Sphingobium baderi

General Information

Sphingobium baderi is a fascinating microorganism belonging to the genus Sphingobium, which is known for its remarkable ability to degrade a wide range of complex organic compounds. One of the most intriguing aspects of Sphingobium baderi is its potential for bioremediation. This species has been studied for its capacity to break down environmental pollutants, including polycyclic aromatic hydrocarbons (PAHs) and other persistent organic pollutants (POPs). These compounds are notoriously difficult to degrade and pose significant environmental and health risks. The metabolic versatility of Sphingobium baderi is attributed to its diverse array of enzymes that can catalyze the breakdown of complex molecules. This makes it a valuable candidate for cleaning up contaminated sites, particularly those polluted with industrial waste. Its ability to transform harmful substances into less toxic forms is not only beneficial for environmental health but also offers insights into the development of new biotechnological applications. Moreover, Sphingobium baderi has been noted for its role in the nitrogen cycle, contributing to nitrogen fixation and denitrification processes. This dual functionality in both pollutant degradation and nutrient cycling underscores its ecological importance. In addition to its environmental applications, Sphingobium baderi is of interest in the field of synthetic biology. Researchers are exploring ways to harness its metabolic pathways for the biosynthesis of valuable chemicals and biofuels. The genetic and enzymatic toolkit of this microorganism provides a rich resource for engineering novel biosynthetic routes. Overall, Sphingobium baderi stands out as a key player in environmental biotechnology due to its robust degradative capabilities and its potential for innovative applications in sustainable technologies.*

Sphingobium baderi is a fascinating bacterium belonging to the family Sphingomonadaceae, known for its unique metabolic capabilities and ecological significance. This organism is particularly interesting due to its ability to degrade a variety of environmental pollutants, including aromatic compounds and xenobiotics, which makes it a valuable candidate for bioremediation efforts. Its metabolic versatility allows it to thrive in diverse environments, including contaminated soils and aquatic systems. One of the standout features of Sphingobium baderi is its capacity to utilize complex organic compounds as carbon sources, which is facilitated by its specialized enzymatic pathways. This ability not only contributes to its survival in challenging environments but also positions it as a key player in the natural degradation processes of organic pollutants. Research into its enzymatic mechanisms could provide insights into biotechnological applications for waste treatment and environmental cleanup. Additionally, Sphingobium baderi has been studied for its potential in the production of bioactive compounds, which may have pharmaceutical applications. The organism's unique lipid composition, particularly the presence of sphingolipids, adds another layer of interest, as these molecules are known to play critical roles in cell signaling and membrane structure. Understanding the biosynthetic pathways of these lipids could lead to novel discoveries in both microbiology and medicinal chemistry. Overall, Sphingobium baderi exemplifies the intersection of environmental microbiology and biotechnology, making it a subject of ongoing research aimed at harnessing its capabilities for ecological and industrial applications.

Taxonomy

Superkingdom: Bacteria

Phylum: Pseudomonadota

Class: Alphaproteobacteria

Order: Sphingomonadales

Family: Sphingomonadaceae

Genus: Sphingobium

Species: Sphingobium baderi

NCBI ID

1332080

Genome Info

FTP Path:
ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/456/115/GCF_001456115.1_ASM145611v1

File for sequence-based predictions:
GCF_001456115.1_ASM145611v1_genomic.fasta

Descriptions

Clinical Implications and Relevance

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

The bacterium Sphingobium baderi is a member of the Sphingomonadaceae family and has garnered attention for its potential clinical implications, particularly in the context of environmental microbiology and bioremediation. While not traditionally associated with human disease, its relevance lies in its ability to degrade various environmental pollutants, which can indirectly impact human health by contributing to cleaner ecosystems. Clinical studies have shown that certain strains of Sphingobium can metabolize toxic compounds, such as polycyclic aromatic hydrocarbons (PAHs), which are known carcinogens. This bioremediation capability suggests a potential role in reducing the risk of environmental exposure to harmful substances, thereby promoting public health. However, the pathogenicity of Sphingobium baderi is not well-documented, and there are currently no known associations with human infections or disease in the literature. Its interactions with the human body are primarily of interest in the context of environmental exposure rather than direct infection. In terms of antimicrobial resistance, there is limited information available regarding Sphingobium baderi, but its environmental adaptability may suggest a potential for resistance mechanisms, particularly in polluted environments where it coexists with other microbial populations. Overall, while Sphingobium baderi does not have direct clinical implications in terms of disease, its role in bioremediation and environmental health underscores its importance in the broader context of public health and safety.

Habitat and Ecological Niches

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

Sphingobium baderi is a bacterium that thrives in a variety of aquatic environments, particularly in freshwater ecosystems and sediment layers. This microorganism is often found in areas with high organic matter, where it plays a crucial role in the degradation of complex organic compounds, contributing to nutrient cycling within these biomes. Its ability to metabolize aromatic compounds makes it particularly significant in polluted waters, where it aids in bioremediation processes by breaking down harmful substances. In addition to its role in nutrient cycling, Sphingobium baderi exhibits notable interactions with other microorganisms, often engaging in synergistic relationships that enhance the degradation of pollutants. This symbiotic behavior can be observed in biofilm communities, where it collaborates with other bacteria to improve the efficiency of organic matter breakdown. Furthermore, Sphingobium baderi demonstrates remarkable environmental adaptability, allowing it to survive in varying conditions, including fluctuations in temperature and pH levels. This adaptability is essential for its persistence in dynamic ecosystems, where it can quickly respond to changes in environmental conditions, ensuring its continued role in maintaining ecological balance.

Industrial Application

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

The microorganism Sphingobium baderi has shown significant potential in various industrial applications, particularly in the fields of biotechnology, waste management, and bioremediation. This bacterium is known for its ability to degrade a wide range of environmental pollutants, making it a valuable asset in waste treatment processes. For instance, Sphingobium baderi can effectively break down aromatic compounds, which are often found in industrial waste, thus contributing to the detoxification of contaminated sites. In the realm of biofuel production, Sphingobium baderi has been studied for its capacity to convert lignocellulosic biomass into fermentable sugars through enzymatic activity. This process is crucial for the development of sustainable biofuels, as it allows for the utilization of agricultural waste and other non-food biomass sources. Moreover, the organism's unique metabolic pathways have implications in pharmaceutical development, where it can be harnessed for the production of valuable metabolites through fermentation. The ability of Sphingobium baderi to produce specific enzymes can also be exploited in various biotechnological applications, including the synthesis of pharmaceuticals and other bioactive compounds. Overall, Sphingobium baderi represents a promising candidate for advancing green technologies and enhancing the efficiency of industrial processes aimed at environmental sustainability.

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: 8

LLM predicted phenotypes: 5

Phenotype	High-quality annotation	anthropic/claude-3.5-sonnet	google/gemini-flash-1.5	google/gemma-7b-it	anthropic/claude-3-haiku:beta	perplexity/llama-3-sonar-small-32k-chat	microsoft/phi-3-mini-128k-instruct	mistralai/mixtral-8x7b-instruct:nitro	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	openai/gpt-4	openai/gpt-4	meta-llama/llama-3-70b-instruct:nitro	meta-llama/llama-3-70b-instruct:nitro	microsoft/wizardlm-2-8x22b	microsoft/wizardlm-2-8x22b	meta-llama/llama-3-8b-instruct:nitro	meta-llama/llama-3-8b-instruct:nitro	google/palm-2-chat-bison-32k	google/palm-2-chat-bison-32k	openchat/openchat-7b	openchat/openchat-7b	mistralai/mistral-7b-instruct	mistralai/mistral-7b-instruct
Motility	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
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	aerobic ✓	N/A	N/A	N/A	N/A	N/A	N/A	N/A	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A
Extreme environment tolerance	FALSE	false ✓	false ✓	true ✗	true ✗	false ✓	true ✗	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
Biofilm formation	FALSE	true ✗	true ✗	true ✗	true ✗	true ✗	false ✓	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓
Animal 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 ✓
Biosafety level	N/A	biosafety level 1	biosafety level 1	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 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
Health association	N/A	false	true	true	true	true	false	true	false	false	false	false	false	false	false	false	false	true	true	true	true	true	true	false	false	false	false	false	false
Host association	FALSE	false ✓	true ✗	false ✓	false ✓	true ✗	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
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	N/A	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	N/A	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	N/A	N/A	N/A	N/A
Cell shape	bacillus	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	coccus ✗	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	bacillus ✓	coccus ✗	coccus ✗	bacillus ✓	bacillus ✓

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