Can 16S rRNA sequencing detect all microorganisms in a sample?

No, 16S rRNA sequencing is limited to bacteria and archaea. It does not detect fungi, viruses, or eukaryotic organisms, making it unsuitable for comprehensive microbial community analysis.

How deep should metagenomic sequencing be to detect rare organisms?

To detect rare organisms, metagenomic sequencing typically requires deeper sequencing, as low-abundance species may be missed in shallow sequencing runs, increasing both cost and computational complexity.

Can metagenomics identify viruses in a sample?

Yes, unlike 16S rRNA sequencing, metagenomics can identify a broad range of organisms, including viruses, making it ideal for studies requiring insights into viral communities and their interactions.

Bacteroides Probiotics Development Solutions

Our Bacteroides Solutions Trusted by Leading Parteners

Fig. 2 NGPs development services partner-1 (Creative Biolabs Authorized)

Fig. 3 NGPs services partner-2 (Creative Biolabs Authorized)

Fig. 4 NGPs development services partner-3 (Creative Biolabs Authorized)

Fig. 5 NGPs development services partner-4 (Creative Biolabs Authorized)

Fig. 6 NGPs development services partner-5 (Creative Biolabs Authorized)

Bacteroides: Keystone Genus of the Gut Microbiota

Fig. 7 Bacteroides strains (Creative Biolabs Authorized)

Bacteroides is a genus of Gram-negative, obligate anaerobic bacteria that constitute approximately 30% of the total gut microbiota. Comprising over 70 species, including core members like Bacteroides fragilis and Bacteroides vulgatus, they play a crucial role in maintaining gut health. Their metabolic adaptability is evident in their ability to degrade complex polysaccharides, facilitated by over 200 polysaccharide degradation genes in a single strain.

These bacteria are major producers of short-chain fatty acids (SCFAs), particularly acetate and propionate, which serve as energy sources and contribute to systemic health benefits. Additionally, Bacteroides fragilis produces polysaccharide A (PSA), which modulates the immune system by inducing regulatory T cells and suppressing inflammation. Furthermore, Bacteroides help maintain gut homeostasis by preventing the colonization of pathogens, ensuring a stable microbial ecosystem. Their abundance and metabolic versatility highlight their indispensable role in digestion, immune regulation, and overall gut stability.

Bacteroides Species with Probiotic Potential

Creative Biolabs offers advanced probiotic development services targeting key Bacteroides species with therapeutic potential. Below is a detailed overview of the featured strains, their unique properties, and clinical applications:

Bacteroides fragilis

Dual Nature	A dominant gut commensal but also an opportunistic pathogen linked to intra-abdominal infections and bacteremia. Toxigenic strains (ETBF) produce B. fragilis toxin (BFT), which disrupts epithelial integrity and is associated with colorectal cancer.
Probiotic Potential	Non-toxigenic strains (NTBF) secrete PSA, a potent immunomodulator that activates regulatory T cells (Tregs), suppresses NF-κB-driven inflammation, and enhances gut barrier function. PSA shows promise in treating autoimmune diseases like multiple sclerosis.
Challenges	Strain-specific pathogenicity and antibiotic resistance (e.g., β-lactamase production) require rigorous safety validation.

Explore our Bacteroides fragilis as Next Generation Service Probiotics

Bacteroides ovatus

Engineered Applications	Genetically modified to express cytokines and therapeutic enzymes for targeted delivery in inflammatory bowel disease (IBD).
Functional Properties	Metabolizes xylan to produce indole-3-acetic acid (IAA), which balances macrophage polarization (M1/M2), reduces atherosclerosis in mice, and alleviates graft-versus-host disease (GVHD).
Synbiotic Potential	Combined with galactooligosaccharides (GOS), it enhances insulin sensitivity and reduces systemic inflammation in metabolic syndrome models.

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Bacteroides thetaiotaomicron

Metabolic Versatility	Degrades complex polysaccharides (e.g., starch, fructans) via 88 polysaccharide utilization loci (PULs), producing propionate and other SCFAs that nourish the gut epithelium.
Anti-inflammatory Mechanisms	Inhibits NF-κB by enhancing PPARγ activity, protecting intestinal stem cells, and promoting mucosal angiogenesis.
Host-Microbe Interaction	Regulated by host-derived microRNA-21, which modulates indole and L-tryptophan biosynthesis to influence gut motility and inflammation resolution.

Explore our Bacteroides thetaiotaomicron as Next Generation Service Probiotics

Bacteroides dorei

Pathogen Inhibition	Produces BSAP-3, a MACPF-family toxin targeting lipopolysaccharide (LPS) structures of competing pathogens. Synergizes with B. vulgatus to suppress Clostridium species.
Clinical Relevance	Depletion observed in Alzheimer's disease (AD) models; supplementation with its metabolite lysophosphatidylcholine (LPC) alleviates neuroinflammation via the GPR119-Nrf2 pathway.

Explore our Bacteroides dorei as Next Generation Service Probiotics

Bacteroides vulgatus

Metabolic Role	Utilizes bile salts and host mucin glycans. Overgrowth is linked to IBD but shows strain-specific benefits in modulating lipid metabolism.
Therapeutic Potential	Produces pentadecanoic acid (C15:0), an odd-chain fatty acid that suppresses NF-κB and enhances tight junction proteins in colitis models.

Explore our Bacteroides vulgatus as Next Generation Service Probiotics

Bacteroides uniformis

Phenolic Glycoside Metabolism	Specializes in hydrolyzing plant-derived glycosides (e.g., salicin) to bioactive aglycones (e.g., saligenin), which inhibit Clostridioides difficile and reduce intestinal inflammation.
Antimicrobial Activity	Releases resveratrol from polydatin, suppressing pathogenic bacteria and restoring microbiota balance in colitis.

Explore our Bacteroides uniformis as Next Generation Service Probiotics

Bacteroides xylanisolvens

Dietary Fiber Utilization	Degrades xylan to generate SCFAs (e.g., acetate, propionate), supporting colonic epithelial health and immune regulation.
Synbiotic Development	Combined with prebiotics, it improves glucose homeostasis and reduces hepatic steatosis in high-fat diet models.

Explore our Bacteroides xylanisolvens as Next Generation Service Probiotics

Bacteroides acidifaciens

Anti-Colitis Effects	Synergizes with Limosilactobacillus reuteri to produce pentadecanoic acid, which inhibits NF-κB and enhances mucosal integrity.
Mechanistic Insight	Depletion observed in ulcerative colitis (UC) patients; supplementation restores gut barrier function and reduces oxidative stress.

Explore our Bacteroides acidifaciens as Next Generation Service Probiotics

Custom Services for Bacteroides Probiotics Development

Isolation of Bacteroides Strains

Creative Biolabs provides specialized services for isolating Bacteroides strains from various biological and environmental samples. Using state-of-the-art anaerobic culturing techniques, we selectively enrich and isolate Bacteroides species under optimal conditions. Our protocols ensure the recovery of viable, pure strains suitable for further functional studies and probiotic applications.

Identification of Bacteroides Strains

After successful isolation, our team employs advanced molecular and biochemical techniques to accurately identify Bacteroides species. We utilize:

In Vivo Functional Evaluation

To validate the probiotic efficacy of Bacteroides strains in a biological system, we offer In Vivo studies using preclinical animal models. Our In Vivo services include:

Gut microbiota modulation studies
Host immune response assessments
Impact on metabolic markers and gut barrier integrity
Efficacy testing in disease models

Antibiotic Susceptibility Testing

Certain Bacteroides strains produce bioactive compounds that exhibit antimicrobial properties. Creative Biolabs provides specialized assays to evaluate antibiotic-like activity, including:

Screening for antimicrobial peptide (AMP) production
Growth inhibition assays against pathogenic bacteria
Metabolite profiling and bioactivity testing

In Vitro Functional Evaluation

We conduct comprehensive In Vitro assays to assess the probiotic potential of Bacteroides strains. These evaluations include:

Polysaccharide degradation and SCFA production profiling
Adhesion ability to intestinal epithelial cells
Competitive exclusion of pathogens
Immunomodulatory activity screening

Antagonist Effects Analysis

We analyze how Bacteroides strains interact with other gut microbes to assess their potential in modulating the gut microbiota composition:

Co-culturing assays to assess microbial interactions
Competitive exclusion and niche occupation analysis
Metabolite-mediated bacterial communication studies

Anti-infectious Effects Evaluation

Our team evaluates the protective effects of Bacteroides strains against enteric infections through:

Pathogen inhibition studies In Vitro and In Vivo
Mechanistic studies on pathogen suppression
Gut inflammation and infection resistance models

Biological Safety Assessment

As with any probiotic candidate, ensuring the safety of Bacteroides strains is paramount. Our safety evaluation services include:

Genome analysis for virulence and antibiotic resistance genes
Hemolysis and toxin production assays
Assessments of metabolic byproducts for potential toxicity

Cytotoxicity Evaluation

To further confirm the biocompatibility of Bacteroides strains, we offer cytotoxicity testing, including:

MTT assays for cell viability
Cytokine profiling in host cells
Barrier integrity assays using intestinal epithelial cell models

Lab-Scale Production

For researchers and biotech companies developing Bacteroides-based probiotics, Creative Biolabs offers lab-scale production services:

Optimization of anaerobic fermentation conditions
Biomass production and lyophilization
Quality control and viability assessment
Customized formulations for research or preclinical trials

Bacteroides Probiotics Development Services Process

Fig. 8 Bacteroides Probiotics Development Services Process (Creative Biolabs Original)

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Sample Submission

Fill out the Sample Submission Form today to kickstart your Bacteroides probiotics development with Creative Biolabs' expert support!

Sample Name for Report/Description

Unique Identifier for Report (Lot, Run#, etc.)

Source of material(s)/Manufacturer(s)

Sample mass

Sample state (Liquid, solid, or other)

Others

Fig. 9 Sample submission form (Creative Biolabs Original)

Case Study of Bacteroides Probiotics Development

Case #1

B. vulgatus Lyophilized Powder-Custom Small-scale Production

Creative Biolabs has successfully developed B. vulgatus lyophilized powder, optimized for studying its effects in animal models. Produced under stringent quality standards, including precise bacterial concentrations and contamination control, this product meets research needs, particularly in investigating its role in alleviating metabolic diseases in mice.

Fig. 10 B. vulgatus strain preparation (Creative Biolabs Original)

Fig.1 B. vulgatus strain preparation. (a) Gram staining of B. vulgatus strain. (b) The colonies of B. vulgatus on Columbia Blood Agar

Case Study

B. vulgatus Lyophilized Powder-Custom Small-scale Production

Download this case study to explore the complete process of B. vulgatus lyophilized powder preparation, from manufacturing and disease research applications to its potential therapeutic benefits.

Download

Related Bacteroides Products for Research

To support cutting-edge microbiome research and probiotic development, Creative Biolabs offers a selection of high-quality Bacteroides strains. Each strain is carefully isolated, characterized, and produced under strict quality control measures to ensure viability and reliability for scientific studies.

CAT#	Product Name	Product Overview	SIZE	PRICE	Add to basket
LBST-013FG	Bacteroides fragilis; Appendix abscess	Bacteroides fragilis was isolated from appendix abscess. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.	200 µg	$1156.00
LBST-014FG	Bacteroides fragilis; 37758	Bacteroides fragilis was isolated from human blood. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-015FG	Bacteroides fragilis; 36926	Bacteroides fragilis was isolated from human blood. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-016FG	Bacteroides fragilis; 36902	Bacteroides fragilis was isolated from human perianal abscess. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-017FG	Bacteroides fragilis; 35671	Bacteroides fragilis was isolated from human tube. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-018FG	Bacteroides fragilis; 25931	Bacteroides fragilis was isolated from human pleural fluid. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-019FG	Bacteroides fragilis; 49424	Bacteroides fragilis was isolated from human blood. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-020FG	Bacteroides fragilis;	Bacteroides fragilis was isolated from sewage water. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-021FG	Bacteroides fragilis; 20793-3	Bacteroides fragilis was isolated from infant with diarrhea. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-022FG	Bacteroides fragilis; 23745	Bacteroides fragilis was isolated from pleural fluid. It is an anaerobic, Gram-negative, pleomorphic to rod-shaped bacterium.			Inquiry
LBST-023FG	Bacteroides vulgatus; 8482	Bacteroides vulgatus is generally considered to be a beneficial gut commensal.	200 µg	$1560.00
LBST-024FG	Bacteroides vulgatus; 29327	Bacteroides vulgatus is generally considered to be a beneficial gut commensal.	200 µg	$1560.00
LBST-025FG	Bacteroides vulgatus	Bacteroides vulgatus was isolated from human feces. It is generally considered to be a beneficial gut commensal.	200 µg	$1605.00
LBST-026FG	Bacteroides vulgatus, human faeces	Bacteroides vulgatus is a type strain.	200 µg	$1980.00
LBST-027FG	Bacteroides ovatus; 24398	Bacteroides ovatus is an anaerobe, mesophilic bacterium. Thalli were rod-shaped, single or paired, Gram-negative.	200 µg	$1560.00
LBST-028FG	Bacteroides ovatus; 359491	Bacteroides ovatus is an anaerobe, mesophilic bacterium. Thalli were rod-shaped, single or paired, Gram-negative.	200 µg	$1605.00
LBST-029FG	Bacteroides thetaiotaomicron, suckling pig feces	Bacteroides thetaiotaomicron was isolated from suckling pig feces. It is a Gram-negative obligate anaerobe.			Inquiry
LBST-030FG	Bacteroides thetaiotaomicron; pig feces	Bacteroides thetaiotaomicron was isolated from suckling pig feces. It is a Gram-negative obligate anaerobe.			Inquiry
LBST-031FG	Bacteroides thetaiotaomicron	Bacteroides thetaiotaomicron was isolated from human feces. It is a Gram-negative obligate anaerobe.	200 µg	$1605.00
LBST-032FG	Bacteroides dorei	Bacteroides dorei was isolated from human feces. It is an Gram-negative, rod-shaped bacteria that contributes to normal intestinal functionality.			Inquiry
LBST-033FG	Bacteroides uniformis	Bacteroides uniformis was isolated from human feces.	200 µg	$1560.00
LBST-034FG	Bacteroides uniformis; quality control	Bacteroides uniformis is an anaerobe, mesophilic, rod-shaped bacterium.	200 µg	$1988.00
LBST-035FG	Bacteroides thetaiotaomicron; 28148	Bacteroides thetaiotaomicron is a Gram-negative obligate anaerobe, it is isolated from human. Also, It is one of the most common bacteria found in human gut microbiota.	200 µg	$1560.00
LBSX-0522-GF14	Bacteroides xylanisolvens; 353923	Bacteroides xylanisolvens was isolated from human faeces. It is a Gram-negative, non-sporulating, rod shaped bacteria.	200 µg	$1600.00
LBSX-0522-GF15	Bacteroides xylanisolvens; 360207	Bacteroides xylanisolvens was isolated from human faeces, 31-yr-old male, healthy volunteer. It is a Gram-negative, non-sporulating, rod shaped bacteria.	200 µg	$1200.00
LBSX-0522-GF16	Bacteroides xylanisolvens	Bacteroides xylanisolvens was isolated from wild mouse. It is a Gram-negative, non-sporulating, rod shaped bacteria.			Inquiry
LBSX-0522-GF17	Bacteroides xylanisolvens; 801409	Bacteroides xylanisolvens was isolated from the weaned piglets feces. It is a Gram-negative, non-sporulating, rod shaped bacteria.			Inquiry
LBSX-0522-GF18	Bacteroides acidifaciens	Bacteroides acidifaciens A40 is an anaerobe, mesophilic bacterium that was isolated from caecal content; wildtype C57BL/6 mouse.	200 µg	$1600.00
LBSX-0522-GF19	Bacteroides acidifaciens; 100502	Bacteroides acidifaciens was isolated from wild mouse. It is a Gram-negative, anaerobe, mesophilic bacterium.			Inquiry
LBGF-0722-GF98	Bacteroides thetaiotaomicron; 2079	Bacteroides thetaiotaomicron is a species of bacterium of the genus Bacteroides. It is a Gram-negative obligate anaerobe. It is one of the most common bacteria found in human gut microbiota.	200 µg	$1176.00

For Research Use Only. Not intended for use in food manufacturing or medical procedures (diagnostics or therapeutics). Do Not Use in Humans.

Creative Biolabs' Expertise in Bacteroides Probiotics Development

Creative Biolabs has established itself as a leading innovator in the development of next-generation probiotics, including Bacteroides-based strains. With years of expertise in microbiome research, the company leverages cutting-edge technologies and a multidisciplinary team to advance the discovery, characterization, and application of Bacteroides probiotics.

Extensive Strain Library

We maintain a comprehensive, well-characterized repository of Bacteroides strains, carefully selected for their probiotic potential and research applications.

Advanced Genomic and Functional Analysis

Using whole-genome sequencing, transcriptomics, and metabolomics, Creative Biolabs characterizes Bacteroides strains to understand their functional attributes and safety profile.

Customized Research Solutions

We offers tailored solutions for Bacteroides strain isolation, in vitro and in vivo testing, as well as probiotic formulation development services.

Collaborative Partnerships

We collaborate with academic institutions, pharmaceutical companies, and biotech firms to accelerate research and commercialize Bacteroides-based probiotic products.

Fig. 12 Bacteroides probiotics development solutions advantages (Creative Biolabs Authorized)

What Our Customers Say

"We sourced Bacteroides lyophilized powder from Creative Biolabs for a preclinical study, and the quality exceeded our expectations. The powder maintained high viability and stability throughout our experiments, leading to consistent and reliable results in our metabolic research. Their strict contamination control and precise bacterial concentration preparation were evident in the product's performance. Having worked with multiple suppliers, I can confidently say Creative Biolabs stands out for their meticulous approach and commitment to quality."

James Reynolds Microbiome Research Lead at a Biotech Firm

"Our research on gut microbiota modulation required in vivo studies on Bacteroides strains, and Creative Biolabs provided a seamless experience from study design to execution. Their in vivo evaluation services were incredibly thorough, with well-documented methodologies and insightful data analysis. The team's deep knowledge in microbiome-host interactions helped us interpret complex results, guiding our next steps in strain selection for further studies. I was particularly impressed with their technical support, which remained proactive throughout the entire collaboration."

Dr. Sophia Mitchell Principal Investigator at an Academic Research Institute

FAQs About Our Bacteroides Development Services

What makes Bacteroides an ideal candidate for next-generation probiotics?

Bacteroides species play a crucial role in gut homeostasis, metabolism, and immune regulation. Their ability to degrade complex polysaccharides, produce beneficial metabolites, and modulate immune responses makes them promising probiotic candidates.

How stable are Bacteroides probiotics during storage and formulation?

Due to their anaerobic nature, Bacteroides strains require specialized lyophilization techniques and protective formulations to maintain viability during storage, transportation, and incorporation into probiotic products.

How can Creative Biolabs assist in Bacteroides probiotic research and development?

Creative Biolabs provides a comprehensive suite of services, including strain isolation, functional evaluation, safety assessments, and custom probiotic formulation development. Our expertise ensures high-quality, research-driven solutions for Bacteroides probiotic applications.

Related Resources

Fig. 13 Custom small scale probiotic production brochure (Creative Biolabs Original)

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Fig. 14 Probiotic strain products for NGP research brochure (Creative Biolabs Original)

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Fig. 15 MIC test brochure (Creative Biolabs Original)

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Fig. 16 Custom lab-scale production of 3 probiotics brochure (Creative Biolabs Original)

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References

Xia, Yiyuan, et al. " Bacteroides Fragilis in the Gut Microbiomes of Alzheimer's disease activates microglia and triggers pathogenesis in neuronal C/EBPβ transgenic mice." Nature Communications 14 (2023): 5471. https://doi.org/10.1038/s41467-023-41283-w
Liu, Wu, et al. "The Metabolite Indole‐3‐Acetic Acid of Bacteroides Ovatus Improves Atherosclerosis by Restoring the Polarisation Balance of M1/M2 Macrophages and Inhibiting Inflammation." Advanced Science (2025): 2413010. https://doi.org/10.1002/advs.202413010

Bacteroides Probiotics Development Solutions for Microbiome Research