Shewanella oncorhynchi

General Information

Shewanella oncorhynchi is a fascinating microorganism that belongs to the genus Shewanella, which is well-known for its diverse metabolic capabilities and environmental versatility. One of the most intriguing aspects of S. oncorhynchi is its ability to reduce a wide range of electron acceptors, including metals, which makes it a subject of significant interest in the field of bioremediation. This species has shown potential in the bioremediation of environments contaminated with heavy metals and radioactive materials, due to its capacity to transform these substances into less toxic forms. Another unique feature of Shewanella oncorhynchi is its role in the spoilage of fish, particularly salmon, from which it was originally isolated. This characteristic is important for the food industry, as understanding the mechanisms of spoilage can lead to better preservation techniques and improved food safety. From a research perspective, S. oncorhynchi is valuable for studying microbial ecology and evolution, especially in aquatic environments. Its ability to thrive in diverse and often extreme conditions provides insights into microbial adaptability and survival strategies. Additionally, the metabolic flexibility of S. oncorhynchi makes it a model organism for studying electron transport systems and energy conservation mechanisms in bacteria. In summary, Shewanella oncorhynchi is a microorganism of considerable interest due to its bioremediation potential, its impact on food spoilage, and its contributions to our understanding of microbial metabolism and ecology. These characteristics make it a valuable subject for ongoing and future research in various scientific fields.

Shewanella oncorhynchi is a fascinating marine bacterium primarily isolated from the skin and gills of fish, particularly salmon. This organism is notable for its capability to reduce a variety of electron acceptors, including metals and other compounds, which makes it a subject of interest in bioremediation studies. Its unique metabolic pathways allow it to thrive in environments with limited oxygen, utilizing alternative electron acceptors, which is a significant adaptation for survival in deep-sea habitats. One of the most intriguing aspects of Shewanella oncorhynchi is its potential in biotechnological applications. The bacterium is known for its ability to produce extracellular electron transfer, which can be harnessed in microbial fuel cells, offering a sustainable energy source. This characteristic is particularly valuable in the context of renewable energy research, as it opens avenues for developing efficient bioenergy systems. Additionally, Shewanella oncorhynchi has garnered attention for its role in the fish microbiome, contributing to the health and disease resistance of its aquatic hosts. Understanding its interactions within the microbiome can provide insights into fish health management and aquaculture practices. Furthermore, the organism's genetic and metabolic diversity makes it a model for studying the evolution of metabolic pathways in response to environmental pressures. Researchers are keen to explore its genome to uncover the genetic basis of its unique metabolic capabilities, which could lead to advancements in synthetic biology and environmental microbiology. In summary, Shewanella oncorhynchi stands out due to its versatile metabolism, biotechnological potential, and ecological significance, making it a valuable organism for ongoing research in various scientific fields.

Taxonomy

Superkingdom: Bacteria

Phylum: Pseudomonadota

Class: Gammaproteobacteria

Order: Alteromonadales

Family: Shewanellaceae

Genus: Shewanella

Species: Shewanella oncorhynchi

NCBI ID

2726434

Genome Info

FTP Path:
ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/848/765/GCF_030848765.1_ASM3084876v1

File for sequence-based predictions:
GCF_030848765.1_ASM3084876v1_genomic.fasta

Descriptions

Clinical Implications and Relevance

Source: gpt-4o-mini-2024-07-18

The organism Shewanella oncorhynchi is a gram-negative bacterium primarily associated with fish, particularly salmonids. Its clinical relevance has been increasingly recognized in the context of infections in both aquatic and terrestrial environments. While it is not a common human pathogen, there have been documented cases of infections in immunocompromised individuals, leading to wound infections and septicemia. The organism's ability to thrive in diverse environments suggests a potential role in opportunistic infections, particularly in patients with underlying health conditions or compromised immune systems. One of the notable features of Shewanella oncorhynchi is its antimicrobial resistance profile. It has shown resistance to multiple classes of antibiotics, which complicates treatment options for infections. This resistance is often attributed to the presence of plasmids and other genetic elements that facilitate the acquisition of resistance genes. Understanding the mechanisms of antimicrobial resistance in this organism is crucial for developing effective therapeutic strategies. In terms of human health, Shewanella oncorhynchi has been studied for its potential applications in biotechnology, particularly in bioremediation and bioenergy production. Its metabolic capabilities allow it to reduce metals and degrade organic pollutants, which could have implications for environmental health. Overall, while Shewanella oncorhynchi is not a primary pathogen, its role in infections, potential for antimicrobial resistance, and biotechnological applications underscore its significance in both clinical and environmental contexts.

Industrial Application

Source: gpt-4o-mini-2024-07-18

The microorganism Shewanella oncorhynchi has shown significant potential in various industrial applications due to its unique metabolic capabilities. One of the most notable areas is in biotechnology, where S. oncorhynchi is utilized in fermentation processes to produce valuable metabolites. This organism can reduce metal ions, making it useful in bioremediation efforts to detoxify environments contaminated with heavy metals, thus playing a crucial role in waste management. In the realm of biofuel production, S. oncorhynchi has been studied for its ability to convert organic substrates into biofuels through anaerobic fermentation. This process not only helps in generating renewable energy but also contributes to reducing waste. Furthermore, the enzymatic activities of S. oncorhynchi are being explored for pharmaceutical development, particularly in the production of enzymes that can be used in drug synthesis or as biocatalysts in various chemical reactions. The organism's ability to thrive in diverse environments also makes it a candidate for applications in environmental biotechnology, where it can assist in the degradation of pollutants through biodegradation. Overall, Shewanella oncorhynchi represents a versatile microorganism with promising applications across multiple industries.

Phenotypes and Predictions

The table shows the phenotypes and predictions. Cell colors indicate the class of the value. When literature-based data is available, a checkmark (✓) indicates a correct prediction, while an ✗ indicates an incorrect prediction.

Literature-based phenotypes: 9

LLM predicted phenotypes: 4

Phenotype	High-quality annotation	google/gemini-pro-1.5	anthropic/claude-3.5-sonnet	google/gemini-flash-1.5	anthropic/claude-3-haiku:beta	meta-llama/llama-3-8b-instruct:nitro	meta-llama/llama-3-70b-instruct:nitro	openchat/openchat-7b	microsoft/wizardlm-2-8x22b	openai/gpt-3.5-turbo-0125	openai/gpt-3.5-turbo-0125	mistralai/mixtral-8x7b-instruct:nitro	mistralai/mixtral-8x7b-instruct:nitro	openai/gpt-4o	openai/gpt-4o	google/palm-2-chat-bison-32k	google/palm-2-chat-bison-32k	openai/gpt-4	openai/gpt-4	perplexity/llama-3-sonar-small-32k-chat	perplexity/llama-3-sonar-small-32k-chat	google/gemma-7b-it	google/gemma-7b-it	microsoft/phi-3-mini-128k-instruct	microsoft/phi-3-mini-128k-instruct	mistralai/mistral-7b-instruct	mistralai/mistral-7b-instruct	google/gemini-pro	google/gemini-pro
Motility	TRUE	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓
Gram staining	gram stain negative	gram stain negative ✓	gram stain negative ✓	gram stain negative ✓	gram stain negative ✓	gram stain negative ✓	gram stain negative ✓	gram stain negative ✓	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓	N/A	gram stain negative ✓
Aerophilicity	aerobic	facultatively anaerobic ✗	N/A	N/A	N/A	N/A	N/A	N/A	N/A	facultatively anaerobic ✗	facultatively anaerobic ✗	facultatively anaerobic ✗	facultatively anaerobic ✗	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A
Extreme environment tolerance	FALSE	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	false ✓	true ✗	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓
Biofilm formation	N/A	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true
Animal pathogenicity	TRUE	true ✓	true ✓	true ✓	true ✓	false ✗	false ✗	false ✗	true ✓	false ✗	false ✗	false ✗	false ✗	false ✗	false ✗	false ✗	false ✗	false ✗	false ✗	true ✓	true ✓	true ✓	true ✓	false ✗	false ✗	true ✓	true ✓	true ✓	true ✓
Biosafety level	N/A	biosafety level 2	biosafety level 2	biosafety level 2	biosafety level 2	biosafety level 2	biosafety level 1	biosafety level 2	biosafety level 2	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 1	biosafety level 2	biosafety level 2	biosafety level 1	biosafety level 1	biosafety level 2	biosafety level 2	biosafety level 2	biosafety level 2
Health association	N/A	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	false	false	true	true	true	true
Host association	FALSE	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓	false ✓	true ✗	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗
Plant pathogenicity	FALSE	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
Spore formation	FALSE	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
Hemolysis	N/A	beta	beta	gamma	beta	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A
Cell shape	bacillus	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	spirillum ✗	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	spirillum ✗	spirillum ✗	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓

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