Taxonomy Report SPARKbiom
Deviation from reference — taxa count per level
DiversitySpecies diversity (Shannon)3.45 within range 0normal 2.4–4.56 Genus diversity (Shannon)2.63 within range 0normal 1.4–3.56 Key group indexesFirmicutes/Bacteroidetes3.98 deviation 04 ··· 100 normal: poniżej 1.5 Actinomycetota/Proteobacteria0.76 within range 04 ··· 100 normal: powyżej 0.5 Prevotella/Bacteroides0.06 deviation 04 ··· 100 normal: powyżej 0.1 | Pathogens / signals
16S+18S = quantitative: 16S rRNA = bacteria, 18S rRNA = eukaryotes (fungi, protozoa, parasites). 18S · screen = sensitive, semi-quantitative 18S amplification (p. 5); not directly comparable to 16S+18S. Level = normalized share in 18S reads. Mandatory notification only for organisms on the statutory list.
· Bacterial pathogens (16S+18S) → p. 4 · 18S eukaryotes → p. 5 |
Genus → species links
Remaining genera (<3%)
Aspergillus 4.8% Phascolarctobacterium 4.1% Phocaeicola 3.8% Escherichia 1.9% Other (below threshold) 29.9%
Remaining species (<3%)
Anaerostipes hadrus 4.0% Thelebolus stercoreus 3.9% Aspergillus candidus 3.8% Phascolarctobacterium sp. 3.0% Other (below threshold) 45.7%
Characteristics of the most frequent organisms
[Eubacterium] rectale is one of the main butyrate-producing bacteria in the human colon. It plays a crucial role in maintaining the intestinal barrier's health and regulating the inflammatory process. It is part of the healthy gut flora, influencing immune system function.
Blautia sp. refers to a group of bacteria that are important components of a healthy human gut microbiota. These bacteria help produce lactic acid and other beneficial compounds. They are responsible for maintaining microbial balance and may protect against diseases.
Bacteroides uniformis is part of the natural bacterial flora of the human gastrointestinal tract. It aids in fiber digestion and vitamin production, significantly contributing to protection against pathogens and regulation of immune responses.
Blautia wexlerae is a fermentative bacterium residing in the human digestive system, contributing to gut health by producing fatty acids. It participates in metabolic transformations and is associated with positive health effects, with studies suggesting a role in weight regulation and inflammation prevention.
Roseburia faecis is an important bacterial species found in the human intestines, belonging to the Lachnospiraceae family. It plays a crucial role in producing butyric acid, one of the main energy sources for intestinal epithelial cells. Its potential impact on gut health, including protection against certain diseases and inflammation, is being studied.
Faecalibacterium prausnitzii is an important commensal bacterium residing in the human gut. It plays a key role in maintaining gut health by producing short-chain fatty acids. It is considered a marker of good gastrointestinal health.
Anaerostipes hadrus is a bacterium from the Lachnospiraceae family, present in the human gut microbiome. It is key in producing butyric acid from fiber, positively impacting gut health. It may support protection against certain gut diseases.
Thelebolus stercoreus is a fungal species belonging to the Thelebolaceae family. It is known for its ability to decompose organic matter in extreme environments, such as animal dung. It is studied for potential biotechnological applications.
Organism Aspergillus candidus detected in the sample at 3.8%.
Phascolarctobacterium sp. is a fermentative bacterium producing propionic acid, essential for gut health. It is present in the human gut microbiome and may help regulate blood sugar levels. Its role in preventing metabolic diseases is being investigated.
Faecalibacterium duncaniae is a newly discovered strain of the Faecalibacterium genus, known for its beneficial impact on gut health. It has anti-inflammatory properties and helps maintain a healthy gut microbiota. Its presence is seen as an indicator of good gastrointestinal health.
Phocaeicola coprocola is a species of bacteria belonging to the Bacteroidaceae family. It inhabits the digestive tract of mammals, including humans, where it participates in fiber breakdown and short-chain fatty acid production. It is important for gut health and proper digestive function.
Escherichia coli, also known as E. coli, is a bacterium commonly found in the intestines of humans and animals. Most strains are harmless and aid in digestion and the synthesis of vitamins K and B. However, some strains can cause serious infections and illnesses.
Bacteroides sp. refers to unspecified strains from the genus Bacteroides, which are crucial for gut health. They are involved in the breakdown of proteins and carbohydrates, contributing to the production of important metabolites. They are vital for maintaining gut microbiota balance and protecting against diseases.
Faecalibacterium sp. Marseille-Q4164 is a recently discovered bacterial strain from the Faecalibacterium genus. It is characterized by its health-promoting potential, particularly its anti-inflammatory properties. Its impact on gut diseases and therapeutic possibilities are being studied.
Dorea longicatena is a bacterium found in the human digestive system, contributing to fiber digestion and the production of short-chain fatty acids. Considered an important component of healthy gut flora, studies suggest its role in regulating immune responses.
Anthropogastromicrobium aceti is a recently discovered bacterium that contributes to vinegar fermentation. It may be present in various fermentative environments, including the human digestive tract. Research on its health impact is in the early stages.
Anaerobutyricum hallii, formerly known as Eubacterium hallii, is an important fermentative bacterium in the human gut. It participates in the production of butyric and butyric acid, which are crucial for gut health. It is being studied for potential applications in treating metabolic and gut disorders.
Blautia sp. Marseille-P2398 is a bacterial species from the Lachnospiraceae family, residing in the human gut microbiome. It plays a role in carbohydrate metabolism and the synthesis of short-chain fatty acids. It contributes to gut health and may be associated with protection against certain diseases.
Bacteroides sp. AR20 belongs to the Bacteroidaceae family, which is abundant in the human gut microbiome. These gram-negative, anaerobic bacteria play a key role in fiber fermentation and short-chain fatty acid production. They may also influence the host's immune response.
Taxon distribution vs population reference
Pathogens — bacteria, parasites and fungi
Eukaryotes — sensitive 18S screen (semi-quantitative)
Full taxon lists
Overall index
What raises the score
- Microbiome diversity (Shannon index) within range
What lowers the score
- Conditional bacteria: Streptococcus, Clostridium (level low) -6.0
- Conditional bacteria: Escherichia (level low) -3.0
- Absolute bacterium (mandatory list): Shigella (level low) -3.0
- Single-cell eukaryotes (protozoa/yeast): Aspergillus, Penicillium, Clavispora (level high) -15.0
How the index is calculated
Scale 0–100 (higher is better). Starting point is the ecological component (100 pts). Penalties for pathogen signals are subtracted with category saturation. Absolute detections additionally cap the score.
Ecological component (100 pts)
- microbiome diversity (Shannon) — 45%
- key group ratios — 30%
- taxon distribution vs reference — 25%
Signal penalties — category caps
- conditional bacteria — up to 25 pts
- single-cell eukaryotes — up to 15 pts
- absolute bacterium — up to 20 pts
- multicellular helminth — up to 35 pts
Upper score limits
- absolute bacterium — medium: score ≤ 55
- absolute bacterium — high: score ≤ 30
- dominant single-cell (18S): score ≤ 65
Test method — SPARK-biomSCAN
- Oxford Nanopore platform: PCR amplification and long-read sequencing.
- Proprietary primers: molecular probes targeting 50,000+ species.
- High sequencing quality: average Q-score ~17.5.
- Bioinformatics based on BLAST.
- Reference databases: NCBI, SILVA, PR2.
- Result precision: minimum 95% reference sequence match.
- Method limitation: does not exclude pathogens below detection limit.
Summary
SPARK-TECH DIAGNOSTYKA
ul. Lelewela 14/1–2
31-108 Kraków
tel. 572 260 126 / 12 331 00 32
Dr n. med., mgr biol. Mateusz Adamski
neurologist
Laboratory diagnostician
PWZDL 17797