title: Variation in koala microbiomes within and between individuals: effect of body region and captivity status.
abstract: Metagenomic analysis of 16S ribosomal RNA has been used to profile microbial communities at high resolution, and to examine their association with host diet or diseases. We examined the oral and gut microbiome composition of two captive koalas to determine whether bacterial communities are unusual in this species, given that their diet consists almost exclusively of Eucalyptus leaves. Despite a highly specialized diet, koala oral and gut microbiomes were similar in composition to the microbiomes from the same body regions of other mammals. Rectal swabs contained all of the diversity present in faecal samples, along with additional taxa, suggesting that faecal bacterial communities may merely subsample the gut bacterial diversity. Furthermore, the faecal microbiomes of the captive koalas were similar to those reported for wild koalas, suggesting that captivity may not compromise koala microbial health. Since koalas frequently suffer from ocular diseases caused by Chlamydia infection, we also examined the eye microbiome composition of two captive koalas, establishing the healthy baseline for this body part. The eye microbial community was very diverse, similar to other mammalian ocular microbiomes but with an unusually high representation of bacteria from the family Phyllobacteriaceae.
authors.affiliation: Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany.
authors.forename: Niccoló
authors.initials: N
authors.lastname: Alfano
authors.affiliation: Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany.
authors.forename: Alexandre
authors.initials: A
authors.lastname: Courtiol
authors.affiliation: Tiergarten Schönbrunn, Vienna, Austria.
authors.forename: Hanna
authors.initials: H
authors.lastname: Vielgrader
authors.affiliation: University of the Sunshine Coast, Sippy Downs, Queensland, Australia.
authors.forename: Peter
authors.initials: P
authors.lastname: Timms
authors.affiliation: Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
authors.forename: Alfred L
authors.initials: AL
authors.lastname: Roca
authors.affiliation: Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany.
authors.forename: Alex D
authors.initials: AD
authors.lastname: Greenwood
mesh_terms: D000818:Animals; D001419:Bacteria / Q000235:genetics; D005123:Eye / Q000382:microbiology; D005243:Feces / Q000382:microbiology; D000069196:Gastrointestinal Microbiome; D014644:Genetic Variation; D008297:Male; D064307:Microbiota / Q000235:genetics*; D009055:Mouth / Q000382:microbiology; D009928:Organ Specificity; D048368:Phascolarctidae / Q000382:microbiology*; D010802:Phylogeny; D025341:Principal Component Analysis; D012007:Rectum / Q000382:microbiology