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Proteomic analysis of Bacteroides thetaiotaomicron and Bacteroides acidifaciens following cultivation on hyaluronan and a standard substrate

ABSTRACT: This project investigates proteomic adaptations of Bacteroides thetaiotaomicron and Bacteroides acidifaciens in response to hyaluronan as the sole glycosaminoglycan carbon source. Both species were cultivated in a standard medium and in a hyaluronan-based minimal medium, and their proteomes were analyzed by LC-MS/MS. The study aimed to identify global shifts in protein expression between growth conditions and to pinpoint specific proteins involved in hyaluronan degradation pathways. Comparative analysis between the two cultivation conditions provides insight into how gut-associated Bacteroides species regulate metabolic and enzymatic machinery for glycosaminoglycan utilization.

INSTRUMENT(S):

ORGANISM(S): Bacteroides Thetaiotaomicron Bacteroides Acidifaciens

TISSUE(S): Cell Culture

SUBMITTER: Pavel Roudnický

LAB HEAD: Zbynek Zdrahal

PROVIDER: PXD067466 | Pride | 2026-02-23

REPOSITORIES: Pride

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			Action	DRS
	BAHA_1.d.zip	Other
	BAHA_2.d.zip	Other
	BAHA_3.d.zip	Other
	BA_1.d.zip	Other
	BA_2.d.zip	Other

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Publications

Revisiting Hyaluronan Catabolism in Bacteroides: Pathway Conservation, Overlooked Proteins, and Predictive Accuracy.

Sindelar Martin M Kocurkova Anna A Simek Matej M Roudnicky Pavel P Ambrozova Gabriela G Kubala Lukas L Turkova Kristyna K

MicrobiologyOpen 20260201 1

The ability of gut microbes to degrade host- and diet-derived glycans is central to microbiome ecology and host interactions, yet predicting these functions in silico remains challenging. Hyaluronan (HA), a glycosaminoglycan (GAG) abundant in host tissues and dietary supplements, is depolymerized by specialized polysaccharide utilization loci (PULs) in Bacteroides. Here, we combined comparative protein analysis, functional assays, and quantitative proteomics to evaluate the reliability of sequen ...[more]

PMID: 41645592

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Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats

Project description:We used Affymetrix GeneChips to determine the physiological differences between biofilm and planktonic cells of Bacteroides thetaiotaomicron strain VPI-5482 (ATCC 29148) by comparing gene expression. For this purpose, B. thetaiotaomicron cells were grown in sterile, continuous flow bioreactors fed with tryptone, yeast extract, glucose (TYG) medium. The bioreactors were controlled at a temperature of 37C using a water jacket and a recirculating water heater. After 8 hours post-inoculation, planktonic cells were harvested from the bulk solution in the bioreactor, and after 8 days post-inoculation, the biofilm was scraped from the carbon paper. RNA was harvested from both biofilm and planktonic populations. RNA was extracted by a phenol:chloroform method and purified with a Qiagen RNA Easy mini-kit. Overall growth conditions are summarized above. The experimental conditions were: biofilm (BF), and planktonic (PL).

2014-01-01 | E-GEOD-38534 | biostudies-arrayexpress

Characterizing the interactions between a naturally-primed IgA (mAb 260.8) and its conserved Bacteroides thetaiotaomicron species-specific epitope in gnotobiotic mice [array]

Project description:Comparisons of gnotobiotic Rag1-/- mice, with and without subcutaneous 260.8 hybridomas, disclosed that this IgA does not affect B. thetaiotaomicron population density or suppress 260.8 epitope production but does affect bacterial gene expression in ways that are emblematic of a diminished host innate immune response. C57BL/6 wildtype, C57BL/6J Rag1-/- , and C57BL/6J Rag1-/- mice harboring the 260.8 IgA producing hybridoma were colonized for 10 days with Bacteroides thetaiotaomicron VPI-5482.

2015-06-29 | E-GEOD-65455 | biostudies-arrayexpress

Pull down of enzymes using alpha-amylase activity based probes from Bacteroides thetaiotaomicron lysate

Project description:This experiment aimed to identify GH13 alpha-amylaases from Bacteroides thetaiotaomicron lysate using activity based probes.

2025-06-16 | PXD053850 | Pride

Arylsulfamates inhibit colonic Bacteroides growth through lipid kinases and not sulfatases

Project description:Excessive degradation of the colonic mucin layer by Bacteroides within the human gut microbiota drives inflammatory bowel disease in mice. Bacterial carbohydrate sulfatases are key enzymes in gut colonization, as they are elevated in human inflammatory bowel disease and correlate with disease severity. Selective inhibitors of carbohydrate sulfatases could function as sulfatase-selective drugs, allowing precise control of sulfatase activity while preserving these otherwise beneficial bacteria. Arylsulfamates are covalent inhibitors that target a catalytic formylglycine residue of steroid sulfatases, which is also conserved in carbohydrate sulfatases. Here, using a library of aryl- and carbohydrate sulfamates, we find that they are ineffective against Bacteroides carbohydrate sulfatases yet can inhibit human gut microbiota species grown on sulfated glycans. Leveraging thermal proteome profiling, we identify a lipid kinase as the target responsible for these effects. This work highlights the imperative for developing specific inhibitors targeting carbohydrate sulfatases and unveils the adverse effect that arylsulfamates have on Bacteroides species of the human gut microbiota.

2025-07-28 | PXD065411 | Pride

Comparative Proteomic Analysis of Fucosylated Glycoproteins in Bacteroides thetaiotaomicron under Different Polysaccharide Nutrition Conditions

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Transcription analysis of E. coli O103:H25 in co-culture with Bacteroides thetaiotaomicron CCUG 10774

Project description:Investigation of whole genome gene expression level changes in E. coli O103:H25 in co-culture with Bacteroides thetaiotaomicron CCUG 10774 compared to when E. coli is cultured individually. A study using total RNA recovered from three separate co-cultures (E. coli O103:H25 and B. thetaiotaomicron 1:100) at OD=0.5, compared to when E. coli is cultured individually (5 separate samples including 1-3 technical replicates of each sample). Three separate samples are also recovered when E. coli is cultured in supernatant from Bacteroides thetaiotaomicron at OD=0.5 compared to when E coli is cultured alone. A comparison is also done after treatment with Mitomycin C (MMC). MMC is added at OD=0.5. There are 3 separate samples from each group that are compared (co-culture versus E. coli grown individually, E. coli in supernatant from B. thetaiotaomicron versus E. coli grown individually).

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Transcription profiling of mouse small intestine from wildtype B6, Rag1-/- B6 and Rag1-/- B6 mice harboring the 225.4 IgA producing hybridoma after infection with Bacteroides thetaiotaomicron

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Transcriptional, Proteomic, and Metabolic Adaptations of Gut Bacteroides and Parabacteroides Hosts to Persistent Bacteriophage Infection In Vitro

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