title: Composition of Gut Microbiota in the Gibel Carp (Carassius auratus gibelio) Varies with Host Development.
abstract: To understand how a bacteria-free fish gut ecosystem develops microbiota as the fish ages, we performed a 1-year study on the gut microbiota of hatchling gibel carp (Carassius auratus gibelio). Our results indicate that the gut microbial diversity increases significantly as the fish develop. The gut microbial community composition showed significant shifts corresponding to host age and appeared to shift at two time points despite consistent diet and environmental conditions, suggesting that some features of the gut microbial community may be determined by the host's development. Dietary and environmental changes also seem to cause significant shifts in the fish gut microbial community. This study revealed that the gut microbiota of gibel carp assemble into distinct communities at different times during the host's development and that this process is less affected by the surrounding environment than by the host diet and development. Community phylogenetic analyses based on the net relatedness index further showed that environmental filtering (host selection) deterministically governs the gut microbial community composition. More importantly, the influence of host-associated deterministic filtering tends to weaken significantly over the course of the host's development. However, further studies are needed to assess whether this host development-dependent shift in gut microbiota will still exist under different rearing strategies.
authors.affiliation: Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.|University of Chinese Academy of Sciences, Beijing, 100049, China.
authors.forename: Xinghao
authors.initials: X
authors.lastname: Li
authors.affiliation: Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.
authors.forename: Li
authors.initials: L
authors.lastname: Zhou
authors.affiliation: Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.
authors.forename: Yuhe
authors.initials: Y
authors.lastname: Yu
authors.affiliation: Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou, 510070, China.|State Key Laboratory of Applied Microbiology Southern China, Guangzhou, 510070, China.
authors.forename: Jiajia
authors.initials: J
authors.lastname: Ni
authors.affiliation: Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.|University of Chinese Academy of Sciences, Beijing, 100049, China.
authors.forename: Wenjie
authors.initials: W
authors.lastname: Xu
authors.affiliation: Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, and State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China. yanqyun@ihb.ac.cn.|Environmental Microbiome Research Center, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, 510006, China. yanqyun@ihb.ac.cn.
authors.forename: Qingyun
authors.initials: Q
authors.lastname: Yan
mesh_terms: D000818:Animals; D001419:Bacteria / Q000145:classification*; D000069196:Gastrointestinal Microbiome; D006054:Goldfish / Q000254:growth & development / Q000382:microbiology*; D010802:Phylogeny
keywords: 16S rRNA gene; Gibel carp; Gut microbiota; High-throughput sequencing; Net relatedness index; Phylogenetic diversity