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Beale DJ, Crosswell J, Karpe AV, Metcalfe SS, Morrison PD, Staley C, Ahmed W, Sadowsky MJ, Palombo EA, Steven ADL. Seasonal metabolic analysis of marine sediments collected from Moreton Bay in South East Queensland, Australia, using a multi-omics-based approach. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 631-632:1328-1341. [PMID: 29727957 DOI: 10.1016/j.scitotenv.2018.03.106] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Revised: 03/06/2018] [Accepted: 03/09/2018] [Indexed: 06/08/2023]
Abstract
Anthropogenic effects of urban density have altered natural ecosystems. Such changes include eutrophication of freshwater and adjoining coastal habitats, and increased levels of inorganic nutrients and pollutants into waterways. In Australia, these changes are intensified by large-scale ocean-atmospheric events, leading to considerable abiotic stress on the natural flora and fauna. Bacterial communities in marine sediments from Moreton Bay (South East Queensland, Australia) were examined in order to assess the impact of rainfall changes, chemical pollution, and subsequent abiotic stress on living organisms within a marine ecosystem. Sediments were collected during the wet and dry seasons and analyzed using bacterial metagenomics and community metabolomics techniques. Physicochemical data were also analyzed to account for biological variance that may be due to non-rainfall-based abiotic stresses. Wet-dry seasonality was the dominant control on bacterial community structure and metabolic function. Changes in the availability of nutrients, organic matter and light appeared to be the major seasonal stressors. In contrast, urban and industrial pollutants appeared to be minor stressors at the sites sampled. During the wet season, the bacterial community composition reflected organisms that utilize biogeochemical pathways with fast kinetics, such as aerobic metabolism, direct assimilation of inorganic compounds, and primary production. The transition to the dry season saw the bacterial community composition shift towards organisms that utilize more complex organic energy sources, such as carbohydrates and fatty acids, and anaerobic redox processes.
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Affiliation(s)
- D J Beale
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - J Crosswell
- CSIRO Oceans & Atmosphere, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - A V Karpe
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - S S Metcalfe
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - P D Morrison
- Australian Centre for Research on Separation Science, School of Applied Sciences, RMIT University, Melbourne, VIC 3001, Australia.
| | - C Staley
- Biotechnology Institute, University of Minnesota, St. Paul, MN, United States.
| | - W Ahmed
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - M J Sadowsky
- Biotechnology Institute, University of Minnesota, St. Paul, MN, United States.
| | - E A Palombo
- Faculty of Science, Engineering and Technology, Swinburne University of Technology, Hawthorn, VIC 3122, Australia.
| | - A D L Steven
- CSIRO Oceans & Atmosphere, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
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Loukas CM, Mowlem MC, Tsaloglou MN, Green NG. A novel portable filtration system for sampling and concentration of microorganisms: Demonstration on marine microalgae with subsequent quantification using IC-NASBA. HARMFUL ALGAE 2018; 75:94-104. [PMID: 29778229 DOI: 10.1016/j.hal.2018.03.006] [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: 03/09/2018] [Revised: 03/19/2018] [Accepted: 03/24/2018] [Indexed: 06/08/2023]
Abstract
This paper presents a novel portable sample filtration/concentration system, designed for use on samples of microorganisms with very low cell concentrations and large volumes, such as water-borne parasites, pathogens associated with faecal matter, or toxic phytoplankton. The example application used for demonstration was the in-field collection and concentration of microalgae from seawater samples. This type of organism is responsible for Harmful Algal Blooms (HABs), an example of which is commonly referred to as "red tides", which are typically the result of rapid proliferation and high biomass accumulation of harmful microalgal species in the water column or at the sea surface. For instance, Karenia brevis red tides are the cause of aquatic organism mortality and persistent blooms may cause widespread die-offs of populations of other organisms including vertebrates. In order to respond to, and adequately manage HABs, monitoring of toxic microalgae is required and large-volume sample concentrators would be a useful tool for in situ monitoring of HABs. The filtering system presented in this work enables consistent sample collection and concentration from 1 L to 1 mL in five minutes, allowing for subsequent benchtop sample extraction and analysis using molecular methods such as NASBA and IC-NASBA. The microalga Tetraselmis suecica was successfully detected at concentrations ranging from 2 × 105 cells/L to 20 cells/L. Karenia brevis was also detected and quantified at concentrations between 10 cells/L and 106 cells/L. Further analysis showed that the filter system, which concentrates cells from very large volumes with consequently more reliable sampling, produced samples that were more consistent than the independent non-filtered samples (benchtop controls), with a logarithmic dependency on increasing cell numbers. This filtering system provides simple, rapid, and consistent sample collection and concentration for further analysis, and could be applied to a wide range of different samples and target organisms in situations lacking laboratories.
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Affiliation(s)
- Christos-Moritz Loukas
- National Oceanography Centre (NOC), University of Southampton Waterfront Campus, European Way, Southampton, SO14 3ZH, United Kingdom; Department of Ocean and Earth Science, University of Southampton Waterfront Campus, European Way, Southampton, SO14 3ZH, United Kingdom.
| | - Matthew C Mowlem
- National Oceanography Centre (NOC), University of Southampton Waterfront Campus, European Way, Southampton, SO14 3ZH, United Kingdom.
| | - Maria-Nefeli Tsaloglou
- National Oceanography Centre (NOC), University of Southampton Waterfront Campus, European Way, Southampton, SO14 3ZH, United Kingdom; Department of Ocean and Earth Science, University of Southampton Waterfront Campus, European Way, Southampton, SO14 3ZH, United Kingdom; Institute for Life Sciences, University of Southampton Highfield Campus, Highfield, Southampton, SO17 1BJ, United Kingdom.
| | - Nicolas G Green
- Institute for Life Sciences, University of Southampton Highfield Campus, Highfield, Southampton, SO17 1BJ, United Kingdom; School of Electronics and Computer Science (ECS), University of Southampton Highfield Campus, Highfield, Southampton, SO17 1BJ, United Kingdom.
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Beale DJ, Crosswell J, Karpe AV, Ahmed W, Williams M, Morrison PD, Metcalfe S, Staley C, Sadowsky MJ, Palombo EA, Steven ADL. A multi-omics based ecological analysis of coastal marine sediments from Gladstone, in Australia's Central Queensland, and Heron Island, a nearby fringing platform reef. THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 609:842-853. [PMID: 28768216 DOI: 10.1016/j.scitotenv.2017.07.184] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2017] [Revised: 07/19/2017] [Accepted: 07/20/2017] [Indexed: 06/07/2023]
Abstract
The impact of anthropogenic factors arising from point and non-point pollution sources at a multi commodity marine port and its surrounding ecosystems were studied using sediment samples collected from a number of onshore (Gladstone Harbour and Facing Island) and offshore (Heron Island and Fitzroy Reefs) sites in Australia's Central Queensland. Sediment samples were analyzed for trace metals, organic carbon, polycyclic aromatic hydrocarbons (PAH), emerging chemicals of concern (ECC) and sterols. Similarly, the biological and biochemical interaction between the reef and its environment was analyzed by the multi-omic tools of next-generation sequencing characterization of the bacterial community and microbial community metabolic profiling. Overall, the trace elements were observed at the lower end of the Australian environmental guideline values at the offshore sites, while higher values were observed for the onshore locations Nickel and copper were observed above the high trigger value threshold at the onshore sites. The levels of PAH were below limits of detection across all sites. However, some of the ECC and sterols were observed at higher concentrations at both onshore and offshore locations, notably, the cholesterol family sterols and 17α-ethynylestradiol. Multi-omic analyses also indicated possible thermal and photo irradiation stressors on the bacterial communities at all the tested sites. The observed populations of γ-proteobacteria were found in combination with an increased pool of fatty acids that indicate fatty acid synthesis and utilisation of the intermediates of the shikimate pathways. This study demonstrates the value of applying a multi-omics approach for ecological assessments, in which a more detailed assessment of physical and chemical contaminants and their impact on the community bacterial biome is obtained.
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Affiliation(s)
- D J Beale
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - J Crosswell
- CSIRO Oceans & Atmosphere, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - A V Karpe
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia; Faculty of Science, Engineering and Technology, Swinburne University of Technology, Hawthorn, VIC 3122, Australia.
| | - W Ahmed
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - M Williams
- CSIRO Land & Water, Waite Campus, Urrbrae, SA 5064, Australia.
| | - P D Morrison
- Australian Centre for Research on Separation Science, School of Applied Sciences, RMIT University, Melbourne, VIC 3001, Australia.
| | - S Metcalfe
- CSIRO Land & Water, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
| | - C Staley
- Biotechnology Institute, University of Minnesota, St. Paul, MN, United States.
| | - M J Sadowsky
- Biotechnology Institute, University of Minnesota, St. Paul, MN, United States.
| | - E A Palombo
- Faculty of Science, Engineering and Technology, Swinburne University of Technology, Hawthorn, VIC 3122, Australia.
| | - A D L Steven
- CSIRO Oceans & Atmosphere, Ecosciences Precinct, Dutton Park, QLD 4102, Australia.
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Jacobson G, Muncaster S, Mensink K, Forlenza M, Elliot N, Broomfield G, Signal B, Bird S. Omics and cytokine discovery in fish: Presenting the Yellowtail kingfish (Seriola lalandi) as a case study. DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY 2017; 75:63-76. [PMID: 28416435 DOI: 10.1016/j.dci.2017.04.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2017] [Revised: 04/01/2017] [Accepted: 04/01/2017] [Indexed: 06/07/2023]
Abstract
A continued programme of research is essential to overcome production bottlenecks in any aquacultured fish species. Since the introduction of genetic and molecular techniques, the quality of immune research undertaken in fish has greatly improved. Thousands of species specific cytokine genes have been discovered, which can be used to conduct more sensitive studies to understand how fish physiology is affected by aquaculture environments or disease. Newly available transcriptomic technologies, make it increasingly easier to study the immunogenetics of farmed species for which little data exists. This paper reviews how the application of transcriptomic procedures such as RNA Sequencing (RNA-Seq) can advance fish research. As a case study, we present some preliminary findings using RNA-Seq to identify cytokine related genes in Seriola lalandi. These will allow in-depth investigations to understand the immune responses of these fish in response to environmental change or disease and help in the development of therapeutic approaches.
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Affiliation(s)
- Gregory Jacobson
- Molecular Genetics, Department of Biological Sciences, School of Science and Engineering, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand
| | - Simon Muncaster
- School Applied Science, Bay of Plenty Polytechnic, 70 Windermere Dr, Poike, Tauranga 3112, New Zealand
| | - Koen Mensink
- Cell Biology and Immunology Group, Department of Animal Sciences, Wageningen University, Wageningen, The Netherlands
| | - Maria Forlenza
- Cell Biology and Immunology Group, Department of Animal Sciences, Wageningen University, Wageningen, The Netherlands
| | - Nick Elliot
- Molecular Genetics, Department of Biological Sciences, School of Science and Engineering, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand
| | - Grant Broomfield
- Molecular Genetics, Department of Biological Sciences, School of Science and Engineering, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand
| | - Beth Signal
- Molecular Genetics, Department of Biological Sciences, School of Science and Engineering, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand
| | - Steve Bird
- Molecular Genetics, Department of Biological Sciences, School of Science and Engineering, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand.
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Baharara J, Amini E, Musavi M. Anti-Vasculogenic Activity of a Polysaccharide Derived from Brittle Star via Inhibition of VEGF, Paxillin and MMP-9. IRANIAN JOURNAL OF BIOTECHNOLOGY 2017; 15:179-185. [PMID: 29845067 DOI: 10.15171/ijb.1208] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2015] [Revised: 05/28/2017] [Accepted: 08/23/2017] [Indexed: 12/31/2022]
Abstract
Background: Bioactive compounds such as terpenoids, chondroitin sulfate, and polysaccharides with added value can be found in prestine marine creatures. These compounds often do have highly valuable therapeutic applications such as being antioxidant, antitumorogenic, anti-inflammatory and anti-angiogenic. For the latter, varieties of angiogenesis factors can suppress this issue within the bodily tissues. Objectives: The anti-angiogenic and anti-metastatic capacity of a polysaccharide derived from brittle star was investigated. Material and Methods: The anti-proliferative effect of derived polysaccharide on umbilical vein endothelial cells (HUVEC) was measured using MTT (dimethyl thiazol-2-yl]-2,5-diphenyl tetrazolium bromide) assay. The anti-angiogenic effect of the isolated polysaccharide was examined by Chorioallantoic membrane (CAM) assay. The transcriptional expression of VEGF (Vascular Endothelial Growth Factor) was evaluated by Reverse Transcriptase-Polymerase Chain Reaction (RT-PCR). The anti-metastatic activity was investigated via scratch-wound healing assay. The levels of Paxillin and Matrix Metalloproteinase-9 (MMP-9) expression were analyzed by RT-PCR. Statistical analysis and mean comparisons (p< 0.05) were carried out by SPSS 16. Results: Our results elucidated that the brittle star isolated polysaccharide exerted a dose dependent cytotoxic effect on the HUVEC endothelial cells. The CAM assay exhibited potent anti-angiogenic activity in vivo. The RT-PCR analysis showed that the extracted polysaccharide (40, 60 µg.mL-1) down-regulated the VEGF expression. Further, the diminished attachment of endothelial cells demonstrated that the anti-invasiveness of the derived polysaccharide (25, 50 µg.mL-1) was administrated via down-regulation of paxillin and MMP-9 mRNA expression. Conclusions: Taken together, these results indicated that the polysaccharide extracted from brittle star was able to decrease the viability of the HUVEC cells, to suppress angiogenesis, and possibly act as a natural anti-angiogenic and anti-metastatic marine organic compound against angiogenesis related pathologies.
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Affiliation(s)
- Javad Baharara
- Department of Biology, Research Center For Applied Biology, Mashhad Branch, Islamic Azad University, Mashhad, 9183897194, Iran
| | - Elaheh Amini
- Department of Cellular & Molecular Biology, Faculty of Biology, Kharazmi University, Tehran, 14911-15719, Iran
| | - Marziyeh Musavi
- Department Faculty of Biological Science, Mashhad Branch, Islamic Azad University, Mashhad, 9183897194, Iran
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A Community Multi-Omics Approach towards the Assessment of Surface Water Quality in an Urban River System. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2017; 14:ijerph14030303. [PMID: 28335448 PMCID: PMC5369139 DOI: 10.3390/ijerph14030303] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/19/2017] [Revised: 02/17/2017] [Accepted: 03/08/2017] [Indexed: 02/04/2023]
Abstract
A multi-omics approach was applied to an urban river system (the Brisbane River (BR), Queensland, Australia) in order to investigate surface water quality and characterize the bacterial population with respect to water contaminants. To do this, bacterial metagenomic amplicon-sequencing using Illumina next-generation sequencing (NGS) of the V5-V6 hypervariable regions of the 16S rRNA gene and untargeted community metabolomics using gas chromatography coupled with mass spectrometry (GC-MS) were utilized. The multi-omics data, in combination with fecal indicator bacteria (FIB) counts, trace metal concentrations (by inductively coupled plasma mass spectrometry (ICP-MS)) and in-situ water quality measurements collected from various locations along the BR were then used to assess the health of the river ecosystem. Sites sampled represented the transition from less affected (upstream) to polluted (downstream) environments along the BR. Chemometric analysis of the combined datasets indicated a clear separation between the sampled environments. Burkholderiales and Cyanobacteria were common key factors for differentiation of pristine waters. Increased sugar alcohol and short-chain fatty acid production was observed by Actinomycetales and Rhodospirillaceae that are known to form biofilms in urban polluted and brackish waters. Results from this study indicate that a multi-omics approach enables a deep understanding of the health of an aquatic ecosystem, providing insight into the bacterial diversity present and the metabolic output of the population when exposed to environmental contaminants.
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Reegan AD, Kinsalin AV, Paulraj MG, Ignacimuthu S. Larvicidal, ovicidal and repellent activities of marine sponge Cliona celata (Grant) extracts against Anopheles stephensi Liston (Diptera: Culicidae). ASIAN PAC J TROP MED 2015; 8:29-34. [DOI: 10.1016/s1995-7645(14)60183-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2014] [Revised: 11/10/2014] [Accepted: 12/22/2014] [Indexed: 11/24/2022] Open
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Larvicidal, Ovicidal, and Repellent Activities of Marine Sponge Cliona celata (Grant) Extracts against Culex quinquefasciatus Say and Aedes aegypti L. (Diptera: Culicidae). ACTA ACUST UNITED AC 2013. [DOI: 10.1155/2013/315389] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Solvent extracts of marine sponge Cliona celata (Grant) were screened for larvicidal, ovicidal, and repellent properties against the filarial vector Culex quinquefasciatus Say and dengue vector Aedes aegypti L. Larvicidal and ovicidal activities of hexane, ethyl acetate, and methanol extracts were tested in four different concentrations ranging as 62.5, 125, 250, and 500 ppm. Among the three solvent extracts of C. celata, methanol extract showed the highest larvicidal activity at 500 ppm against both mosquito species. The LC50 and LC90 values of C. celata methanol extract were recorded as 95.63 and 242.16 ppm against C. quinquefasciatus larvae and 158.40 and 780.16 ppm against A. aegypti larvae, respectively. Ovicidal activity was high in methanol extract, in which 100% ovicidal activity was recorded in C. quinquefasciatus, and 72% ovicidal activity was recorded in A. aegypti at 500 ppm. The hexane extract was found to be the most effective protectant against the adult mosquitoes of both species. The mean protection time recorded in hexane extract was up to 273 and 165 min at 5 mg/cm2 dosage against C. quinquefasciatus and A. aegypti, respectively. Considering these bioactivities, C. celata could be used to obtain some novel pesticidal molecules.
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Endo N, Sato K, Matsumura K, Yoshimura E, Odaka Y, Nogata Y. Species-specific detection and quantification of common barnacle larvae from the Japanese coast using quantitative real-time PCR. BIOFOULING 2010; 26:901-911. [PMID: 21038150 DOI: 10.1080/08927014.2010.531389] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
Species-specific detection and quantification methods for barnacle larvae using quantitative real-time polymerase chain reaction (qPCR) were developed. Species-specific primers for qPCR were designed for 13 barnacle species in the mitochondrial 12S ribosomal RNA gene region. Primer specificity was examined by PCR using template DNA extracted from each of the 13 barnacle species, other unidentified barnacle species, and field collected zooplankton samples. The resulting PCR products comprised single bands following agarose gel electrophoresis when the templates corresponded to primers. The amplifications were highly species-specific even for the field plankton samples. The field plankton samples were subjected to qPCR assay. The calculated DNA contents for each barnacle species were closely correlated with the number of larvae measured by microscopic examination. The method could be applied to quantify barnacle larvae in natural plankton samples.
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Affiliation(s)
- Noriyuki Endo
- Environmental Science Research Laboratory, Central Research Institute of Electric Power Industry, Abiko-shi, Chiba-ken, Japan.
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In-depth analysis of exoproteomes from marine bacteria by shotgun liquid chromatography-tandem mass spectrometry: the Ruegeria pomeroyi DSS-3 case-study. Mar Drugs 2010; 8:2223-39. [PMID: 20948905 PMCID: PMC2953401 DOI: 10.3390/md8082223] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2010] [Revised: 07/27/2010] [Accepted: 07/28/2010] [Indexed: 12/16/2022] Open
Abstract
Microorganisms secrete into their extracellular environment numerous compounds that are required for their survival. Many of these compounds could be of great interest for biotechnology applications and their genes used in synthetic biology design. The secreted proteins and the components of the translocation systems themselves can be scrutinized in-depth by the most recent proteomic tools. While the secretomes of pathogens are well-documented, those of non-pathogens remain largely to be established. Here, we present the analysis of the exoproteome from the marine bacterium Ruegeria pomeroyi DSS-3 grown in standard laboratory conditions. We used a shotgun approach consisting of trypsin digestion of the exoproteome, and identification of the resulting peptides by liquid chromatography coupled to tandem mass spectrometry. Three different proteins that have domains homologous to those observed in RTX toxins were uncovered and were semi-quantified as the most abundantly secreted proteins. One of these proteins clearly stands out from the catalogue, representing over half of the total exoproteome. We also listed many soluble proteins related to ABC and TRAP transporters implied in the uptake of nutrients. The Ruegeria pomeroyi DSS-3 case-study illustrates the power of the shotgun nano-LC-MS/MS strategy to decipher the exoproteome from marine bacteria and to contribute to environmental proteomics.
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Bioprospecting microbial natural product libraries from the marine environment for drug discovery. J Antibiot (Tokyo) 2010; 63:415-22. [PMID: 20606699 DOI: 10.1038/ja.2010.56] [Citation(s) in RCA: 67] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Marine microorganisms are fascinating resources due to their production of novel natural products with antimicrobial activities. Increases in both the number of new chemical entities found and the substantiation of indigenous marine actinobacteria present a fundamental difficulty in the future discovery of novel antimicrobials, namely dereplication of those compounds already discovered. This review will share our experience on the taxonomic-based construction of a highly diversified and low redundant marine microbial natural product library for high-throughput antibiotic screening. We anticipate that libraries such as these can drive the drug discovery process now and in the future.
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Iijima S, Washio K, Okahara R, Morikawa M. Biofilm formation and proteolytic activities of Pseudoalteromonas bacteria that were isolated from fish farm sediments. Microb Biotechnol 2009; 2:361-9. [PMID: 21261930 PMCID: PMC3815756 DOI: 10.1111/j.1751-7915.2009.00097.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
In order to save natural resources and supply good fishes, it is important to improve fish‐farming techniques. The survival rate of fish fry appears to become higher when powders of foraminifer limestone are submerged at the bottom of fish‐farming fields, where bacterial biofilms often grow. The observations suggest that forming biofilms can benefit to keep health status of breeding fishes. We employed culture‐based methods for the identification and characterization of biofilm‐forming bacteria and assessed the application of their properties for fish farming. Fifteen bacterial strains were isolated from the biofilm samples collected from fish farm sediments. The 16S rRNA gene sequences indicated that these bacteria belonged to the genera, Pseudoalteromonas (seven strains), Vibrio (seven strains) and Halomonas (one strain). It was found that Pseudoalteromonas strains generally formed robust biofilms in a laboratory condition and produced extracellular proteases in a biofilm‐dependent manner. The results suggest that Pseudoalteromonas bacteria, living in the biofilm community, contribute in part to remove excess proteineous matters from the sediment sludge of fish farms.
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Affiliation(s)
- Saori Iijima
- Division of Biosphere Science, Graduate School of Environmental Science, Hokkaido University, Sapporo 060-0810, Japan
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