ArticleMicrobiome2022
Robust host source tracking building on the divergent and non-stochastic assembly of gut microbiomes in wild and farmed large yellow croaker.
Article in Microbiome, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 38 citations in OpenAlex.
- Article
- Comparative analysis of morphology and gut microbiome underlying trophic niche differentiation in three stomatopod species.BMC microbiology · 2026Article
- Development of biomarkers for discrimination of farmed and wild silver carp by fatty acid profiling.NPJ science of food · 2025Article
- Comparative gut microbiome research through the lens of ecology: theoretical considerations and best practices.Biological reviews of the Cambridge Philosophical Society · 2025Review
- The Assembly of Fish Gut Microbiomes Through Habitat Variation Provides Insight Into Redbelly Tilapia Invading a Large Subtropical River.Ecology and evolution · 2025Article
- Warming-driven migration of enterotypes mediates host health and disease statuses in ectotherm Litopenaeus vannamei.Communications biology · 2025Article
- Microbial communities associated with the skin, gill, and gut of large yellow croaker (Larimichthys crocea).BMC microbiology · 2025Article
- Characterization and comparison of the fecal bacterial microbiota in Red Back Pine Root Snake (Frontiers in microbiology · 2025Article
- Comparative analysis of the fecal microbiota in Père David's deer and five other captive deer species.Frontiers in microbiology · 2025Article
- Long-Read Sequencing Revealing the Effectiveness of Captive Breeding Strategy for Improving the Gut Microbiota of Spotted Seal (Phoca largha).Marine biotechnology (New York, N.Y.) · 2024Article
- Comparative Analyses ofEcology and evolution · 2024Article
- Gut Microbial Communities Are Seasonally Variable in Warm-Climate Lizards Hibernating in the Winter Months.Microorganisms · 2024Article
- Article
- Metagenomics Analysis Reveals the Composition and Functional Differences of Fecal Microbiota in Wild, Farm, and Released Chinese Three-Keeled Pond Turtles (Animals : an open access journal from MDPI · 2024Article
- Host-microbiome interaction in fish and shellfish: An overview.Fish and shellfish immunology reports · 2023Review
- Midgut Bacterial Microbiota of 12 Fish Species from a Marine Protected Area in the Aegean Sea (Greece).Microbial ecology · 2023Article
- Characteristics of Microbiota in Different Segments of the Digestive Tract ofAnimals : an open access journal from MDPI · 2023Article
- Article
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGiven the lack of genetic background, the source tracking unknown individuals of fish species with both farmed and wild populations often cannot be robustly achieved. The gut microbiome, which is shaped by both deterministic and stochastic processes, can serve as a molecular marker of fish host source tracking, particularly as an alternative to the yet-to-be-established host genetic marker. A candidate for testing the feasibility is the large yellow croaker, Larimichthys crocea, which is carnivorous and ranks the top mariculture fish in China. Wild resource of this fish was depleted decades ago and might have potential problematic estimation because of escaping of farmed individuals.
resultsThe rectums of wild (n = 212) and farmed (n = 79) croakers from multiple batches were collected for the profiling of their gut bacterial communities. The farmed individuals had a higher alpha diversity and lower bacterial load than the wild individuals. The gut microbiota of the two sources exhibited divergence and high inter-batch variation, as featured by the dominance of Psychrobacter spp. in the wild group. Predicted functional capacity of the gut microbiome and representative isolates showed differences in terms of host source. This difference can be linked to the potential diet divergence between farmed and wild fishes. The non-stochastic distribution pattern of the core gut microbiota of the wild and farmed individuals supports the feasibility of microbiota-based host source tracking via the machine learning algorithm. A random forest classifier based on the divergence and non-stochastic assembly of the gut microbiome was robust in terms of host source tracking the individuals from all batches of croaker, including a newly introduced batch.
conclusionsOur study revealed the divergence of gut microbiota and related functional profiles between wild and farmed croakers. For the first time, with representative datasets and non-stochastic patterns, we have verified that gut microbiota can be robustly applied to the tracking of host source even in carnivorous fish. Video abstract.
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