Amycolatopsis dendrobii

General Information

Amycolatopsis dendrobii is a fascinating microorganism belonging to the genus Amycolatopsis, which is renowned for its ability to produce a wide array of bioactive compounds. One of the most intriguing aspects of A. dendrobii is its potential in the field of biotechnology and pharmaceuticals. This species has been isolated from the roots of the orchid Dendrobium, which is notable because orchids are known for their complex symbiotic relationships with microorganisms. The genus Amycolatopsis is well-known for its production of antibiotics, including the clinically important vancomycin. While specific antibiotic compounds produced by A. dendrobii are still under investigation, the genus's track record suggests that this species could be a valuable source of new antimicrobial agents. Additionally, A. dendrobii has shown promise in the degradation of complex organic materials, making it a candidate for applications in bioremediation. The ability to break down pollutants and other harmful substances highlights its environmental significance. From a research perspective, A. dendrobii offers a unique opportunity to explore the symbiotic relationships between plants and microorganisms. Understanding these interactions can lead to advancements in agricultural biotechnology, such as the development of biofertilizers or biopesticides that enhance plant growth and health. In summary, Amycolatopsis dendrobii is a microorganism of significant interest due to its potential in antibiotic production, bioremediation, and agricultural biotechnology. Its unique origin from orchid roots adds an additional layer of intrigue, making it a valuable subject for further scientific exploration.

Amycolatopsis dendrobii is a fascinating actinobacterium that has garnered attention due to its unique ecological niche and potential biotechnological applications. This microorganism is primarily isolated from decaying wood and soil, showcasing its role in the decomposition process and nutrient cycling within forest ecosystems. Its ability to thrive in such environments highlights its adaptability and ecological significance. One of the most interesting aspects of A. dendrobii is its capacity to produce a variety of bioactive compounds, including antibiotics and enzymes. These metabolites are of great interest in pharmaceutical research, as they may lead to the discovery of new drugs to combat antibiotic-resistant bacteria. The potential for novel antibiotic discovery makes A. dendrobii a valuable organism in the ongoing search for effective antimicrobial agents. Additionally, A. dendrobii has been studied for its role in bioremediation, particularly in the degradation of complex organic pollutants. Its enzymatic capabilities allow it to break down various environmental contaminants, making it a candidate for use in cleaning up polluted sites. This bioremediation potential underscores the importance of A. dendrobii in environmental biotechnology. Overall, Amycolatopsis dendrobii stands out not only for its ecological role but also for its promising applications in medicine and environmental science, making it a subject of ongoing research and interest in microbiology.

Taxonomy

Superkingdom: Bacteria

Phylum: Actinomycetota

Class: Actinomycetes

Order: Pseudonocardiales

Family: Pseudonocardiaceae

Genus: Amycolatopsis

Species: Amycolatopsis dendrobii

NCBI ID

2760662

Genome Info

FTP Path:
ftp.ncbi.nlm.nih.gov/genomes/all/GCA/014/145/675/GCA_014145675.1_ASM1414567v1

File for sequence-based predictions:
GCA_014145675.1_ASM1414567v1_genomic.fasta

Descriptions

Clinical Implications and Relevance

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

The microorganism Amycolatopsis dendrobii is a member of the Actinobacteria phylum and is primarily known for its role in the production of bioactive compounds, particularly antibiotics. While it is not commonly associated with human infections, its clinical relevance lies in its potential applications in antimicrobial therapy and biotechnology. The organism has been studied for its ability to produce various secondary metabolites, which may have implications in the development of new therapeutics against resistant bacterial strains. In terms of pathogenicity, Amycolatopsis dendrobii is generally considered non-pathogenic; however, its close relatives within the Actinobacteria group can be opportunistic pathogens in immunocompromised individuals. This highlights the importance of understanding the ecological niche and interactions of Amycolatopsis dendrobii within the human microbiome. Furthermore, the organism's ability to produce enzymes and other metabolites may have applications in probiotics and bioremediation, although these uses are still under investigation. Its role in immune response modulation is also an area of interest, as certain Actinobacteria are known to influence host immunity positively. Overall, while Amycolatopsis dendrobii is not directly linked to specific diseases or outbreaks, its potential in antimicrobial resistance research and therapeutic development makes it a significant organism in the field of microbiology and medicine.

Habitat and Ecological Niches

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

Amycolatopsis dendrobii is a species of actinobacteria that is primarily associated with decaying plant material and soil environments. This microorganism thrives in terrestrial biomes, particularly in areas rich in organic matter, such as forests and grasslands. Its ability to degrade complex organic compounds allows it to play a crucial role in nutrient cycling within these ecosystems. In its natural habitat, A. dendrobii is often found in association with decaying wood and leaf litter, where it contributes to the breakdown of cellulose and lignin. This process not only aids in the decomposition of organic matter but also enhances soil fertility by releasing essential nutrients back into the soil. Furthermore, A. dendrobii exhibits notable interactions with other microorganisms, including symbiotic relationships with fungi and other bacteria. These interactions can enhance the degradation processes and promote a diverse microbial community, which is vital for maintaining the health of the ecosystem. In summary, Amycolatopsis dendrobii is an important player in forest and grassland biomes, contributing to the decomposition of organic materials and supporting the overall ecological balance through its interactions with other organisms.

Industrial Application

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

The microorganism Amycolatopsis dendrobii 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 and other bioactive compounds. This organism is known for its ability to produce a range of secondary metabolites, which can be harnessed in the development of pharmaceuticals. For instance, it has been documented to produce compounds that exhibit antimicrobial properties, making it a candidate for further research in pharmaceutical development. In the realm of waste management, Amycolatopsis dendrobii has demonstrated capabilities in biodegradation, particularly in the breakdown of complex organic materials. This characteristic can be leveraged in the treatment of waste, where the microorganism can help in the decomposition of pollutants, thus contributing to more sustainable waste management practices. Additionally, Amycolatopsis dendrobii has potential applications in biofuel production. Its metabolic pathways can be explored for the conversion of biomass into biofuels, particularly through fermentation processes. This could provide an eco-friendly alternative to fossil fuels, aligning with global efforts to reduce carbon emissions. Overall, Amycolatopsis dendrobii stands out as a versatile microorganism with promising applications in biotechnology, waste management, and biofuel production, showcasing its importance in advancing industrial processes and 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	google/gemini-flash-1.5	meta-llama/llama-3-70b-instruct:nitro	google/gemini-pro	google/gemma-7b-it	openchat/openchat-7b	mistralai/mixtral-8x7b-instruct:nitro	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	anthropic/claude-3.5-sonnet	anthropic/claude-3.5-sonnet	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	openai/gpt-4	openai/gpt-4	microsoft/wizardlm-2-8x22b	microsoft/wizardlm-2-8x22b	anthropic/claude-3-haiku:beta	anthropic/claude-3-haiku:beta	perplexity/llama-3-sonar-small-32k-chat	perplexity/llama-3-sonar-small-32k-chat	microsoft/phi-3-mini-128k-instruct	microsoft/phi-3-mini-128k-instruct	mistralai/mistral-7b-instruct	mistralai/mistral-7b-instruct
Motility	FALSE	false ✓	false ✓	false ✓	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 ✓
Gram staining	gram stain positive	gram stain positive ✓	gram stain positive ✓	gram stain positive ✓	gram stain variable ✗	gram stain positive ✓	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 ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain variable ✗
Aerophilicity	aerobic	N/A	aerobic ✓	aerobic ✓	N/A	N/A	N/A	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerobic ✓	aerotolerant ✗	aerotolerant ✗	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	true ✗	false ✓	false ✓	true ✗	false ✓	true ✗	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗
Biofilm formation	N/A	true	false	true	true	false	true	true	true	true	true	false	false	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true	true
Animal pathogenicity	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 ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
Biosafety level	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 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 2 ✗	biosafety level 2 ✗
Health association	N/A	true	false	true	false	true	false	false	false	false	false	true	true	true	true	false	false	true	true	true	true	true	true	true	true	true	true	false	false	false	false
Host association	N/A	true	false	false	false	true	false	false	false	false	false	false	false	false	false	false	false	false	false	false	false	true	true	false	false	true	true	false	false	false	false
Plant pathogenicity	FALSE	false ✓	true ✗	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	true ✗	true ✗	false ✓	false ✓	false ✓	false ✓	false ✓	false ✓
Spore formation	TRUE	true ✓	true ✓	true ✓	false ✗	false ✗	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	true ✓	false ✗	false ✗	true ✓	true ✓	true ✓	true ✓	false ✗	false ✗	true ✓	true ✓
Hemolysis	N/A	gamma	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	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	coccus	coccus	bacillus	bacillus

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