Amycolatopsis vancoresmycina

General Information

Amycolatopsis vancoresmycina is a fascinating microorganism belonging to the genus Amycolatopsis. This bacterium is particularly notable for its production of the antibiotic vancoresmycin, which has shown significant activity against Gram-positive bacteria, including methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant enterococci (VRE). The discovery of vancoresmycin has sparked interest in A. vancoresmycina as a potential source of new antimicrobial agents, especially in the context of rising antibiotic resistance. One of the unique aspects of A. vancoresmycina is its ability to produce a complex array of secondary metabolites. These compounds are not only important for their antimicrobial properties but also provide insights into the metabolic pathways and genetic regulation within the bacterium. The study of these pathways can lead to the development of novel drugs and therapeutic strategies. Additionally, A. vancoresmycina has been a subject of interest due to its unusual cell wall structure and unique enzymatic capabilities. These features make it an excellent model organism for studying bacterial physiology and biochemistry. Researchers are particularly interested in the enzymes involved in the biosynthesis of its cell wall components, as these enzymes could be targets for new antibiotics. In summary, Amycolatopsis vancoresmycina is a microorganism of significant scientific interest due to its antibiotic production, diverse secondary metabolites, and unique biochemical properties. Its study not only contributes to our understanding of microbial ecology and evolution but also holds promise for the development of new antimicrobial therapies.

Amycolatopsis vancoresmycina is a fascinating actinobacterium known for its remarkable ability to produce a variety of bioactive compounds, particularly antibiotics. This organism is part of the Amycolatopsis genus, which is recognized for its diverse metabolic capabilities and its role in natural product biosynthesis. One of the most notable features of A. vancoresmycina is its production of the antibiotic vancoresmycin, which has shown efficacy against certain bacterial infections, making it a valuable candidate for pharmaceutical research and development. The ecological niche of A. vancoresmycina is also of interest; it is typically isolated from soil environments, where it plays a crucial role in the degradation of organic matter and contributes to nutrient cycling. This ability to thrive in diverse habitats underscores its adaptability and potential for biotechnological applications. Furthermore, the genetic and biochemical pathways involved in the synthesis of its secondary metabolites are a subject of ongoing research. Understanding these pathways can lead to the discovery of new antibiotics and other therapeutic agents, which is particularly important in the context of rising antibiotic resistance. The genomic analysis of A. vancoresmycina has revealed insights into its biosynthetic gene clusters, which are essential for the production of its unique compounds. In summary, Amycolatopsis vancoresmycina stands out not only for its antibiotic production but also for its ecological significance and potential contributions to drug discovery, making it a valuable organism in microbiological and pharmaceutical research.

Taxonomy

Superkingdom: Bacteria

Phylum: Actinomycetota

Class: Actinomycetes

Order: Pseudonocardiales

Family: Pseudonocardiaceae

Genus: Amycolatopsis

Species: Amycolatopsis vancoresmycina

NCBI ID

208444

Genome Info

FTP Path:
ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/716/785/GCA_000716785.1_ASM71678v1

File for sequence-based predictions:
GCA_000716785.1_ASM71678v1_genomic.fasta

Descriptions

Clinical Implications and Relevance

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

The bacterium Amycolatopsis vancoresmycina is known for its significant role in the production of the antibiotic vancomycin, which is crucial in treating serious infections caused by Gram-positive bacteria, particularly those resistant to other antibiotics. This organism is part of the actinobacteria phylum and is primarily found in soil and decaying organic matter, contributing to its ecological importance. In clinical settings, Amycolatopsis vancoresmycina has been studied for its pathogenic potential, although it is not commonly associated with human disease. However, its close relation to other actinobacteria raises concerns regarding antimicrobial resistance mechanisms, especially in the context of vancomycin-resistant strains of bacteria. The emergence of such resistance poses a significant challenge in treating infections that are traditionally managed with vancomycin, leading to increased morbidity and mortality rates in affected patients. Furthermore, the organism's ability to produce vancomycin has implications for therapeutics, as it can be harnessed for the development of new antibiotics or modified versions of existing ones to combat resistant pathogens. Research into the genetic and biochemical pathways of Amycolatopsis vancoresmycina may provide insights into novel strategies for overcoming immune evasion tactics employed by pathogenic bacteria. Overall, while Amycolatopsis vancoresmycina is not a primary pathogen, its role in antibiotic production and the implications of its resistance mechanisms make it a significant organism in the field of microbiology and infectious disease management.

Habitat and Ecological Niches

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

Amycolatopsis vancoresmycina is a species of actinobacteria that is primarily associated with soil ecosystems and marine environments. This microorganism thrives in nutrient-rich substrates, often found in decaying organic matter, where it plays a crucial role in the decomposition process. Its ability to degrade complex organic compounds makes it an important player in nutrient cycling within these biomes. Soil Ecosystems: In terrestrial habitats, A. vancoresmycina is commonly found in agricultural soils and forest floors, where it contributes to soil health by breaking down organic materials and enhancing soil fertility. The presence of this bacterium can improve the availability of nutrients for plants, thus supporting the overall productivity of the ecosystem. Marine Environments: This microorganism has also been isolated from marine sediments, indicating its adaptability to saline conditions. In these environments, A. vancoresmycina may engage in symbiotic relationships with other microorganisms, contributing to the microbial diversity and functioning of the marine ecosystem. Its metabolic capabilities allow it to utilize various substrates, which can be crucial for nutrient cycling in these aquatic habitats. Overall, Amycolatopsis vancoresmycina exemplifies the intricate relationships within its biomes, showcasing its role in decomposition, nutrient cycling, and symbiotic interactions that are vital for maintaining ecological balance.

Industrial Application

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

The microorganism Amycolatopsis vancoresmycina has shown significant potential in various industrial applications. One of the most notable areas is in biotechnology, where it is utilized for the production of antibiotics. This organism is known for its ability to produce a range of bioactive compounds, including the antibiotic vancomycin, which is crucial in treating serious bacterial infections. The process of fermentation is key here, as Amycolatopsis vancoresmycina can be cultured in specific conditions to maximize antibiotic yield. In the realm of waste management, Amycolatopsis vancoresmycina has demonstrated capabilities in biodegradation, particularly in breaking down complex organic materials. This property can be harnessed for the treatment of wastewater, where the microorganism can help in the degradation of pollutants, thus contributing to cleaner water systems. Furthermore, the organism's enzymatic activity is of interest in biofuel production. It can be involved in the breakdown of lignocellulosic biomass, facilitating the conversion of plant materials into fermentable sugars, which can then be transformed into biofuels through subsequent fermentation processes. This application is particularly relevant in the pursuit of sustainable energy sources. Lastly, in pharmaceutical development, the unique metabolic pathways of Amycolatopsis vancoresmycina can be explored for the discovery of new drugs. Its ability to produce various secondary metabolites makes it a valuable candidate for research into novel therapeutic agents. Overall, Amycolatopsis vancoresmycina stands out as 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	meta-llama/llama-3-8b-instruct:nitro	google/palm-2-chat-bison-32k	mistralai/mistral-7b-instruct	anthropic/claude-3-haiku:beta	perplexity/llama-3-sonar-small-32k-chat	google/gemma-7b-it	openchat/openchat-7b	microsoft/phi-3-mini-128k-instruct	mistralai/mixtral-8x7b-instruct:nitro	openai/gpt-3.5-turbo-0125	openai/gpt-3.5-turbo-0125	openai/gpt-4o	openai/gpt-4o	anthropic/claude-3.5-sonnet	anthropic/claude-3.5-sonnet	openai/gpt-4	openai/gpt-4	google/gemini-flash-1.5	google/gemini-flash-1.5	meta-llama/llama-3-70b-instruct:nitro	meta-llama/llama-3-70b-instruct:nitro	microsoft/wizardlm-2-8x22b	microsoft/wizardlm-2-8x22b	google/gemini-pro	google/gemini-pro
Motility	FALSE	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
Gram staining	gram stain positive	gram stain positive ✓	gram stain positive ✓	gram stain positive ✓	gram stain variable ✗	gram stain positive ✓	gram stain positive ✓	gram stain variable ✗	gram stain positive ✓	gram stain negative ✗	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓
Aerophilicity	aerobic	aerobic ✓	aerotolerant ✗	aerobic ✓	aerotolerant ✗	N/A	N/A	N/A	N/A	N/A	N/A	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	N/A	N/A	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓
Extreme environment tolerance	FALSE	true ✗	false ✓	false ✓	false ✓	true ✗	true ✗	true ✗	false ✓	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓
Biofilm formation	N/A	false	true	true	false	true	true	true	false	true	true	true	true	true	true	true	true	false	false	true	true	false	false	true	true	true	true
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 ✓	true ✗	true ✗	false ✓	false ✓
Biosafety level	biosafety level 1	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 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	false	true	false	true	true	false	false	false	false	false	false	false	false	false	false	false	false	false	false	false	false	true	true	true	true
Host association	FALSE	true ✗	false ✓	false ✓	true ✗	false ✓	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	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 ✓
Spore formation	TRUE	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	false ✗	false ✗	false ✗	true ✓	true ✓	true ✓	false ✗	false ✗	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓
Hemolysis	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	gamma	gamma	N/A	N/A	N/A	N/A	N/A	N/A
Cell shape	N/A	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus	bacillus

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