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and
are the predominant bacterial phyla colonizing the healthy human large intestine. Whilst both ferment dietary fibre, genes responsible for this important activity have been analysed only in the
, with very little known about the
. This work investigates the carbohydrate-active enzymes (CAZymes) in a group of
,
spp. and
, which play an important role in producing butyrate from dietary carbohydrates and in health maintenance. Genome sequences of 11 strains representing
and four
spp. were analysed for carbohydrate-active genes. Following assembly into a pan-genome, core, variable and unique genes were identified. The 1840 CAZyme genes identified in the pan-genome were assigned to 538 orthologous groups, of which only 26 were present in all strains, indicating considerable inter-strain variability. This analysis was used to categorize the 11 strains into four carbohydrate utilization ecotypes (CUEs), which were shown to correspond to utilization of different carbohydrates for growth. Many glycoside hydrolase genes were found linked to genes encoding oligosaccharide transporters and regulatory elements in the genomes of
spp. and
, forming distinct polysaccharide utilization loci (PULs). Whilst PULs are also a common feature in
, key differences were noted in these
, including the absence of close homologues of
polysaccharide utilization genes, hence we refer to Gram-positive PULs (gpPULs). Most CAZyme genes in the
/
group are organized into gpPULs. Variation in gpPULs can explain the high degree of nutritional specialization at the species level within this group.