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Reyes G, Betancourt I, Andrade B, Panchana F, Román R, Sorroza L, Trujillo LE, Bayot B. Microbiome of Penaeus vannamei Larvae and Potential Biomarkers Associated With High and Low Survival in Shrimp Hatchery Tanks Affected by Acute Hepatopancreatic Necrosis Disease. Front Microbiol 2022; 13:838640. [PMID: 35615516 PMCID: PMC9125206 DOI: 10.3389/fmicb.2022.838640] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2021] [Accepted: 03/21/2022] [Indexed: 11/13/2022] Open
Abstract
Acute hepatopancreatic necrosis disease (AHPND) is an emerging bacterial disease of cultured shrimp caused mainly by Vibrio parahaemolyticus, which harbors the lethal PirAB toxin genes. Although Penaeus vannamei (P. vannamei) postlarvae are susceptible to AHPND, the changes in the bacterial communities through the larval stages affected by the disease are unknown. We characterized, through high-throughput sequencing, the microbiome of P. vannamei larvae infected with AHPND-causing bacteria through the larval stages and compared the microbiome of larvae collected from high- and low-survival tanks. A total of 64 tanks from a commercial hatchery were sampled at mysis 3, postlarvae 4, postlarvae 7, and postlarvae 10 stages. PirAB toxin genes were detected by PCR and confirmed by histopathology analysis in 58 tanks. Seven from the 58 AHPND-positive tanks exhibited a survival rate higher than 60% at harvest, despite the AHPND affectation, being selected for further analysis, whereas 51 tanks exhibited survival rates lower than 60%. A random sample of 7 out of these 51 AHPND-positive tanks was also selected. Samples collected from the selected tanks were processed for the microbiome analysis. The V3–V4 hypervariable regions of the 16S ribosomal RNA (rRNA) gene of the samples collected from both the groups were sequenced. The Shannon diversity index was significantly lower at the low-survival tanks. The microbiomes were significantly different between high- and low-survival tanks at M3, PL4, PL7, but not at PL10. Differential abundance analysis determined that biomarkers associated with high and low survival in shrimp hatchery tanks affected with AHPND. The genera Bacillus, Vibrio, Yangia, Roseobacter, Tenacibaculum, Bdellovibrio, Mameliella, and Cognatishimia, among others, were enriched in the high-survival tanks. On the other hand, Gilvibacter, Marinibacterium, Spongiimonas, Catenococcus, and Sneathiella, among others, were enriched in the low-survival tanks. The results can be used to develop applications to prevent losses in shrimp hatchery tanks affected by AHPND.
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Affiliation(s)
- Guillermo Reyes
- Centro Nacional de Acuicultura e Investigaciones Marinas (CENAIM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
- Facultad de Ciencias de la Vida (FCV), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
- *Correspondence: Guillermo Reyes,
| | - Irma Betancourt
- Centro Nacional de Acuicultura e Investigaciones Marinas (CENAIM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
| | - Betsy Andrade
- Centro Nacional de Acuicultura e Investigaciones Marinas (CENAIM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
| | - Fanny Panchana
- Centro Nacional de Acuicultura e Investigaciones Marinas (CENAIM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
| | - Rubén Román
- Centro Nacional de Acuicultura e Investigaciones Marinas (CENAIM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
| | - Lita Sorroza
- Facultad de Ciencias Agropecuarias, Universidad Técnica de Machala, Machala, Ecuador
| | - Luis E. Trujillo
- Industrial Biotechnology Research Group, Center for Nanoscience and Nanotechnology (CENCINAT), Universidad de las Fuerzas Armadas (ESPE), Sangolquí, Ecuador
| | - Bonny Bayot
- Centro Nacional de Acuicultura e Investigaciones Marinas (CENAIM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
- Facultad de Ingeniería Marítima y Ciencias del Mar (FIMCM), Escuela Superior Politécnica del Litoral (ESPOL), Guayaquil, Ecuador
- Bonny Bayot,
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Deng R, Chen X, Qiu LP, Chen JZ, Meng SL. Bacterial Community Structure and Diversity in the Aqueous Environment of Shihou Lake and its Relationship with Environmental Factors. Indian J Microbiol 2021; 61:475-486. [PMID: 34744203 PMCID: PMC8542029 DOI: 10.1007/s12088-021-00974-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Accepted: 08/11/2021] [Indexed: 10/20/2022] Open
Abstract
Microorganisms are sensitive to changes in the external environment and are often used as indicators to monitor and reflect water quality. Using Illumina MiSeq sequencing, the characteristics of the microbial community in Shihou Lake water at different time points were analyzed and the key environmental factors affecting the bacterial community were identified. The microbial community diversity in Shihou Lake water was rich and showed significant differences over time. The main bacterial phyla were the Cyanobacteria, Proteobacteria, Actinobacteria, Verrucomicrobia, Bacteroidetes, Chloroflexi, Planctomycetes, Firmicutes, Chlorobi, WS6 and Saccharibacteria. The relative abundance of these major phyla in the sample accounted for 97.83%-99.07% of the total abundance; Cyanobacteria had the highest relative abundance, accounting for 13.07%-44.61% of the total, and the abundance of each dominant phylum was significantly different at different time points. The Shannon and Simpson indexes showed that the diversity of each month was as follows: August > October > July > September > November. The Chao1 and Ace indexes indicated that the order of richness was: November > October > July > August > September. Beta diversity analysis found significant differences in the samples from month to month. Environmental factors such as temperature, total nitrogen, chlorophyll-a, permanganate index, nitrite, pH and ammonia nitrogen had significant effects on microbial community structure.
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Affiliation(s)
- Ru Deng
- National Demonstration Center for Experimental Fisheries Science Education; Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture; Centre for Research On Environmental Ecology and Fish Nutrion of the Ministry of Agriculture, Shanghai Ocean University, Shanghai, 201306 China
| | - Xi Chen
- Freshwater Fisheries Research Center; Laboratory of Quality & Safety Risk Assessment for Aquatic Products On Environmental Factors, Ministry of Agriculture; Key Laboratory of Fishery Eco-Environment Assessment and Resource Conservation in Middle and Lower Reaches of the Yangtze River, Chinese Academy of Fishery Sciences (CAFS), Wuxi, 214081 China
| | - Li-Ping Qiu
- Freshwater Fisheries Research Center; Laboratory of Quality & Safety Risk Assessment for Aquatic Products On Environmental Factors, Ministry of Agriculture; Key Laboratory of Fishery Eco-Environment Assessment and Resource Conservation in Middle and Lower Reaches of the Yangtze River, Chinese Academy of Fishery Sciences (CAFS), Wuxi, 214081 China
| | - Jia-Zhang Chen
- Freshwater Fisheries Research Center; Laboratory of Quality & Safety Risk Assessment for Aquatic Products On Environmental Factors, Ministry of Agriculture; Key Laboratory of Fishery Eco-Environment Assessment and Resource Conservation in Middle and Lower Reaches of the Yangtze River, Chinese Academy of Fishery Sciences (CAFS), Wuxi, 214081 China
| | - Shun-Long Meng
- Freshwater Fisheries Research Center; Laboratory of Quality & Safety Risk Assessment for Aquatic Products On Environmental Factors, Ministry of Agriculture; Key Laboratory of Fishery Eco-Environment Assessment and Resource Conservation in Middle and Lower Reaches of the Yangtze River, Chinese Academy of Fishery Sciences (CAFS), Wuxi, 214081 China
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Fatsi PSK, Appiah EK, Ogasawara C, Tettey PA, Hashem S, Saito H, Kawai K. 16S rRNA Gene Sequence Identification of Cultivable-Bacterioplankton Between Ambient Water and Gastrointestinal Tract (GIT) of Resident Teleost. Indian J Microbiol 2021; 62:187-194. [DOI: 10.1007/s12088-021-00992-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Accepted: 10/23/2021] [Indexed: 10/19/2022] Open
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Bae J, Cho HW, Jung H, Park J, Yun S, Ha S, Lee Y, Kim TJ. Changes in Intestinal Microbiota Due to the Expanded Polystyrene Diet of Mealworms ( Tenebrio molitor). Indian J Microbiol 2021; 61:130-136. [PMID: 33927454 DOI: 10.1007/s12088-021-00922-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 02/07/2021] [Indexed: 10/22/2022] Open
Abstract
Expanded polystyrene (EPS), which is difficult to decompose, is usually buried or incinerated, causing the natural environment to be contaminated with microplastics and environmental hormones. Digestion of EPS by mealworms has been identified as a possible biological solution to the problem of pollution, but the complete degradation mechanism of EPS is not yet known. Intestinal microorganisms play a significant role in the degradation of EPS by mealworms, and relatively few other EPS degradation microorganisms are currently known. This study observed significant differences in the intestinal microbiota of mealworms according to the dietary results of metagenomics analysis and biodiversity indices. We have proposed two new candidates of EPS-degrading bacteria, Cronobacter sakazakii and Lactococcus garvieae, which increased significantly in the EPS feeding group population. The population change and the new two bacteria will help us understand the biological mechanism of EPS degradation and develop practical EPS degradation methods.
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Affiliation(s)
- Jihye Bae
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Hong Woo Cho
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Hyejin Jung
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Jusang Park
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Seohee Yun
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Seungwon Ha
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Yongju Lee
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
| | - Tae-Jong Kim
- Department of Forest Products and Biotechnology, Kookmin University, Seoul, 02707 Republic of Korea
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Heyse J, Props R, Kongnuan P, De Schryver P, Rombaut G, Defoirdt T, Boon N. Rearing water microbiomes in white leg shrimp (Litopenaeus vannamei) larviculture assemble stochastically and are influenced by the microbiomes of live feed products. Environ Microbiol 2020; 23:281-298. [PMID: 33169932 DOI: 10.1111/1462-2920.15310] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Revised: 10/21/2020] [Accepted: 11/06/2020] [Indexed: 01/22/2023]
Abstract
The development of effective management strategies to reduce the occurrence of diseases in aquaculture is hampered by the limited knowledge on the microbial ecology of these systems. In this study, the dynamics and dominant community assembly processes in the rearing water of Litopenaeus vannamei larviculture tanks were determined. Additionally, the contribution of peripheral microbiomes, such as those of live and dry feeds, to the rearing water microbiome were quantified. The community assembly in the hatchery rearing water over time was dominated by stochasticity, which explains the observed heterogeneity between replicate cultivations. The community undergoes two shifts that match with the dynamics of the algal abundances in the rearing water. Source tracking analysis revealed that 37% of all bacteria in the hatchery rearing water were introduced either by the live or dry feeds, or during water exchanges. The contribution of the microbiome from the algae was the largest, followed by that of the Artemia, the exchange water and the dry feeds. Our findings provide fundamental knowledge on the assembly processes and dynamics of rearing water microbiomes and illustrate the crucial role of these peripheral microbiomes in maintaining health-promoting rearing water microbiomes.
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Affiliation(s)
- Jasmine Heyse
- Center for Microbial Ecology and Technology (CMET), Department of Biochemical and Microbial Technology, Ghent University, Coupure Links 653, Ghent, 9000, Belgium
| | - Ruben Props
- Center for Microbial Ecology and Technology (CMET), Department of Biochemical and Microbial Technology, Ghent University, Coupure Links 653, Ghent, 9000, Belgium
| | | | | | - Geert Rombaut
- INVE Technologies NV, Hoogveld 93, Dendermonde, 9200, Belgium
| | - Tom Defoirdt
- Center for Microbial Ecology and Technology (CMET), Department of Biochemical and Microbial Technology, Ghent University, Coupure Links 653, Ghent, 9000, Belgium
| | - Nico Boon
- Center for Microbial Ecology and Technology (CMET), Department of Biochemical and Microbial Technology, Ghent University, Coupure Links 653, Ghent, 9000, Belgium
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