Enterobacter dykesii

General Information

Enterobacter dykesii is a member of the Enterobacter genus, which is known for its diverse metabolic capabilities and adaptability to various environments. One of the most interesting aspects of E. dykesii is its potential role in bioremediation. This organism has been studied for its ability to degrade various environmental pollutants, making it a valuable candidate for cleaning up contaminated sites. Additionally, Enterobacter dykesii has been found in a variety of ecological niches, including soil, water, and the gastrointestinal tracts of animals. This versatility highlights its robust nature and adaptability, which are key traits for survival in fluctuating environments. From a research perspective, E. dykesii is also notable for its interactions with plants. Some studies suggest that it can promote plant growth by producing phytohormones and solubilizing phosphate, which are essential for plant nutrition. This makes it a potential candidate for use in sustainable agriculture practices. Another significant feature of Enterobacter dykesii is its resistance to multiple antibiotics. This characteristic is particularly important in the context of clinical microbiology and public health, as it poses challenges for treatment and necessitates ongoing research into novel antimicrobial strategies. In summary, Enterobacter dykesii is a microorganism of considerable interest due to its environmental versatility, potential applications in bioremediation and agriculture, and its implications in antibiotic resistance research. These attributes make it a valuable subject for ongoing scientific investigation.

Enterobacter dykesii is a fascinating member of the Enterobacter genus, notable for its versatile metabolic capabilities. This organism has been isolated from various environmental sources, including soil and water, which highlights its adaptability to different ecological niches. One of the most interesting aspects of E. dykesii is its potential role in bioremediation, as it can degrade a variety of pollutants, making it a valuable candidate for environmental cleanup efforts. Additionally, E. dykesii has been studied for its antimicrobial resistance mechanisms, providing insights into how bacteria can survive in the presence of antibiotics. This characteristic is particularly important in the context of rising antibiotic resistance, as understanding these mechanisms can inform the development of new therapeutic strategies. Furthermore, research on E. dykesii contributes to our understanding of microbial diversity and the ecological roles of Enterobacter species in various habitats. Its ability to thrive in diverse environments makes it a subject of interest for studies on microbial ecology and evolution. Overall, Enterobacter dykesii stands out not only for its environmental significance but also for its implications in public health and biotechnology.

Taxonomy

Superkingdom: Bacteria

Phylum: Pseudomonadota

Class: Gammaproteobacteria

Order: Enterobacterales

Family: Enterobacteriaceae

Genus: Enterobacter

Species: Enterobacter dykesii

NCBI ID

2797506

Genome Info

FTP Path:
ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/597/265/GCA_018597265.1_ASM1859726v1

File for sequence-based predictions:
GCA_018597265.1_ASM1859726v1_genomic.fasta

Descriptions

Clinical Implications and Relevance

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

The organism Enterobacter dykesii is a member of the Enterobacter genus, which is known for its clinical significance in human health. It has been associated with various infections, particularly in immunocompromised patients. Urinary tract infections (UTIs) and wound infections are among the most common clinical manifestations linked to E. dykesii. This organism can exhibit pathogenicity through its ability to form biofilms, which enhances its survival in hostile environments and contributes to chronic infections. One of the notable concerns regarding E. dykesii is its potential for antimicrobial resistance. Strains of this organism have been documented to possess resistance mechanisms against multiple classes of antibiotics, including beta-lactams and aminoglycosides. This resistance complicates treatment options and poses a significant challenge in clinical settings, particularly in hospitals where such infections are more prevalent. In terms of immune evasion, E. dykesii can produce various virulence factors that help it evade the host's immune response, such as capsule formation and the secretion of enzymes that degrade host tissues. These strategies not only facilitate colonization but also contribute to the severity of the infections it causes. While E. dykesii is not commonly recognized as a primary pathogen, its role in nosocomial infections and its association with antibiotic resistance highlight the need for ongoing surveillance and research. Understanding its clinical implications is crucial for developing effective treatment protocols and infection control measures in healthcare settings.

Habitat and Ecological Niches

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

Enterobacter dykesii is a bacterium commonly associated with various habitat types that include both natural and anthropogenic environments. This microorganism is often found in soil and water ecosystems, particularly in areas rich in organic matter. Its presence is frequently noted in agricultural soils, where it plays a significant role in nutrient cycling and organic matter decomposition. This bacterium contributes to soil fertility by breaking down complex organic compounds, thus making nutrients more available to plants. In addition to terrestrial environments, Enterobacter dykesii has been isolated from freshwater systems, where it can thrive in nutrient-rich conditions. In these aquatic habitats, it may participate in the degradation of organic pollutants, showcasing its potential in bioremediation efforts. Furthermore, Enterobacter dykesii is known to exhibit symbiotic relationships with certain plants, enhancing their growth by promoting nutrient uptake. This interaction highlights its importance in agricultural ecosystems, where it can improve crop yields and soil health. Overall, Enterobacter dykesii is a versatile microorganism that thrives in diverse biomes, contributing to ecological balance and sustainability through its various roles in nutrient cycling, organic matter decomposition, and plant interactions.

Industrial Application

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

The microorganism Enterobacter dykesii has shown significant potential in various industrial applications. One of the primary areas of interest is in biotechnology, where Enterobacter dykesii is utilized for its ability to perform fermentation processes. This organism can convert sugars into organic acids, alcohols, and gases, making it valuable in the production of biofuels such as ethanol. Its metabolic pathways can be harnessed to optimize the yield of biofuels from agricultural waste, contributing to sustainable energy solutions. In the realm of waste management, Enterobacter dykesii has demonstrated capabilities in biodegradation of pollutants. It can break down complex organic compounds, including those found in industrial effluents, thus aiding in the treatment of wastewater. This property is particularly useful in bioremediation efforts, where the microorganism can help restore contaminated environments by degrading harmful substances. Furthermore, Enterobacter dykesii is being explored for its potential in pharmaceutical development. The organism is known to produce various enzymes that can be utilized in the synthesis of pharmaceutical compounds. These enzymes can facilitate enzyme production processes that are essential for the development of drugs, particularly in the synthesis of chiral intermediates, which are crucial in the pharmaceutical industry. Overall, Enterobacter dykesii represents a versatile microorganism with applications spanning biotechnology, waste management, and pharmaceutical development, showcasing its importance in modern industrial processes.

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

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