scholarly journals Effective gene collection from the metatranscriptome of marine microorganisms

BMC Genomics ◽  
2011 ◽  
Vol 12 (Suppl 3) ◽  
pp. S15 ◽  
Author(s):  
Atsushi Ogura ◽  
Mengjie Lin ◽  
Yuya Shigenobu ◽  
Atushi Fujiwara ◽  
Kazuho Ikeo ◽  
...  
Keyword(s):  
Marine Microorganisms ◽  
Gene Collection

scholarly journals Comparative Proteomics of Marinobacter sp. TT1 Reveals Corexit Impacts on Hydrocarbon Metabolism, Chemotactic Motility, and Biofilm Formation

2020 ◽  
Vol 9 (1) ◽  
pp. 3
Author(s):  
Saskia Rughöft ◽  
Nico Jehmlich ◽  
Tony Gutierrez ◽  
Sara Kleindienst
Keyword(s):  
Biofilm Formation ◽  
Oil Spills ◽  
Carbon Sources ◽  
Comparative Proteomics ◽  
Hydrocarbon Biodegradation ◽  
Solvent Tolerance ◽  
Marine Microorganisms ◽  
Degrading Bacteria ◽  
Oil Spill Response ◽  
First Time

The application of chemical dispersants during marine oil spills can affect the community composition and activity of marine microorganisms. Several studies have indicated that certain marine hydrocarbon-degrading bacteria, such as Marinobacter spp., can be inhibited by chemical dispersants, resulting in lower abundances and/or reduced biodegradation rates. However, a major knowledge gap exists regarding the mechanisms underlying these physiological effects. Here, we performed comparative proteomics of the Deepwater Horizon isolate Marinobacter sp. TT1 grown under different conditions. Strain TT1 received different carbon sources (pyruvate vs. n-hexadecane) with and without added dispersant (Corexit EC9500A). Additional treatments contained crude oil in the form of a water-accommodated fraction (WAF) or chemically-enhanced WAF (CEWAF; with Corexit). For the first time, we identified the proteins associated with alkane metabolism and alginate biosynthesis in strain TT1, report on its potential for aromatic hydrocarbon biodegradation and present a protein-based proposed metabolism of Corexit components as carbon substrates. Our findings revealed that Corexit exposure affects hydrocarbon metabolism, chemotactic motility, biofilm formation, and induces solvent tolerance mechanisms, like efflux pumps, in strain TT1. This study provides novel insights into dispersant impacts on microbial hydrocarbon degraders that should be taken into consideration for future oil spill response actions.

scholarly journals Optimising the DPPH Assay for Cell-Free Marine Microorganism Supernatants

Marine Drugs ◽  
2021 ◽  
Vol 19 (5) ◽  
pp. 256
Author(s):  
Yehui Gang ◽  
Tae-Yang Eom ◽  
Svini Dileepa Marasinghe ◽  
Youngdeuk Lee ◽  
Eunyoung Jo ◽  
...  
Keyword(s):  
Water Content ◽  
Antioxidant Activities ◽  
Fermented Foods ◽  
Solution Stability ◽  
Marine Microorganism ◽  
Marine Microorganisms ◽  
Dpph Assay ◽  
Aqueous Methanol ◽  
Potential Applications ◽  
Pseudoalteromonas Rubra

Antioxidants prevent ageing and are usually quantified and screened using the 1,1-diphenyl-2-picrylhydrazyl (DPPH) assay. However, this assay cannot be used for salt-containing samples, such as the cell-free supernatants of marine microorganisms that are aggregated under these conditions. Herein, the DPPH solvent (methanol or ethanol) and its water content were optimized to enable the analysis of salt-containing samples, aggregation was observed for alcohol contents of >70%. The water content of methanol influenced the activities of standard antioxidants but did not significantly affect that of the samples. Based on solution stability considerations, 70% aqueous methanol was chosen as the optimal DPPH solvent. The developed method was successfully applied to the cell-free supernatants of marine bacteria (Pseudoalteromonas rubra and Pseudoalteromonas xiamenensis), revealing their high antioxidant activities. Furthermore, it was concluded that this method would be useful for the screening of marine microorganism–derived antioxidants, which also has numerous potential applications, such as salt-fermented foods.

scholarly journals Marine microorganisms as an untapped source of bioactive compounds

2021 ◽  
Vol 28 (1) ◽  
pp. 224-231
Author(s):  
Fuad Ameen ◽  
Saleh AlNadhari ◽  
Ali A. Al-Homaidan
Keyword(s):  
Bioactive Compounds ◽  
Marine Microorganisms

Isolating and characterizing deep-sea marine microorganisms

1996 ◽  
Vol 14 (1) ◽  
pp. 6-12 ◽  
Author(s):  
Chiaki Kato ◽  
Akira Inoue ◽  
Koki Horikoshi
Keyword(s):  
Deep Sea ◽  
Marine Microorganisms

“The Chalk Wall Falls to the Foam”: Reimagining Littoral Space in the Poetry of the Dover Cliffs

2021 ◽  
Vol 73 (2) ◽  
pp. 209-224
Author(s):  
Maxwell Uphaus
Keyword(s):  
Material Composition ◽  
Matthew Arnold ◽  
Geological History ◽  
Marine Microorganisms ◽  
Human History ◽  
New Model ◽  
British Identity ◽  
The World ◽  
British Coast

Abstract Where beaches and harbors have frequently been taken to signify openness and intermingling, a different coastal setting, the cliffs of Dover, overtly bespeaks opposition and closure. Demarcating the British coast at its closest point to continental Europe, the cliffs often stand for Britain’s supposedly elemental insularity. However, the chalk composing the cliffs makes them, in their own way, as malleable and permeable as a beach. I argue that poems by Matthew Arnold, W. H. Auden, and Daljit Nagra contest the cliffs’ association with an exclusive Britishness by focusing on their material composition. In these poems, the cliffs’ chalk—formed by fossilized marine microorganisms at a time when what would become Britain was at the bottom of a prehistoric sea—attests to Britain’s geohistorical contingency. Arnold, Auden, and Nagra use this chalk geology to develop a new model of British identity as contingent, permeable, and linked with the wider world. In these poems, that is, Dover’s cliffs collapse oppositions rather than enforcing them: they blur the lines between Britain and the world, past and present, organic and inorganic, human history and geological history. The literature of the Dover cliffs thus highlights the revisionary potential of this distinctive kind of littoral space.

Evaluation of the Petrifilm Aerobic Count Plate for Enumeration of Aerobic Marine Bacteria from Seawater and Caulerpa lentillifera

2010 ◽  
Vol 73 (8) ◽  
pp. 1529-1532 ◽  
Author(s):  
JUN KUDAKA ◽  
TORU HORII ◽  
KOJI TAMANAHA ◽  
KIYOMASA ITOKAZU ◽  
MASAJI NAKAMURA ◽  
...  
Keyword(s):  
Marine Bacteria ◽  
Close Correlation ◽  
Marine Microorganisms ◽  
Marine Agar ◽  
Suitable Alternative ◽  
Edible Seaweed ◽  
Sterile Seawater ◽  
Caulerpa Lentillifera ◽  
Simple Detection ◽  
Aerobic Count Plate

The enumeration and evaluation of the activity of marine bacteria are important in the food industry. However, detection of marine bacteria in seawater or seafood has not been easy. The Petrifilm aerobic count plate (ACP) is a ready-to-use alternative to the traditional enumeration media used for bacteria associated with food. The purpose of this study was to evaluate the usefulness of a simple detection and enumeration method utilizing the Petrifilm ACP for enumeration of aerobic marine bacteria from seawater and an edible seaweed, Caulerpa lentillifera. The efficiency of enumeration of total aerobic marine bacteria on Petrifilm ACP was compared with that using the spread plate method on marine agar with 80 seawater and 64 C. lentillifera samples. With sterile seawater as the diluent, a close correlation was observed between the method utilizing Petrifilm ACP and that utilizing the conventional marine agar (r = 0.98 for seawater and 0.91 for C. lentillifera). The Petrifilm ACP method was simpler and less time-consuming than the conventional method. These results indicate that Petrifilm ACP is a suitable alternative to conventional marine agar for enumeration of marine microorganisms in seawater and C. lentillifera samples.

scholarly journals Isolation of Halophilic Bacteria from Inland Petroleum- Producing Wells

Fine Focus ◽  
2017 ◽  
Vol 3 (2) ◽  
pp. 101-110
Author(s):  
Maedgen Q. Lindsey ◽  
Jennifer R. Huddleston
Keyword(s):  
Salt Tolerance ◽  
Gene Sequence ◽  
Produced Water ◽  
High Salinity ◽  
Halophilic Bacteria ◽  
Optimal Growth ◽  
Oil Well ◽  
Marine Microorganisms ◽  
16S Rdna Gene ◽  
Mannitol Salt Agar

The goals of this study were to isolate microorganisms from oil well-produced water, identify the microorganisms, and test the microorganisms’ salt tolerance. Saltwater collected from two well locations producing from different zones in Jones County, Texas, was spread onto Mannitol Salt Agar (MSA). Isolates showed a 16S rDNA gene sequence identity of 99% with Idiomarina baltica and Marinobacter persicus. Salt tolerance assays indicated an optimal growth concentration of 10-12.5% NaCl for the Idiomarina isolate and a decrease in growth beyond 5% NaCl for the Marinobacter isolate. In conclusion, organisms that are phylogenetically similar to marine microorganisms are present in oil well environments, and have variable salt tolerances, which may prove useful in microbialmediated hydrocarbon bioremediation of high salinity environments.

scholarly journals The Report of Marine Life Genomic Research

2018 ◽  
Author(s):  
Guangyi Fan ◽  
Jianwei Chen ◽  
Tao Jin ◽  
Chengcheng Shi ◽  
Xiao Du ◽  
...  
Keyword(s):  
Recent Progress ◽  
Ethical Issues ◽  
Marine Invertebrates ◽  
Marine Species ◽  
White Paper ◽  
Genomic Research ◽  
Research Progress ◽  
Biological Research ◽  
Marine Microorganisms ◽  
Genomics Research

With the continuing development of sequencing technology, genomics has been applied in a variety of biological research areas. In particular, the application of genomics to marine species, which boast a high diversity, promises great scientific and industrial potential. Significant progress has been made in marine genomics especially over the past few years. Consequently, BGI, leveraging its prominent contributions in genomics research, established BGI-Qingdao, an institute specifically aimed at exploring marine genomics. In order to accelerate marine genomics research and related applications, BGI-Qingdao initiated the International Conference on Genomics of the Ocean (ICG-Ocean) to develop international collaborations and establish a focused and coherent global research plan. Last year, the first ICG-Ocean conference was held in Qingdao, China, during which 47 scientists in marine genomics from all over the world reported on their research progress to an audience of about 300 attendees. This year, we would like to build on that success, drafting a report on marine genomics to draw global attention to marine genomics. We summarized the recent progress, proposed future directions, and we would like to enable additional profound insights on marine genomics. Similar to the annual report on plant and fungal research by Kew Gardens, and the White Paper of ethical issues on experimental animals, we hope our first report on marine genomics can provide some useful insights for researchers, funding agencies as well as industry, and that future versions will expand upon the foundation established here in both breadth and depth of knowledge.This report summarizes the recent progress in marine genomics in six parts including: marine microorganisms, marine fungi, marine algae and plants, marine invertebrates, marine vertebrates and genomics-based applications.

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