scholarly journals Detection of hydrocarbon-degrading bacteria on deepwater corals of the northeast Atlantic using CARD-FISH

2021 ◽  
pp. 106277
Author(s):  
Haydn Frank Thompson ◽  
Tony Gutierrez
Keyword(s):  
Northeast Atlantic ◽  
Degrading Bacteria ◽  
Card Fish

scholarly journals Hydrocarbon-Degrading Bacteria Found Tightly Associated with the 50–70 μm Cell-Size Population of Eukaryotic Phytoplankton in Surface Waters of a Northeast Atlantic Region

2020 ◽  
Vol 8 (12) ◽  
pp. 1955
Author(s):  
Haydn Frank Thompson ◽  
Stephen Summers ◽  
Raif Yuecel ◽  
Tony Gutierrez
Keyword(s):  
Cell Size ◽  
Surface Waters ◽  
Sea Surface ◽  
Natural Seawater ◽  
Fluorescence In Situ Hybridisation ◽  
Hydrocarbonoclastic Bacteria ◽  
Phytoplankton Population ◽  
Northeast Atlantic ◽  
Eukaryotic Phytoplankton ◽  
Degrading Bacteria

The surface of marine eukaryotic phytoplankton can harbour communities of hydrocarbon-degrading bacteria; however, this algal–bacterial association has, hitherto, been only examined with non-axenic laboratory cultures of micro-algae. In this study, we isolated an operationally-defined community of phytoplankton, of cell size 50–70 μm, from a natural community in sea surface waters of a subarctic region in the northeast Atlantic. Using MiSeq 16S rRNA sequencing, we identified several recognized (Alcanivorax, Marinobacter, Oleispira, Porticoccus, Thalassospira) and putative hydrocarbon degraders (Colwelliaceae, Vibrionaceae) tightly associated with the phytoplankton population. We combined fluorescence in situ hybridisation with flow-cytometry (FISH-Flow) to examine the association of Marinobacter with this natural eukaryotic phytoplankton population. About 1.5% of the phytoplankton population contained tightly associated Marinobacter. The remaining Marinobacter population were loosely associated with either eukaryotic phytoplankton cells or non-chlorophyll particulate material. This work is the first to show the presence of obligate, generalist and putative hydrocarbonoclastic bacteria associated with natural populations of eukaryotic phytoplankton directly from sea surface water samples. It also highlights the suitability of FISH-Flow for future studies to examine the spatial and temporal structure and dynamics of these and other algal–bacterial associations in natural seawater samples.

scholarly journals Response and oil degradation activities of a northeast Atlantic bacterial community to biogenic and synthetic surfactants

2020 ◽  
Author(s):  
Christina Nikolova ◽  
Umer Zeeshan Ijaz ◽  
Clayton Magill ◽  
Sara Kleindienst ◽  
Samantha B. Joye ◽  
...  
Keyword(s):  
Microbial Community ◽  
Crude Oil ◽  
Functional Diversity ◽  
Community Dynamics ◽  
Negative Impact ◽  
Microbial Community Composition ◽  
Oil Degradation ◽  
Northeast Atlantic ◽  
Oil Biodegradation ◽  
Degrading Bacteria

AbstractBackgroundAlthough synthetic dispersants are effective in dispersing crude oil, they can alter the natural microbial response to oil and potentially hinder its biodegradation. Biosurfactants, however, are naturally derived products that play a similar role to synthetic dispersants in oil spill response but are easily biodegradable and less toxic. This study investigated the microbial community dynamics, ecological drivers, functional diversity, and oil biodegradation potential of a northeast Atlantic marine microbial community to crude oil when exposed to rhamnolipid or synthetic dispersant Finasol OSR52.ResultsWe found the microbial community composition and diversity were markedly different in the rhamnolipid-amended treatment compared to that with Finasol, with key aromatic hydrocarbon-degrading bacteria like Cycloclasticus being suppressed in the Finasol treatment but not in oil-only and rhamnolipid-amended treatments. Psychrophilic Colwellia and Oleispira dominated the community in both the rhamnolipid and Finasol OSR52 treatments initially but later community structure across treatments diverged significantly: Rhodobacteraceae and Vibrio dominated the Finasol-amended treatment and Colwellia, Oleispira, and later Cycloclasticus and Alcanivorax, dominated the rhamnolipid-amended treatment. Vibrio abundance increased substantially in treatments receiving Finasol, suggesting a potentially important role for these organisms in degrading dispersant components. In fact, Finasol was linked with a negative impact on alpha diversity. Deterministic environmental filtering played a dominant role in regulating the community assembly in all treatments but was strongest in the dispersant-amended treatments. Rhamnolipid-amended and oil-only treatments had the highest functional diversity, however, the overall oil biodegradation was greater in the Finasol treatment, but aromatic biodegradation was highest in the rhamnolipid treatment.ConclusionOverall, the natural marine microbial community in the northeast Atlantic responded differently to crude oil dispersed with either synthetic or biogenic surfactants over time, but oil degradation was more enhanced by the synthetic dispersant. Collectively, our results advance the understanding of how rhamnolipid biosurfactants affect the natural marine microbial community, supporting their potential application in oil spills.

scholarly journals Response and oil degradation activities of a northeast Atlantic bacterial community to biogenic and synthetic surfactants

Microbiome ◽  
2021 ◽  
Vol 9 (1) ◽  
Author(s):  
Christina N. Nikolova ◽  
Umer Zeeshan Ijaz ◽  
Clayton Magill ◽  
Sara Kleindienst ◽  
Samantha B. Joye ◽  
...  
Keyword(s):  
Microbial Community ◽  
Crude Oil ◽  
Functional Diversity ◽  
Community Dynamics ◽  
Negative Impact ◽  
Community Diversity ◽  
Oil Degradation ◽  
Northeast Atlantic ◽  
Oil Biodegradation ◽  
Degrading Bacteria

Abstract Background Biosurfactants are naturally derived products that play a similar role to synthetic dispersants in oil spill response but are easily biodegradable and less toxic. Using a combination of analytical chemistry, 16S rRNA amplicon sequencing and simulation-based approaches, this study investigated the microbial community dynamics, ecological drivers, functional diversity and robustness, and oil biodegradation potential of a northeast Atlantic marine microbial community to crude oil when exposed to rhamnolipid or synthetic dispersant Finasol OSR52. Results Psychrophilic Colwellia and Oleispira dominated the community in both the rhamnolipid and Finasol OSR52 treatments initially but later community structure across treatments diverged significantly: Rhodobacteraceae and Vibrio dominated the Finasol-amended treatment, whereas Colwellia, Oleispira, and later Cycloclasticus and Alcanivorax, dominated the rhamnolipid-amended treatment. Key aromatic hydrocarbon-degrading bacteria, like Cycloclasticus, was not observed in the Finasol treatment but it was abundant in the oil-only and rhamnolipid-amended treatments. Overall, Finasol had a significant negative impact on the community diversity, weakened the taxa-functional robustness of the community, and caused a stronger environmental filtering, more so than oil-only and rhamnolipid-amended oil treatments. Rhamnolipid-amended and oil-only treatments had the highest functional diversity, however, the overall oil biodegradation was greater in the Finasol treatment, but aromatic biodegradation was highest in the rhamnolipid treatment. Conclusion Overall, the natural marine microbial community in the northeast Atlantic responded differently to crude oil dispersed with either synthetic or biogenic surfactants over time, but oil degradation was more enhanced by the synthetic dispersant. Collectively, our results advance the understanding of how rhamnolipid biosurfactants and synthetic dispersant Finasol affect the natural marine microbial community in the FSC, supporting their potential application in oil spills.

scholarly journals Field distribution and activity of chlorinated solvents degrading bacteria by combining CARD-FISH and real time PCR

2012 ◽  
Vol 30 (1) ◽  
pp. 23-32 ◽  
Author(s):  
B. Matturro ◽  
F. Aulenta ◽  
M. Majone ◽  
M. Petrangeli Papini ◽  
V. Tandoi ◽  
...  
Keyword(s):  
Real Time ◽  
Field Distribution ◽  
Real Time Pcr ◽  
Chlorinated Solvents ◽  
Degrading Bacteria ◽  
Card Fish

scholarly journals Response and Oil Degradation Activities of a Northeast Atlantic Bacterial Community to Biogenic and Synthetic Surfactants

2021 ◽  
Author(s):  
Christina Nikolova ◽  
Umer Zeeshan Ijaz ◽  
Clayton Magill ◽  
Sara Kleindienst ◽  
Samantha B. Joye ◽  
...  
Keyword(s):  
Microbial Community ◽  
Crude Oil ◽  
Functional Diversity ◽  
Community Dynamics ◽  
Negative Impact ◽  
Community Diversity ◽  
Oil Degradation ◽  
Northeast Atlantic ◽  
Oil Biodegradation ◽  
Degrading Bacteria

Abstract Background: Biosurfactants, however, are naturally derived products that play a similar role to synthetic dispersants in oil spill response but are easily biodegradable and less toxic. Using a combination of analytical chemistry, 16S rRNA amplicon sequencing and simulation-based approaches, this study investigated the microbial community dynamics, ecological drivers, functional diversity and robustness, and oil biodegradation potential of a northeast Atlantic marine microbial community to crude oil when exposed to rhamnolipid or synthetic dispersant Finasol OSR52. Results: Psychrophilic Colwellia and Oleispira dominated the community in both the rhamnolipid and Finasol OSR52 treatments initially but later community structure across treatments diverged significantly: Rhodobacteraceae and Vibrio dominated the Finasol-amended treatment, whereas Colwellia, Oleispira, and later Cycloclasticus and Alcanivorax, dominated the rhamnolipid-amended treatment. The key aromatic hydrocarbon-degrading bacteria like Cycloclasticus was not observed in the Finasol treatment but it was abundant in the oil-only and rhamnolipid-amended treatments. Overall, Finasol had a significant negative impact on the community diversity, weakened the taxa-functional robustness of the community, and caused a stronger environmental filtering, more so than oil-only and rhamnolipid-amended oil treatments. Rhamnolipid-amended and oil-only treatments had the highest functional diversity, however, the overall oil biodegradation was greater in the Finasol treatment, but aromatic biodegradation was highest in the rhamnolipid treatment. Conclusion: Overall, the natural marine microbial community in the northeast Atlantic responded differently to crude oil dispersed with either synthetic or biogenic surfactants over time, but oil degradation was more enhanced by the synthetic dispersant. Collectively, our results advance the understanding of how rhamnolipid biosurfactants and synthetic dispersant Finasol affect the natural marine microbial community in the FSC, supporting their potential application in oil spills.

First Confirmed Record of Northern Bottlenose Whale (Hyperoodon ampullatus) in Madeira Archipelago, Northeast Atlantic

2017 ◽  
Vol 43 (5) ◽  
pp. 474-478 ◽  
Author(s):  
Rita Ferreira ◽  
Filipe Alves ◽  
Claudia Gomes ◽  
Daniel Jardim ◽  
Judith Kok ◽  
...  
Keyword(s):  
Northeast Atlantic ◽  
Madeira Archipelago ◽  
Hyperoodon Ampullatus

Genomic insights from Monoglobus pectinilyticus: a pectin-degrading specialist bacterium in the human colon

2020 ◽  
Author(s):  
CC Kim ◽  
GR Healey ◽  
WJ Kelly ◽  
ML Patchett ◽  
Z Jordens ◽  
...  
Keyword(s):  
Cell Surface ◽  
Degradation Products ◽  
Model Organism ◽  
Human Colon ◽  
Surface Proteins ◽  
Human Gut ◽  
Pectate Lyases ◽  
Unusual Distribution ◽  
Degrading Bacteria ◽  
Acetyl Esterases

© 2019, International Society for Microbial Ecology. Pectin is abundant in modern day diets, as it comprises the middle lamellae and one-third of the dry carbohydrate weight of fruit and vegetable cell walls. Currently there is no specialized model organism for studying pectin fermentation in the human colon, as our collective understanding is informed by versatile glycan-degrading bacteria rather than by specialist pectin degraders. Here we show that the genome of Monoglobus pectinilyticus possesses a highly specialized glycobiome for pectin degradation, unique amongst Firmicutes known to be in the human gut. Its genome encodes a simple set of metabolic pathways relevant to pectin sugar utilization, and its predicted glycobiome comprises an unusual distribution of carbohydrate-active enzymes (CAZymes) with numerous extracellular methyl/acetyl esterases and pectate lyases. We predict the M. pectinilyticus degradative process is facilitated by cell-surface S-layer homology (SLH) domain-containing proteins, which proteomics analysis shows are differentially expressed in response to pectin. Some of these abundant cell surface proteins of M. pectinilyticus share unique modular organizations rarely observed in human gut bacteria, featuring pectin-specific CAZyme domains and the cell wall-anchoring SLH motifs. We observed M. pectinilyticus degrades various pectins, RG-I, and galactan to produce polysaccharide degradation products (PDPs) which are presumably shared with other inhabitants of the human gut microbiome (HGM). This strain occupies a new ecological niche for a primary degrader specialized in foraging a habitually consumed plant glycan, thereby enriching our understanding of the diverse community profile of the HGM.

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