Microbiota comparison of Pacific white shrimp intestine and sediment at freshwater and marine cultured environment

Fan, Lanfen; Wang, Zhenlü; Chen, Miaoshan; Qu, Yuexin; Li, Junyi; Zhou, Aiguo; Xie, Shaolin; Zeng, Fang

doi:10.1016/j.scitotenv.2018.12.069

Cited by 131 publications

(72 citation statements)

References 57 publications

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“…In recent years, there have been increasing pieces of evidence revealing the important roles of the host microbiome in digestion, enhancement of immune system and development in aquatic animals, including shrimp 10,[19][20][21] . Hence, one of the main strategies to reach sustainable production and disease control in aquatic animals is to understand the host-microbial community relationship.…”

Section: Discussionmentioning

confidence: 99%

Bacterial analysis in the early developmental stages of the black tiger shrimp (Penaeus monodon)

Angthong

Uengwetwanit

Arayamethakorn

et al. 2020

Sci Rep

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Microbial colonization is an essential process in the early life of animal hosts-a crucial phase that could help influence and determine their health status at the later stages. The establishment of bacterial community in a host has been comprehensively studied in many animal models; however, knowledge on bacterial community associated with the early life stages of Penaeus monodon (the black tiger shrimp) is still limited. Here, we examined the bacterial community structures in four life stages (nauplius, zoea, mysis and postlarva) of two black tiger shrimp families using 16S rRNA amplicon sequencing by a next-generation sequencing. Although the bacterial profiles exhibited different patterns in each developmental stage, Bacteroidetes, Proteobacteria, Actinobacteria and Planctomycetes were identified as common bacterial phyla associated with shrimp. Interestingly, the bacterial diversity became relatively stable once shrimp developed to postlarvae (5-day-old and 15-dayold postlarval stages), suggesting an establishment of the bacterial community in matured shrimp. To our knowledge, this is the first report on bacteria establishment and assembly in early developmental stages of P. monodon. Our findings showed that the bacterial compositions could be shaped by different host developmental stages where the interplay of various host-associated factors, such as physiology, immune status and required diets, could have a strong influence.

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Section: Discussionmentioning

confidence: 99%

Bacterial analysis in the early developmental stages of the black tiger shrimp (Penaeus monodon)

Angthong

Uengwetwanit

Arayamethakorn

et al. 2020

Sci Rep

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“…Rarefaction analyses were calculated with MOTHER (version 1.30.1) to confirm the diversity indices of each sample. Chao1 and ACE reflect the community richness, Shannon and Simpson reflect the community diversity in different samples [31], and the Coverage index reflects the sequencing depth. Parametric one-way ANOVA was used to test the significance among stems or roots in terms of these indices, and Tukeyʼs post hoc was applied to test the pairwise group differences.…”

Section: Ecological and Statistical Analysesmentioning

confidence: 99%

Endophytic Microbiota Comparison of Dendrobium huoshanense Root and Stem in Different Growth Years

et al. 2019

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The endophytic microbiome in medicinal plants is rich and diverse, but few studies have followed the endophytic microbiome of medicinal plants in different tissues with their growth. In this study, we examined the endophytic bacterial and fungal community structures associated with both the stem and root compartments of Dendrobium huoshanense at different growth years via high-throughput sequencing of 16S rRNA genes and nrDNA fragments of internal transcribed spacer regions. Results indicated that more diverse prokaryotic and fungal operational taxonomic units were detected in roots than in stems, and the alpha diversity of endophytic prokaryotic significantly differed among the 1-, 2-, and 3-year-old roots. The dominant bacterial phyla Proteobacteria Firmicutes, Actinobacteria, Bacteroidetes, and Acidobacteria, and fungal phyla Ascomycota, Basidiomycota, and Ascomycota were detected in the stems and roots with 3 growth years. Moreover, linear discriminant effect size analysis revealed 138 differentially abundant taxonomic clades in the bacterial level, and 197 in the fungal level in six groups. Our results provide evidence for endophytic microbiota communities depending on the tissues and growth years of D. huoshanense. The results from this study should be useful to better understand medicinal plant-microbe interactions.

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“…Through the activity of heterotrophic decomposers, nitrogen and phosphorous are released to stimulate primary production of phytoplankton. Similar microbial community composition was detected between water, sediment and animal gut microbiota [15,16]. Hence, the water and sediment microbiota may serve as a source of the gut microbiota of farmed animals, which influences animal health and growth performance [17,18].…”

Section: Introductionmentioning

confidence: 63%

Feed Types Driven Differentiation of Microbial Community and Functionality in Marine Integrated Multitrophic Aquaculture System

Deng

Zhou

Ruan

et al. 2019

Water

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Integrated multi trophic aquaculture (IMTA) improves the production of aquatic animals by promoting nutrient utilization through different tropical levels. Microorganisms play an important role in elements cycling, energy flow and farmed-species health. The aim of this study was to evaluate how feed types, fresh frozen fish diet (FFD) or formulated diet (FD), influence the microbial community diversity and functionality in both water and sediment in a marine IMTA system. Preferable water quality, higher animal yields and higher cost efficiency were achieved in the FD pond. Feed types changed the pond bacterial community distribution, especially in the rearing water. The FFD pond was dominated with Cyanobacteria in the water, which played an important role in nitrogen fixation through photosynthesis due to the high nitrogen input of the frozen fish diet. The high carbohydrate composition in the formulated diet triggered higher metabolic pathways related to carbon and lipid metabolism in the water of the FD pond. Sediment had significantly higher microbial diversity than the rearing water. In sediment, the dominating genus, Sulfurovum and Desulfobulbus, were found to be positively correlated by network analysis, which had similar functionality in sulfur transformation. The relatively higher rates of antibiotic biosynthesis in the FFD sediment might be related to the pathogenic bacteria introduced by the trash fish diet. The difference in microbial community composition and metabolic pathways may be associated with the different pathways for nutrient cycling and animal growth performance. The formulated diet was determined to be more ecologically and economically sustainable than the frozen fish diet for marine IMTA pond systems.

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Microbiota comparison of Pacific white shrimp intestine and sediment at freshwater and marine cultured environment

Cited by 131 publications

References 57 publications

Bacterial analysis in the early developmental stages of the black tiger shrimp (Penaeus monodon)

Bacterial analysis in the early developmental stages of the black tiger shrimp (Penaeus monodon)

Endophytic Microbiota Comparison of Dendrobium huoshanense Root and Stem in Different Growth Years

Feed Types Driven Differentiation of Microbial Community and Functionality in Marine Integrated Multitrophic Aquaculture System

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