Dissecting the Evolutionary Development of the Species
            <i>Bifidobacterium animalis</i>
            through Comparative Genomics Analyses

Lugli, Gabriele Andrea; Mancino, Walter; Milani, Christian; Duranti, Sabrina; Mancabelli, Leonardo; Napoli, Stefania; Mangifesta, Marta; Viappiani, Alice; Anzalone, Rosaria; Sinderen, Douwe van; Ventura, Marco; Turroni, Francesca

doi:10.1128/aem.02806-18

Cited by 15 publications

(17 citation statements)

References 82 publications

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“…longum and B. adolescentis have been detected in the intestinal communities of several mammalian species (7), while B. animalis subsp. lactis and B. dentium have also been reported to enjoy a cosmopolitan lifestyle (20,21). On the other hand, the high prevalence of bifidobacterial taxa that are typically associated with the human gut, i.e., B. breve and B. catenulatum, may be the result of closer or more frequent physical contact between a dog and its owner compared to that between cats and humans (10,22).…”

Section: Resultsmentioning

confidence: 99%

Deciphering the Bifidobacterial Populations within the Canine and Feline Gut Microbiota

Alessandri

Milani

Mancabelli

et al. 2020

Appl Environ Microbiol

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During the course of evolution, dogs and cats have been subjected to extensive domestication, becoming the principal companion animals for humans. For this reason, their health care, including their intestinal microbiota, is considered of considerable importance. However, the canine and feline gut microbiota still represent a largely unexplored research area. In the present work, we profiled the microbiota of 23 feline fecal samples by 16S rRNA gene and bifidobacterial internally transcribed spacer (ITS) approaches and compared this information with previously reported data from 138 canine fecal samples. The obtained data allowed the reconstruction of the core gut microbiota of the above-mentioned samples coupled with their classification into distinct community state types at both genus and species levels, identifying Bacteroides, Fusobacterium, and Prevotella 9 as the main bacterial components of the canine and feline gut microbiota. At the species level, the intestinal bifidobacterial gut communities of dogs and cats differed in terms of both species number and composition, as emphasized by a covariance analysis. Together, our findings show that the intestinal populations of cats and dogs are similar in terms of genus-level taxonomical composition, while at the bifidobacterial species level, clear differences were observed, indicative of host-specific colonization behavior by particular bifidobacterial taxa. IMPORTANCE Currently, domesticated dogs and cats are the most cherished companion animals for humans, and concerns about their health and well-being are therefore important. In this context, the gut microbiota plays a crucial role in maintaining and promoting host health. However, despite the social relevance of domesticated dogs and cats, their intestinal microbial communities are still far from being completely understood. In this study, the taxonomical composition of canine and feline gut microbiota was explored at genus and bifidobacterial species levels, allowing classification of these microbial populations into distinct gut community state types at either of the two investigated taxonomic levels. Furthermore, the reconstruction of core gut microbiota coupled with covariance network analysis based on bifidobacterial internally transcribed spacer (ITS) profiling revealed differences in the bifidobacterial compositions of canine and feline gut microbiota, suggesting that particular bifidobacterial species have developed a selective ability to colonize a specific host.

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Section: Resultsmentioning

confidence: 99%

Deciphering the Bifidobacterial Populations within the Canine and Feline Gut Microbiota

Alessandri

Milani

Mancabelli

et al. 2020

Appl Environ Microbiol

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“…Within bee guts, Bifidobacterium species possess a large number of GH genes associated with hemicellulose and possibly pectin digestion. In general, gut-associated Bifidobacterium are enriched in GH43 (46,47). While Bifidobacterium from bees possess fewer GH genes than strains from other hosts ( 47), all hemicelluloses tested can be used by strains, such as W8111, which had the highest GH43 index.…”

Section: Discussionmentioning

confidence: 99%

Division of labor in honey bee gut microbiota for plant polysaccharide digestion

Zheng

Perreau

Powell

et al. 2019

Proc. Natl. Acad. Sci. U.S.A.

244

243

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Bees acquire carbohydrates from nectar and lipids; and amino acids from pollen, which also contains polysaccharides including cellulose, hemicellulose, and pectin. These potential energy sources could be degraded and fermented through microbial enzymatic activity, resulting in short chain fatty acids available to hosts. However, the contributions of individual microbiota members to polysaccharide digestion have remained unclear. Through analysis of bacterial isolate genomes and a metagenome of the honey bee gut microbiota, we identify thatBifidobacteriumandGilliamellaare the principal degraders of hemicellulose and pectin. BothBifidobacteriumandGilliamellashow extensive strain-level diversity in gene repertoires linked to polysaccharide digestion. Strains from honey bees possess more such genes than strains from bumble bees. InBifidobacterium, genes encoding carbohydrate-active enzymes are colocated within loci devoted to polysaccharide utilization, as inBacteroidesfrom the human gut. Carbohydrate-active enzyme-encoding gene expressions are up-regulated in response to particular hemicelluloses both in vitro and in vivo. Metabolomic analyses document that bees experimentally colonized by different strains generate distinctive gut metabolomic profiles, with enrichment for specific monosaccharides, corresponding to predictions from genomic data. The other 3 core gut species clusters (Snodgrassellaand 2Lactobacillusclusters) possess few or no genes for polysaccharide digestion. Together, these findings indicate that strain composition within individual hosts determines the metabolic capabilities and potentially affects host nutrition. Furthermore, the niche specialization revealed by our study may promote overall community stability in the gut microbiomes of bees.

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“…In this context, genome sequencing was performed for multiple strains belonging to the species B. animalis subsp. lactis [26,27], B. breve [28], and B. longum subsp. longum [28].…”

Section: Genomics Features Of the B Bifidum Speciesmentioning

confidence: 99%

Bifidobacterium bifidum: A Key Member of the Early Human Gut Microbiota

et al. 2019

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Bifidobacteria typically represent the most abundant bacteria of the human gut microbiota in healthy breast-fed infants. Members of the Bifidobacterium bifidum species constitute one of the dominant taxa amongst these bifidobacterial communities and have been shown to display notable physiological and genetic features encompassing adhesion to epithelia as well as metabolism of host-derived glycans. In the current review, we discuss current knowledge concerning particular biological characteristics of the B. bifidum species that support its specific adaptation to the human gut and their implications in terms of supporting host health.

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Dissecting the Evolutionary Development of the Species Bifidobacterium animalis through Comparative Genomics Analyses

Cited by 15 publications

References 82 publications

Deciphering the Bifidobacterial Populations within the Canine and Feline Gut Microbiota

Deciphering the Bifidobacterial Populations within the Canine and Feline Gut Microbiota

Division of labor in honey bee gut microbiota for plant polysaccharide digestion

Bifidobacterium bifidum: A Key Member of the Early Human Gut Microbiota

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