Comprehensive genome analyses of Sellimonas intestinalis, a potential biomarker of homeostasis gut recovery

Abstract

Sellimonas intestinalis is a Gram-positive and anaerobic bacterial species previously considered as uncultivable. Although little is known about this Lachnospiraceae family member, its increased abundance has been reported in patients who have recovered from intestinal homeostasis after dysbiosis events. In this context, the aim of the present study was to take advantage of a massive in vitro culture protocol that allowed the recovery of extremely oxygen-sensitive species from faecal samples, which led to isolation of S. intestinalis . Whole genome analyses of 11 S . intestinalis genomes revealed that this species has a highly conserved genome with 99.7 % 16S rRNA gene sequence similarity, average nucleotide polymorphism results >95, and 50.1 % of its coding potential being part of the core genome. Despite this, the variable portion of its genome was informative enough to reveal the existence of three lineages (lineage-I including isolates from Chile and France, lineage-II from South Korea and Finland, and lineage-III from China and one isolate from the USA) and evidence of some recombination signals. The identification of a cluster of orthologous groups revealed a high number of genes involved in metabolism, including amino acid and carbohydrate transport as well as energy production and conversion, which matches with the metabolic profile previously reported for microbiota from healthy individuals. Additionally, virulence factors and antimicrobial resistance genes were found (mainly in lineage-III), which could favour their survival during antibiotic-induced dysbiosis. These findings provide the basis of knowledge about the potential of S. intestinalis as a bioindicator of intestinal homeostasis recovery and contribute to advancing the characterization of gut microbiota members with beneficial potential.

Dietary ellagic acid ameliorated Clostridium perfringens-induced subclinical necrotic enteritis in broilers via regulating inflammation and cecal microbiota

“…The cecal microbiota in EAXCP group was quite different from the other three groups. The increased abundance of Sellimonas has been reported as a potential biomarker of homeostasis gut recovery after dysbiosis events [ 53 ], Bacteroidales was thought to be involved in the synthesis of fatty acids and was beneficial to the health of the host [ 54 ], Erysipelotrichaceae was highly abundant in good FCR broilers [ 55 ], and mice fed with normal diet possessed more abundant of Monoglobaceae and RF39 than those fed with high fat diet [ 56 ]. Rhodobacteraceae is widely reported in aquatic animals or marine environments and has no adverse effects on host health.…”

<i>Bacillus subtilis</i>-Fermented Products Ameliorate the Growth Performance, Alleviate Intestinal Inflammatory Gene Expression, and Modulate Cecal Microbiota Community in Broilers during the Starter Phase under Dextran Sulfate Sodium Challenge

“…Whether BSFP supplementation at 3 g/kg can promote short-chain fatty acid production in cecal digesta remains to be confirmed in the future. Bacteria of the genus Sellimonas are considered a potential biomarker of homeostasis gut recovery (Muñoz et al, 2020). In the present study, the abundance of the genus Sellimonas specifically increased in the D group, but fell back to normal levels when BSFP (1 and 3 g/kg) was supplied in the diet.…”

Exploration of the Characteristics of Intestinal Microbiota and Metabolomics in Different Rat Models of Mongolian Medicine

“…ere were 11, 18, and 8 bacterial biomarkers that were increased only in Heyi, Xila, and Badagan rats, respectively. Some of these bacterial genera have been associated with diseases, such as Faecalibacterium [34], Prevotella_1 [35], Prevotellaceae [36], Alistipes [37], Bilophila [38], Hungatella [39], and Sellimonas [40], which might contribute to diseases in Mongolian medicine. In addition, the differential KEGG pathways were found between Mongolian medicine rat models and control group rats.…”