteins from large and giant viruses using metagenomic data revealed the global distribution patterns and cosmopolitan nature of these viruses. The discovered viral genomes encoded a wide range of proteins with putative roles in photosynthesis and diverse substrate transport processes, indicating that host reprogramming is probably a common strategy in the NCLDVs. Furthermore, inferences of horizontal gene transfer connected viral lineages to diverse eukaryotic hosts. We anticipate that the global diversity of NCLDVs that we describe here will establish giant viruses-which are associated with most major eukaryotic lineages-as important players in ecosystems across Earth's biomes.
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Affiliation(s)
- Frederik Schulz
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
| | - Simon Roux
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - David Paez-Espino
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Sean Jungbluth
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - David A Walsh
- Groupe de recherche interuniversitaire en limnologie, Department of Biology, Concordia University, Montréal, Québec, Canada
| | - Vincent J Denef
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA
| | - Katherine D McMahon
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA
- Department of Civil and Environmental Engineering, University of Wisconsin-Madison, Madison, WI, USA
| | | | - Emiley A Eloe-Fadrosh
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Nikos C Kyrpides
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Tanja Woyke
- DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
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40
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Bellan A, Bucci F, Perin G, Alboresi A, Morosinotto T. Photosynthesis Regulation in Response to Fluctuating Light in the Secondary Endosymbiont Alga Nannochloropsis gaditana. PLANT & CELL PHYSIOLOGY 2020; 61:41-52. [PMID: 31511895 DOI: 10.1093/pcp/pcz174] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2019] [Accepted: 09/03/2019] [Indexed: 06/10/2023]
Abstract
In nature, photosynthetic organisms are exposed to highly dynamic environmental conditions where the excitation energy and electron flow in the photosynthetic apparatus need to be continuously modulated. Fluctuations in incident light are particularly challenging because they drive oversaturation of photosynthesis with consequent oxidative stress and photoinhibition. Plants and algae have evolved several mechanisms to modulate their photosynthetic machinery to cope with light dynamics, such as thermal dissipation of excited chlorophyll states (non-photochemical quenching, NPQ) and regulation of electron transport. The regulatory mechanisms involved in the response to light dynamics have adapted during evolution, and exploring biodiversity is a valuable strategy for expanding our understanding of their biological roles. In this work, we investigated the response to fluctuating light in Nannochloropsis gaditana, a eukaryotic microalga of the phylum Heterokonta originating from a secondary endosymbiotic event. Nannochloropsis gaditana is negatively affected by light fluctuations, leading to large reductions in growth and photosynthetic electron transport. Exposure to light fluctuations specifically damages photosystem I, likely because of the ineffective regulation of electron transport in this species. The role of NPQ, also assessed using a mutant strain specifically depleted of this response, was instead found to be minor, especially in responding to the fastest light fluctuations.
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Affiliation(s)
- Alessandra Bellan
- Department of Biology, University of Padova, Via U. Bassi 58/B, Padova 35121, Italy
| | - Francesca Bucci
- Department of Biology, University of Padova, Via U. Bassi 58/B, Padova 35121, Italy
| | - Giorgio Perin
- Department of Biology, University of Padova, Via U. Bassi 58/B, Padova 35121, Italy
| | - Alessandro Alboresi
- Department of Biology, University of Padova, Via U. Bassi 58/B, Padova 35121, Italy
| | - Tomas Morosinotto
- Department of Biology, University of Padova, Via U. Bassi 58/B, Padova 35121, Italy
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41
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Goldman JAL, Schatz MJ, Berthiaume CT, Coesel SN, Orellana MV, Armbrust EV. Fe limitation decreases transcriptional regulation over the diel cycle in the model diatom Thalassiosira pseudonana. PLoS One 2019; 14:e0222325. [PMID: 31509589 PMCID: PMC6738920 DOI: 10.1371/journal.pone.0222325] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2019] [Accepted: 08/27/2019] [Indexed: 01/02/2023] Open
Abstract
Iron (Fe) is an important growth factor for diatoms and its availability is further restricted by changes in the carbonate chemistry of seawater. We investigated the physiological attributes and transcriptional profiles of the diatom Thalassiosira pseudonana grown on a day: night cycle under different CO2/pH and iron concentrations, that in combination generated available iron (Fe') concentrations of 1160, 233, 58 and 12 pM. We found the light-dark conditions to be the main driver of transcriptional patterns, followed by Fe' concentration and CO2 availability, respectively. At the highest Fe' (1160 pM), 55% of the transcribed genes were differentially expressed between day and night, whereas at the lowest Fe' (12 pM), only 28% of the transcribed genes displayed comparable patterns. While Fe limitation disrupts the diel expression patterns for genes in most central metabolism pathways, the diel expression of light- signaling molecules and glycolytic genes was relatively robust in response to reduced Fe'. Moreover, we identified a non-canonical splicing of transcripts encoding triose-phosphate isomerase, a key-enzyme of glycolysis, generating transcript isoforms that would encode proteins with and without an active site. Transcripts that encoded an active enzyme maintained a diel expression at low Fe', while transcripts that encoded the non-active enzyme lost the diel expression. This work illustrates the interplay between nutrient limitation and transcriptional regulation over the diel cycle. Considering that future ocean conditions will reduce the availability of Fe in many parts of the oceans, our work identifies some of the regulatory mechanisms that may shape future ecological communities.
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Affiliation(s)
- Johanna A. L. Goldman
- School of Oceanography, University of Washington, Seattle, Washington, United States of America
| | - Megan J. Schatz
- School of Oceanography, University of Washington, Seattle, Washington, United States of America
| | - Chris T. Berthiaume
- School of Oceanography, University of Washington, Seattle, Washington, United States of America
| | - Sacha N. Coesel
- School of Oceanography, University of Washington, Seattle, Washington, United States of America
| | - Mónica V. Orellana
- Polar Science Center, Applied Physics Laboratory, University of Washington, Seattle, Washington, United States of America
- Institute for Systems Biology, Seattle, Washington, United States of America
| | - E. Virginia Armbrust
- School of Oceanography, University of Washington, Seattle, Washington, United States of America
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42
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Shafiee RT, Snow JT, Zhang Q, Rickaby REM. Iron requirements and uptake strategies of the globally abundant marine ammonia-oxidising archaeon, Nitrosopumilus maritimus SCM1. THE ISME JOURNAL 2019; 13:2295-2305. [PMID: 31076641 PMCID: PMC6776035 DOI: 10.1038/s41396-019-0434-8] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Revised: 04/04/2019] [Accepted: 04/15/2019] [Indexed: 01/08/2023]
Abstract
Ammonia-oxidising archaea (AOA) mediate the rate-limiting step of nitrification, the central component of the marine nitrogen cycle that converts ammonia to nitrite then nitrate. Competition with phytoplankton for ammonium and light inhibition are considered to restrict AOA activity to below the photic zone, but observations of surface nitrification now demand a further understanding of the factors driving AOA distribution and activity. Pico- to nanomolar concentrations of iron (Fe) limit the growth of microorganisms in a significant portion of the world's surface oceans, yet there is no examination of the role of Fe in AOA growth despite the process of ammonia oxidation being considered to rely on the micronutrient. Here we investigate the Fe requirements and Fe uptake strategies of the Nitrosopumilus maritimus strain SCM1, a strain representative of globally abundant marine AOA. Using trace metal clean culturing techniques, we found that N. maritimus growth is determined by Fe availability, displaying a free inorganic Fe (Fe') half saturation constant 1-2 orders of magnitude greater for cell growth than numerous marine phytoplankton and heterotrophic bacterial species driven by a reduced affinity for Fe'. In addition, we discovered that whilst unable to produce siderophores to enhance access to Fe, N. maritimus is able to use the exogenous siderophore desferrioxamine B (DFB), likely through a reductive uptake pathway analogous to that demonstrated in phytoplankton. Our work suggests AOA growth in surface waters may be Fe limited and advances our understanding of AOA physiology on the cellular and mechanistic levels with implications for ecosystem dynamics and the biogeochemical N-cycle.
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Affiliation(s)
- Roxana T Shafiee
- Department of Earth Sciences, University of Oxford, South Parks Road, Oxfordshire, OX1 3AN, UK.
| | - Joseph T Snow
- Department of Earth Sciences, University of Oxford, South Parks Road, Oxfordshire, OX1 3AN, UK
| | - Qiong Zhang
- Department of Earth Sciences, University of Oxford, South Parks Road, Oxfordshire, OX1 3AN, UK
| | - Rosalind E M Rickaby
- Department of Earth Sciences, University of Oxford, South Parks Road, Oxfordshire, OX1 3AN, UK
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Jeyasingh PD, Pulkkinen K. Does differential iron supply to algae affect Daphnia life history? An ionome-wide study. Oecologia 2019; 191:51-60. [PMID: 31428869 DOI: 10.1007/s00442-019-04482-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2018] [Accepted: 08/05/2019] [Indexed: 11/26/2022]
Abstract
The availability of iron (Fe) varies considerably among diet items, as well as ecosystems. Availability of Fe has also changed due to anthropogenic environmental changes in oceanic as well as inland ecosystems. We know little about its role in the nutrition of ecologically important consumers, particularly in inland ecosystems. Physiological studies in several taxa indicate marked effects of dietary Fe on oogenesis. We predicted that differential Fe supply to algae will impact algal Fe concentration with consequences on the life history of the freshwater grazer, Daphnia magna. We found that algal Fe concentration increased with Fe supply, but did not affect algal growth, indicating that the majority of experimental Fe additions were likely adsorbed to, or stored in algal cells. Regardless, data indicate that algal Fe impacted the reproductive traits (age and size at maturity) but not juvenile growth rate of Daphnia. A subsequent experiment revealed that Fe concentration in eggs was significantly higher than the rest of Daphnia. These results indicate that the concentration of Fe in or on algal cells may vary considerably among ecosystems overlying distinct geological formations differing in Fe, possibly with important implications for zooplankton life histories. Understanding the mechanisms underlying this response is unlikely to be accomplished by a strict focus on Fe because we found correlated shifts in the algal ionome, with concomitant ionome-wide adjustments in Daphnia. Information on ionome-wide responses may be useful in better understanding the responses of biota to changes in the supply of any one element.
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Affiliation(s)
- Punidan D Jeyasingh
- Department of Biological and Environmental Science, University of Jyväskylä, P. O. Box 35, 40014, Jyväskylä, Finland.
- Department of Integrative Biology, Oklahoma State University, 501 Life Sciences West, Stillwater, OK, 74078, USA.
| | - Katja Pulkkinen
- Department of Biological and Environmental Science, University of Jyväskylä, P. O. Box 35, 40014, Jyväskylä, Finland
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44
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Metabolic Innovations Underpinning the Origin and Diversification of the Diatom Chloroplast. Biomolecules 2019; 9:biom9080322. [PMID: 31366180 PMCID: PMC6723447 DOI: 10.3390/biom9080322] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2019] [Revised: 07/24/2019] [Accepted: 07/25/2019] [Indexed: 12/13/2022] Open
Abstract
Of all the eukaryotic algal groups, diatoms make the most substantial contributions to photosynthesis in the contemporary ocean. Understanding the biological innovations that have occurred in the diatom chloroplast may provide us with explanations to the ecological success of this lineage and clues as to how best to exploit the biology of these organisms for biotechnology. In this paper, we use multi-species transcriptome datasets to compare chloroplast metabolism pathways in diatoms to other algal lineages. We identify possible diatom-specific innovations in chloroplast metabolism, including the completion of tocopherol synthesis via a chloroplast-targeted tocopherol cyclase, a complete chloroplast ornithine cycle, and chloroplast-targeted proteins involved in iron acquisition and CO2 concentration not shared between diatoms and their closest relatives in the stramenopiles. We additionally present a detailed investigation of the chloroplast metabolism of the oil-producing diatom Fistulifera solaris, which is of industrial interest for biofuel production. These include modified amino acid and pyruvate hub metabolism that might enhance acetyl-coA production for chloroplast lipid biosynthesis and the presence of a chloroplast-localised squalene synthesis pathway unknown in other diatoms. Our data provides valuable insights into the biological adaptations underpinning an ecologically critical lineage, and how chloroplast metabolism can change even at a species level in extant algae.
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45
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Blanco-Ameijeiras S, Cabanes DJE, Hassler CS. Towards the development of a new generation of whole-cell bioreporters to sense iron bioavailability in oceanic systems-learning from the case of Synechococcus sp. PCC7002 iron bioreporter. J Appl Microbiol 2019; 127:1291-1304. [PMID: 30970168 DOI: 10.1111/jam.14277] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Revised: 02/17/2019] [Accepted: 04/04/2019] [Indexed: 12/24/2022]
Abstract
Whole-cell bioreporters are genetically modified micro-organisms designed to sense bioavailable forms of nutrients or toxic compounds in aquatic systems. As they represent the most promising cost-efficient tools available for such purpose, engineering and use of bioreporters is rapidly growing in association with wide applicability. Bioreporters are urgently needed to determine phytoplankton iron (Fe) limitation, which has been reported in up to 30% of the ocean, with consequences affecting Earth's global carbon cycle and climate. This study presents a critical evaluation and optimization of the only Cyanobacteria bioreporter available to sense Fe limitation in marine systems (Synechococcus sp. PCC7002). The nonmonotonic biphasic dose-response curve between the bioreporters' signal and Fe bioavailability impairs an appropriate data interpretation, highlighting the need for new carefully designed bioreporters. Here, limitations under low Fe concentrations were related to cellular energy stress, nonlinear expression of the targeted promoter and siderophore expression. Furthermore, we provide critical standard criteria for the development of new Fe bioreporters. Finally, based on gene expression data under a range of marine Fe concentrations, we propose novel sensor genes for the development of new Cyanobacteria Fe bioreporters for distinct marine regions.
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Affiliation(s)
- S Blanco-Ameijeiras
- Department F.-A. Forel for Environmental and Aquatic Sciences, Faculty of Science, University of Geneva, Geneva, Switzerland
| | - D J E Cabanes
- Department F.-A. Forel for Environmental and Aquatic Sciences, Faculty of Science, University of Geneva, Geneva, Switzerland
| | - C S Hassler
- Department F.-A. Forel for Environmental and Aquatic Sciences, Faculty of Science, University of Geneva, Geneva, Switzerland
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Pytlik N, Klemmed B, Machill S, Eychmüller A, Brunner E. In vivo uptake of gold nanoparticles by the diatom Stephanopyxis turris. ALGAL RES 2019. [DOI: 10.1016/j.algal.2019.101447] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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47
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Zhou H, Chen X, Liu X, Xuan Y, Hu T. Effects and control of metal nutrients and species on Microcystis aeruginosa growth and bloom. WATER ENVIRONMENT RESEARCH : A RESEARCH PUBLICATION OF THE WATER ENVIRONMENT FEDERATION 2019; 91:21-31. [PMID: 30682229 DOI: 10.2175/106143017x15131012188303] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2018] [Revised: 06/09/2018] [Accepted: 07/06/2018] [Indexed: 06/09/2023]
Abstract
The effects and control of typical metal nutrients, copper, iron, and zinc, on the growth and bloom of Microcystis aeruginosa were investigated with a series of flask-shaking tests. The optimal concentrations of copper, iron, and zinc for algal growth were 0.001, 3-12, and 0.05 mg/L, respectively. The order of toxicity to the alga was Cu > Zn > Fe. The effects of the species, for a trace metal at the same concentrations, on the growth of M. aeruginosa were relatively remarkable. Ionic and complexation species induced more algal growth than the carbonate and sulfide-bound species. Changes in copper concentration and iron species were adopted to adjust and control the bloom of M. aeruginosa. Increases in copper concentrations significantly suppressed the M. aeruginosa bloom. The growth rate of M. aeruginosa slowed significantly when ionic iron was replaced with sulfide-bound iron, and the control of bloom was remarkable. PRACTITIONER POINTS: Using trace metal nutrient species and concentration to regulate and control algal growth and bloom may pave another way for the management of cyanobacterial bloom.
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Affiliation(s)
- Haidong Zhou
- School of Environment and Architecture, University of Shanghai for Science and Technology, Shanghai, China
| | - Xiaomeng Chen
- School of Environment and Architecture, University of Shanghai for Science and Technology, Shanghai, China
| | - Xiaojing Liu
- School of Environment and Architecture, University of Shanghai for Science and Technology, Shanghai, China
| | - Yumei Xuan
- School of Environment and Architecture, University of Shanghai for Science and Technology, Shanghai, China
| | - Tao Hu
- School of Environment and Architecture, University of Shanghai for Science and Technology, Shanghai, China
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Outer Membrane Iron Uptake Pathways in the Model Cyanobacterium Synechocystis sp. Strain PCC 6803. Appl Environ Microbiol 2018; 84:AEM.01512-18. [PMID: 30076192 DOI: 10.1128/aem.01512-18] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2018] [Accepted: 07/21/2018] [Indexed: 02/01/2023] Open
Abstract
Cyanobacteria are foundational drivers of global nutrient cycling, with high intracellular iron (Fe) requirements. Fe is found at extremely low concentrations in aquatic systems, however, and the ways in which cyanobacteria take up Fe are largely unknown, especially the initial step in Fe transport across the outer membrane. Here, we identified one TonB protein and four TonB-dependent transporters (TBDTs) of the energy-requiring Fe acquisition system and six porins of the passive diffusion Fe uptake system in the model cyanobacterium Synechocystis sp. strain PCC 6803. The results experimentally demonstrated that TBDTs not only participated in organic ferri-siderophore uptake but also in inorganic free Fe (Fe') acquisition. 55Fe uptake rate measurements showed that a TBDT quadruple mutant acquired Fe at a lower rate than the wild type and lost nearly all ability to take up ferri-siderophores, indicating that TBDTs are critical for siderophore uptake. However, the mutant retained the ability to take up Fe' at 42% of the wild-type Fe' uptake rate, suggesting additional pathways of Fe' acquisition besides TBDTs, likely by porins. Mutations in four of the six porin-encoding genes produced a low-Fe-sensitive phenotype, while a mutation in all six genes was lethal to cell survival. These diverse outer membrane Fe uptake pathways reflect cyanobacterial evolution and adaptation under a range of Fe regimes across aquatic systems.IMPORTANCE Cyanobacteria are globally important primary producers and contribute about 25% of global CO2 fixation. Low Fe bioavailability in surface waters is thought to limit the primary productivity in as much as 40% of the global ocean. The Fe acquisition strategies that cyanobacteria have evolved to overcome Fe deficiency remain poorly characterized. We experimentally characterized the key players and the cooperative work mode of two Fe uptake pathways, including an active uptake pathway and a passive diffusion pathway in the model cyanobacterium Synechocystis sp. PCC 6803. Our finding proved that cyanobacteria use ferri-siderophore transporters to take up Fe', and they shed light on the adaptive mechanisms of cyanobacteria to cope with widespread Fe deficiency across aquatic environments.
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da Silva Câmara A, de Almeida Fernandes LD. Evaluation of the interactions between the marine bacterium Pseudomonas fluorescens and the microalga Isochrysis galbana in simulated ballast tank environment. Arch Microbiol 2018; 201:35-44. [PMID: 30187094 DOI: 10.1007/s00203-018-1569-0] [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: 05/22/2018] [Revised: 08/11/2018] [Accepted: 08/29/2018] [Indexed: 10/28/2022]
Abstract
To evaluate the impacts of the interaction between bacteria and microalgae has been the object of study by many research groups around the world. However, little is known about the interference that pigments produced by bacteria, such as the pyoverdine siderophore, can cause to microalgae like Isochrysis galbana. Pyoverdine is a fluorochrome produced by certain Pseudomonas strains, such as P. fluorescens, which plays a role in capturing and transporting iron ions from the environment to the cell. Unlike the oceans where Fe concentrations are extremely low (< 10-15 µM), in a ballast tank it is expected that there is a great supply of iron to the cells and that the absence of light is the main limiting factor until the water is discarded. Interestingly, under certain conditions, bacteria such as P. fluorescens absorb most of the water soluble iron ions and prevent the growth of phytoplankton even if there is sufficient light. Changes in the patterns of light distribution in aquatic environments may affect the physiological characteristics of certain microalgae. This study aimed to evaluate the impacts of the presence of P. fluorescens on the survival and growth of I. galbana inside the tank. For the study, an experiment was carried out to study the interaction between P. fluorescens and I. galbana under simulated conditions of a vessel in the presence/absence of Pseudomonas and light. The results showed that the presence of the bacteria is not the main limiting factor for microalga growth. The effect of the light factor was determinant on the reproduction rate. It is believed that pyoverdine produced by P. fluorescens affected I. galbana stock either by increasing mortality or decreasing growth rate as revealed by laboratory experiments. However, it was not possible to check if the pigment concentration was affected by the growth of microalgae.
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Affiliation(s)
- Aline da Silva Câmara
- Laboratory of Microbiology and Cytometry, Biofouling and Bioinvasion Division, Marine Biotechnology Department, Instituto de Estudos do Mar Almirante Paulo Moreira - IEAPM - Brazilian Navy, Rua Kioto 253, Praia dos Anjos, Arraial do Cabo, Rio De Janeiro, 28930-000, Brazil. .,Programa de Pós-graduação em Biotecnologia Marinha - IEAPM, Rua Daniel Barreto s/n - Prédio Amazônia Azul - Praia dos Anjos, Arraial do Cabo, 28930-000, Brazil.
| | - Lohengrin Dias de Almeida Fernandes
- Laboratory of Microbiology and Cytometry, Biofouling and Bioinvasion Division, Marine Biotechnology Department, Instituto de Estudos do Mar Almirante Paulo Moreira - IEAPM - Brazilian Navy, Rua Kioto 253, Praia dos Anjos, Arraial do Cabo, Rio De Janeiro, 28930-000, Brazil.,Programa de Pós-graduação em Biotecnologia Marinha - IEAPM, Rua Daniel Barreto s/n - Prédio Amazônia Azul - Praia dos Anjos, Arraial do Cabo, 28930-000, Brazil
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Isolation and identification of siderophores produced by cyanobacteria. Folia Microbiol (Praha) 2018; 63:569-579. [DOI: 10.1007/s12223-018-0626-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2018] [Accepted: 06/12/2018] [Indexed: 01/05/2023]
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