Holdemania filiformis

General Information

Holdemania filiformis is a fascinating microorganism that belongs to the family Erysipelotrichaceae. This bacterium is particularly interesting due to its unique filamentous morphology, which sets it apart from many other bacteria that typically exhibit rod or spherical shapes. The filamentous structure of H. filiformis can be a subject of study in understanding bacterial cell shape and its implications for survival and adaptation in various environments. One of the most intriguing aspects of Holdemania filiformis is its role in the human gut microbiome. It has been identified in the gastrointestinal tracts of humans and animals, suggesting it may play a role in digestive processes or in maintaining gut health. The presence of H. filiformis in the gut microbiome can be linked to various health outcomes, making it a valuable subject for research in microbiome studies. From a biochemical perspective, H. filiformis is known for its ability to ferment carbohydrates, producing short-chain fatty acids (SCFAs) such as acetate and butyrate. These SCFAs are crucial for gut health, as they serve as energy sources for colonocytes and have anti-inflammatory properties. The metabolic capabilities of H. filiformis make it an important organism for studying the interactions between diet, gut microbiota, and host health. In addition, Holdemania filiformis has been studied for its potential implications in various diseases. Alterations in its abundance have been observed in conditions such as inflammatory bowel disease (IBD) and obesity, indicating that it may have a role in the pathogenesis or progression of these diseases. Understanding the mechanisms by which H. filiformis influences health and disease could lead to novel therapeutic strategies. Overall, Holdemania filiformis is a microorganism of significant interest due to its unique morphology, its role in the gut microbiome, and its potential impact on human health. Its study can provide insights into microbial ecology, host-microbe interactions, and the development of microbiome-based therapies.

Holdemania filiformis is a fascinating microorganism belonging to the family of Holdemaniaceae. This organism is particularly notable for its unique filamentous structure, which allows it to thrive in various ecological niches, especially in aquatic environments. The filamentous morphology not only aids in nutrient absorption but also enhances its ability to form complex communities with other microorganisms, contributing to the overall biodiversity of its habitat. One of the most interesting aspects of Holdemania filiformis is its metabolic versatility. It has been shown to utilize a wide range of organic compounds, making it a valuable model for studying metabolic pathways and bioremediation processes. This capability positions Holdemania filiformis as a potential candidate for biotechnological applications, particularly in the degradation of pollutants in contaminated water bodies. Furthermore, research on Holdemania filiformis has revealed its potential role in nutrient cycling within its ecosystem. By participating in the breakdown of organic matter, it contributes to the availability of essential nutrients for other organisms, thus playing a crucial role in maintaining ecological balance. In addition to its ecological significance, Holdemania filiformis has garnered interest in the field of synthetic biology. Its unique genetic makeup and metabolic pathways offer opportunities for genetic engineering and the development of novel bioproducts. Scientists are exploring its genome for genes that could be harnessed for the production of biofuels or other valuable biochemicals. Overall, Holdemania filiformis stands out not only for its structural and metabolic characteristics but also for its potential applications in environmental science and biotechnology, making it a subject of ongoing research and interest.

Taxonomy

Superkingdom: Bacteria

Phylum: Bacillota

Class: Erysipelotrichia

Order: Erysipelotrichales

Family: Erysipelotrichaceae

Genus: Holdemania

Species: Holdemania filiformis

NCBI ID

61171

Genome Info

FTP Path:
ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/459/085/GCF_003459085.1_ASM345908v1

File for sequence-based predictions:
GCF_003459085.1_ASM345908v1_genomic.fasta

Descriptions

Clinical Implications and Relevance

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

The organism Holdemania filiformis is a lesser-known bacterium that has been associated with various clinical implications, particularly in the context of infections and immune response modulation. While it is not a primary pathogen, it has been isolated from patients with compromised immune systems, suggesting a potential role in opportunistic infections. Its presence in clinical samples raises concerns about its ability to evade the immune response, possibly through mechanisms such as biofilm formation and the production of virulence factors that inhibit phagocytosis. Furthermore, there is emerging evidence that Holdemania filiformis may exhibit antimicrobial resistance, complicating treatment options for affected patients. This resistance can be attributed to the acquisition of resistance genes and the ability to form biofilms, which protect the bacteria from both the host's immune system and antibiotic treatment. In terms of medical applications, research is ongoing to explore the potential of Holdemania filiformis in the development of probiotics, given its unique metabolic capabilities. However, more studies are needed to fully understand its role in human health and disease. Overall, while Holdemania filiformis is not widely recognized as a significant pathogen, its implications in infections, resistance, and potential therapeutic applications warrant further investigation.

Habitat and Ecological Niches

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

Holdemania filiformis is a filamentous bacterium commonly found in freshwater environments and soil ecosystems. This microorganism thrives in nutrient-rich conditions, often associated with decaying organic matter, where it plays a crucial role in the decomposition process. Its presence is particularly noted in areas with high levels of organic pollution, such as near agricultural runoff or in eutrophic lakes, where it contributes to nutrient cycling and the breakdown of complex organic compounds. In these freshwater habitats, Holdemania filiformis interacts with other microorganisms, forming a part of the microbial community that supports the overall health of the ecosystem. It is known to engage in symbiotic relationships with various aquatic plants, aiding in nutrient uptake and enhancing plant growth through its metabolic activities. Additionally, this bacterium exhibits remarkable environmental adaptability, allowing it to survive in varying conditions, including fluctuations in temperature and pH levels. Its ability to thrive in both aerobic and anaerobic environments further underscores its ecological versatility. Overall, Holdemania filiformis is an essential player in its biome, contributing to biogeochemical cycles and maintaining the balance of its ecosystem.

Industrial Application

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

The microorganism Holdemania filiformis has shown significant potential in various industrial applications. One of the primary areas of interest is in biotechnology, where Holdemania filiformis is utilized for its unique metabolic capabilities. This organism is known to participate in fermentation processes, which can be harnessed for the production of valuable metabolites, including organic acids and alcohols. In the realm of waste management, Holdemania filiformis has demonstrated effective biodegradation abilities, particularly in the breakdown of complex organic materials. This makes it a candidate for use in bioremediation efforts, where it can help in the detoxification of contaminated environments, such as soil and water bodies. Furthermore, the enzymatic activity of Holdemania filiformis is noteworthy, as it produces specific enzymes that can be applied in various pharmaceutical development processes. These enzymes can facilitate the synthesis of pharmaceutical compounds or serve as biocatalysts in drug formulation. Additionally, there is potential for Holdemania filiformis in biofuel production, where its metabolic pathways can be exploited to convert biomass into biofuels through fermentation processes. This aligns with the growing demand for sustainable energy sources and the reduction of fossil fuel dependency. Overall, Holdemania filiformis presents a versatile profile for multiple industries, showcasing its importance in biotechnology, waste management, pharmaceuticals, and biofuels.

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	meta-llama/llama-3-8b-instruct:nitro	google/gemini-flash-1.5	google/gemma-7b-it	anthropic/claude-3-haiku:beta	perplexity/llama-3-sonar-small-32k-chat	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	openai/gpt-4	openai/gpt-4	microsoft/wizardlm-2-8x22b	microsoft/wizardlm-2-8x22b	mistralai/mistral-7b-instruct	mistralai/mistral-7b-instruct	google/palm-2-chat-bison-32k	google/palm-2-chat-bison-32k	meta-llama/llama-3-70b-instruct:nitro	meta-llama/llama-3-70b-instruct:nitro	microsoft/phi-3-mini-128k-instruct	microsoft/phi-3-mini-128k-instruct	google/gemini-pro	google/gemini-pro
Motility	N/A	false	true	false	true	false	true	false	false	false	false	false	false	false	false	false	false	false	false	false	false	true	true	true	true	false	false	true	true
Gram staining	gram stain positive	gram stain positive ✓	gram stain negative ✗	gram stain positive ✓	gram stain negative ✗	gram stain positive ✓	gram stain negative ✗	gram stain negative ✗	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain negative ✗	N/A	gram stain positive ✓	N/A	gram stain positive ✓	N/A	gram stain variable ✗	N/A	gram stain negative ✗	N/A	gram stain negative ✗	N/A	gram stain negative ✗	N/A	gram stain negative ✗
Aerophilicity	anaerobic	anaerobic ✓	aerotolerant ✗	N/A	N/A	N/A	N/A	N/A	N/A	facultatively anaerobic ✗	facultatively anaerobic ✗	anaerobic ✓	anaerobic ✓	anaerobic ✓	anaerobic ✓	anaerobic ✓	anaerobic ✓	aerotolerant ✗	aerotolerant ✗	aerotolerant ✗	aerotolerant ✗	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A
Extreme environment tolerance	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 ✓
Biofilm formation	N/A	false	true	true	true	true	true	false	true	true	true	false	false	true	true	false	false	true	true	false	false	true	true	true	true	false	false	true	true
Animal pathogenicity	N/A	false	false	true	false	false	false	false	false	false	false	false	false	true	true	false	false	false	false	false	false	false	false	false	false	false	false	true	true
Biosafety level	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 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 ✗
Health association	N/A	true	false	true	true	true	true	false	true	false	false	true	true	true	true	true	true	true	true	false	false	true	true	true	true	false	false	true	true
Host association	TRUE	true ✓	false ✗	true ✓	false ✗	false ✗	true ✓	false ✗	false ✗	false ✗	false ✗	true ✓	true ✓	true ✓	true ✓	false ✗	false ✗	true ✓	true ✓	false ✗	false ✗	false ✗	false ✗	true ✓	true ✓	false ✗	false ✗	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	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
Cell shape	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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