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Ruminococcus bromii

ABSTRACT: Ruminococcus bromii Genome sequencing and assembly

PROVIDER: PRJNA390910 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR5712035.fastq.gz	Fastqsanger.gz
	SRR5712036.fastq.gz	Fastqsanger.gz
	SRR5712037.fastq.gz	Fastqsanger.gz

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Similar Datasets

Ruminococcus bromii

Project description:Ruminococcus bromii overview

| PRJNA39189 | ENA

Ruminococcus bromii L2-63

Project description:Ruminococcus bromii L2-63 genome sequencing project

| PRJNA39153 | ENA

Spatial constraints drive amylosome-mediated resistant starch degradation by Ruminococcus bromii in the human colon

Project description:Degradation of complex dietary fibers by gut microbes is essential for colonic fermentation, short-chain fatty acid production, and microbiome function. Ruminococcus bromii is the primary resistant starch (RS) degrader in humans, which relies on the amylosome, a specialized cell-bound enzymatic complex. To unravel its structure-function relationship and the interplay among its components, we applied an holistic multilayered approach and found that amylosome combinatorics, resistant starch degradation and enzymatic synergy are regulated at two levels: structural constraints enforcing enzyme proximity and expression-driven shifts in enzyme proportions. Cryo-electron tomography revealed that the amylosome comprises a constitutive extracellular layer extending toward the RS. However, proteomics demonstrated its remodeling across different growth conditions, with Amy4 and Amy16 comprising 60% of the amylosome in response to RS. Structural and biochemical analyses revealed complementarity and synergistic RS degradation by these enzymes, which allow R. bromii to fine-tune its adaptation to dietary fiber and shape colonic metabolism

2025-11-02 | PXD060149 | Pride

Ruminococcus bromii TSDC17.2-1.1

Project description:Strain Ruminococcus bromii TSDC17.2-1.1 (species Ruminococcus bromii) was isolated from the fecal microbiota of a USA female at time point zero (bacterial isolates were sequenced from this donor on day 0 and 49). The species name was assigned by genome clustering.

| PRJEB3777 | ENA

Ruminococcus bromii TSDC10.1-1.1

Project description:Strain Ruminococcus bromii TSDC10.1-1.1 (species Ruminococcus bromii) was isolated from the fecal microbiota of a USA female at time point zero (bacterial isolates were sequenced from this donor on day 0 and 42). The species name was assigned by genome clustering.

| PRJEB3572 | ENA

Ruminococcus bromii TSDC17.2-1.2

Project description:Strain Ruminococcus bromii TSDC17.2-1.2 (species Ruminococcus bromii) was isolated from the fecal microbiota of a USA female at time point zero (bacterial isolates were sequenced from this donor on day 0 and 49). The species name was assigned by genome clustering.

| PRJEB3778 | ENA

Ruminococcus bromii TSDC17.2-1.3

Project description:Strain Ruminococcus bromii TSDC17.2-1.3 (species Ruminococcus bromii) was isolated from the fecal microbiota of a USA female at time point zero (bacterial isolates were sequenced from this donor on day 0 and 49). The species name was assigned by genome clustering.

| PRJEB3779 | ENA

Ruminococcus bromii TSDC10.2-1.1

Project description:Strain Ruminococcus bromii TSDC10.2-1.1 (species Ruminococcus bromii) was isolated from the fecal microbiota of a USA female at time point zero (bacterial isolates were sequenced from this donor on day 0 and 42). The species name was assigned by genome clustering.

| PRJEB3618 | ENA

Sas20 is a highly flexible starch-binding protein in the Ruminococcus bromii cell-surface amylosome

Project description:Ruminococcus bromii is a keystone species in the human gut that has the rare ability to degrade dietary resistant starch (RS). This bacterium secretes a suite of starch-active proteins that work together within larger complexes called amylosomes that allow R. bromii to adhere to and degrade RS. Sas20 is one of the more abundant proteins assembled within amylosomes, but little could be predicted about its molecular features based upon amino acid sequence. Here, we perform a structure-function analysis of Sas20 which features two discrete starch-binding domains separated by a flexible linker. Sas20 domain 1 has an N-terminal β-sandwich followed by a cluster of α-helices and captures the non-reducing end of maltooligosaccharides between these structural features. The crystal structure of a close homolog of Sas20 domain 2 revealed a unique bilobed starch-binding groove that targets the helical 1,4-linked glycan chains found in amorphous regions of amylopectin and crystalline regions of amylose within starch granules. Affinity PAGE and isothermal titration calorimetry demonstrate both domains bind maltoheptaose and soluble starch with relatively high affinity (Kd 20 M) but exhibit limited or no binding to cyclodextrins. Small angle x-ray scattering analysis of the individual and combined domains support that these structures are highly flexible, which may allow the protein to adopt conformations that enhance its starch-targeting efficiency.

2022-06-09 | PXD032013 | Pride

RNA-seq of Ruminococcus bromii L2-63 and Ruminococcus gnavus ATCC 29149 grown in mono- or co-culture with different carbon sources (glucose, soluble or resistant starch)

Project description:The goal was to assess the impact of carbon source and cross-feeding on transcription profile of both bacteria. R. gnavus was grown in monoculture with glucose (Glc). R. bromii was grown in monoculture with soluble (SS) or resistant (RS) starch. R. bromii and R. gnavus were co-cultured with SS or RS. Total RNA was extracted from a culture sample taken at mid- to late exponential phase of growth. rRNA was depleted and mRNA sequenced. 3 biological replicates were prepared for each condition.

2019-07-31 | E-MTAB-7138 | biostudies-arrayexpress

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