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2017 ; 27
(4
): 601-612
Nephropedia Template TP
gab.com Text
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English Wikipedia
Identical bacterial populations colonize premature infant gut, skin, and oral
microbiomes and exhibit different in situ growth rates
#MMPMID28073918
Olm MR
; Brown CT
; Brooks B
; Firek B
; Baker R
; Burstein D
; Soenjoyo K
; Thomas BC
; Morowitz M
; Banfield JF
Genome Res
2017[Apr]; 27
(4
): 601-612
PMID28073918
show ga
The initial microbiome impacts the health and future development of premature
infants. Methodological limitations have led to gaps in our understanding of the
habitat range and subpopulation complexity of founding strains, as well as how
different body sites support microbial growth. Here, we used metagenomics to
reconstruct genomes of strains that colonized the skin, mouth, and gut of two
hospitalized premature infants during the first month of life. Seven bacterial
populations, considered to be identical given whole-genome average nucleotide
identity of >99.9%, colonized multiple body sites, yet none were shared between
infants. Gut-associated Citrobacter koseri genomes harbored 47 polymorphic sites
that we used to define 10 subpopulations, one of which appeared in the gut after
1 wk but did not spread to other body sites. Differential genome coverage was
used to measure bacterial population replication rates in situ. In all cases
where the same bacterial population was detected in multiple body sites,
replication rates were faster in mouth and skin compared to the gut. The ability
of identical strains to colonize multiple body sites underscores the habit
flexibility of initial colonists, whereas differences in microbial replication
rates between body sites suggest differences in host control and/or resource
availability. Population genomic analyses revealed microdiversity within
bacterial populations, implying initial inoculation by multiple individual cells
with distinct genotypes. Overall, however, the overlap of strains across body
sites implies that the premature infant microbiome can exhibit very low microbial
diversity.