1. 
   Microbe Elusimicrobiota

   Endomicrobium NameName close to Endomicrobiales
2. 
   Microbe Verrucomicrobiota

   Verrucomicrobiales NameName close to Endomicrobiales
3. 
   Microbe Pseudomonadota

   Hyphomicrobiales NameName close to Endomicrobiales
4. 
   Microbe Bacteroidota

   Porphyromonas endodontalis MeaningAbout Endomicrobiales
   under 1% of healthy people
5. 
   Microbe Pseudomonadota

   Hyphomicrobiales bacterium Unnamed strain NameName close to Endomicrobiales
   under 1% of healthy people
6. 
   Microbe Actinomycetota

   Streptomyces MeaningAbout Endomicrobiales
   under 1% of healthy people
7. 
   Microbe Actinomycetota

   Micrococcus endophyticus MeaningAbout Endomicrobiales
   under 1% of healthy people
8. Research Genomics & informatics · 2025

   Metagenomic insights into microbial community alterations and co-occurrence networks in infective endocarditis.

   Haemophilus parainfluenzae

   MeaningAbout Endomicrobiales
   PubMed ↗
9. Research BJOG · 2019 Systematic review

   Endometriosis and the microbiome: a systematic review.

   Escherichia coli

   MeaningAbout Endomicrobiales
   PubMed ↗
10. 
    Microbe Bacillota

    Eshraghiella crossota MeaningAbout Endomicrobiales
    6.1% of healthy people
11. 
    Microbe Pseudomonadota

    Agrobacterium tomkonis MeaningAbout Endomicrobiales
    under 1% of healthy people
12. 
    Microbe Bacillota

    Planomicrobium okeanokoites MeaningAbout Endomicrobiales
13. Research International immunopharmacology · 2025

    Exploring Microbial Signatures in Endometrial Tissues with Endometriosis.

    Faecalibacterium prausnitzii

    MeaningAbout Endomicrobiales
    PubMed ↗
14. 
    Microbe Bacillota

    Eubacteriales bacterium Unnamed strain MeaningAbout Endomicrobiales
    6.9% of healthy people
15. Research Frontiers in veterinary science · 2022

    Assessment of the Endophytic Fungal Composition of Lactobacillus plantarum and Enterococcus faecalis-Fermented Astragalus membranaceus Using Single-Molecule, Real-Time Sequencing Technology.

    Enterococcus faecalisEnterococcus faecium

    MeaningAbout Endomicrobiales
    PubMed ↗
16. 
    Microbe Bacteroidota

    Bacteroides xylanisolvens MeaningAbout Endomicrobiales
    59% of healthy people
17. 
    Microbe Bacteroidota

    Coprobacter tertius MeaningAbout Endomicrobiales
    under 1% of healthy people
18. 
    Microbe Pseudomonadota

    Candidatus Endoecteinascidia MeaningAbout Endomicrobiales
19. 
    Microbe Actinomycetota

    Coriobacteriales bacterium DNF00809 Unnamed strain MeaningAbout Endomicrobiales
    under 1% of healthy people
20. Research Marine drugs · 2022

    Gut and Gill-Associated Microbiota of the Flatfish European Plaice (Pleuronectes platessa): Diversity, Metabolome and Bioactivity against Human and Aquaculture Pathogens.

    Enterococcus faecium

    MeaningAbout Endomicrobiales
    PubMed ↗
21. Research Frontiers in microbiology · 2024

    Gut microbiota and risk of endocarditis: a bidirectional Mendelian randomization study.

    Faecalicatena fissicatena

    MeaningAbout Endomicrobiales
    PubMed ↗
22. 
    Microbe Pseudomonadota

    Endobacter MeaningAbout Endomicrobiales
23. Research Frontiers in immunology · 2025 Review

    Leveraging the role of the microbiome in endometriosis: novel non-invasive and therapeutic approaches.

    Escherichia coli

    MeaningAbout Endomicrobiales
    PubMed ↗
24. 
    Microbe Verrucomicrobiota

    Verrucomicrobium MeaningAbout Endomicrobiales
25. 
    Microbe Planctomycetota

    Planctomicrobium MeaningAbout Endomicrobiales
26. Research Gut · 2019

    Antibiotics-induced monodominance of a novel gut bacterial order.

    Parabacteroides distasonis

    MeaningAbout Endomicrobiales
    PubMed ↗
27. Research International endodontic journal · 2025

    Exploring Relationships Within the Microbiome of Root Canal Infections and the Influence of Associated Clinical Parameters.

    Haemophilus parainfluenzaeEnterococcus faecalis

    MeaningAbout Endomicrobiales
    PubMed ↗
28. Research Probiotics and antimicrobial proteins · 2025 Review

    Microbiome-Targeted Probiotic Strategies for the Prevention and Treatment of Osteomyelitis: A Novel Biological Approach.

    Escherichia coli

    MeaningAbout Endomicrobiales
    PubMed ↗
29. 
    Microbe Pseudomonadota

    Pseudomonas endophytica MeaningAbout Endomicrobiales
30. 
    Microbe Bacteroidota

    Coprobacter MeaningAbout Endomicrobiales
    28% of healthy people
31. 
    Microbe Bacillota

    Planomicrobium MeaningAbout Endomicrobiales
32. Research Biomedica · 2017

    [Periodontal microbiota and microorganisms isolated from heart valves in patients undergoing valve replacement surgery in a clinic in Cali, Colombia].

    Parabacteroides merdae

    MeaningAbout Endomicrobiales
    PubMed ↗
33. Research Microbial pathogenesis · 2021 Animal study

    Metabolic and molecular modelling of zebrafish gut biome to unravel antimicrobial peptides through metagenomics.

    Escherichia coliKlebsiella pneumoniae

    MeaningAbout Endomicrobiales
    PubMed ↗
34. Research Journal of oral microbiology · 2022

    Oral microbiomes of patients with infective endocarditis (IE): a comparative pilot study of IE patients, patients at risk for IE and healthy controls.

    Haemophilus parainfluenzae

    MeaningAbout Endomicrobiales
    PubMed ↗
35. 
    Microbe Pseudomonadota

    Enterobacteriaceae MeaningAbout Endomicrobiales
36. Research Frontiers in medicine · 2024

    The causality between gut microbiota and endometriosis: a bidirectional Mendelian randomization study.

    Faecalicatena fissicatena

    MeaningAbout Endomicrobiales
    PubMed ↗
37. 
    Microbe Campylobacterota

    Helicobacter pullorum MeaningAbout Endomicrobiales
    under 1% of healthy people
38. 
    Microbe Pseudomonadota

    Proteus MeaningAbout Endomicrobiales
    1.6% of healthy people
39. 
    Microbe Bacteroidota

    Parasegetibacter MeaningAbout Endomicrobiales
40. Research Communications biology · 2023

    Fungal β-glucan-facilitated cross-feeding activities between Bacteroides and Bifidobacterium species.

    Bacteroides cellulosilyticus

    MeaningAbout Endomicrobiales
    PubMed ↗

Research: PubMed, U.S. National Library of Medicine · citations link to PubMed