are Prevalent and Ecologically Crucial Bacterial Members in Marine Biofloc Aquaculture

Albertsen, M., Hugenholtz, P., Skarshewski, A., Nielsen, K. L., Tyson, G. W., & Nielsen, P. H. (2013). Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes. Nature Biotechnology, 31, 533–538.

Article  CAS  PubMed  Google Scholar 

Bolyen, E., Rideout, J. R., Dillon, M. R., Bokulich, N. A., Abnet, C. C., Al-Ghalith, G. A., Alexander, H., Alm, E. J., Arumugam, M., Asnicar, F., et al. (2019). Reproducible, interactive, scalable, and extensible microbiome data science using QIIME 2. Nature Biotechnology, 37, 852–857.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Bossier, P., & Ekasari, J. (2017). Biofloc technology application in aquaculture to support sustainable development goals. Microbial Biotechnology, 10, 1012–1016.

Article  PubMed  PubMed Central  Google Scholar 

Bovio-Winkler, P., Cabezas, A., & Etchebehere, C. (2024). Unveiling the hidden diversity and functional role of Chloroflexota in full-scale wastewater treatment plants through genome-centric analyses. ISME Communications, 4, ycae050.

Article  Google Scholar 

Cardona, E., Gueguen, Y., Magré, K., Lorgeoux, B., Piquemal, D., Pierrat, F., Noguier, F., & Saulnier, D. (2016). Bacterial community characterization of water and intestine of the shrimp Litopenaeus stylirostris in a biofloc system. BMC Microbiology, 16, 1–9.

Article  Google Scholar 

Chaumeil, P.-A., Mussig, A. J., Hugenholtz, P., & Parks, D. H. (2022). GTDB-Tk v2: Memory friendly classification with the genome taxonomy database. Bioinformatics, 38, 5315–5316.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chklovski, A., Parks, D. H., Woodcroft, B. J., & Tyson, G. W. (2023). CheckM2: A rapid, scalable, and accurate tool for assessing microbial genome quality using machine learning. Nature Methods, 20, 1203–1212.

Article  CAS  PubMed  Google Scholar 

Crab, R., Defoirdt, T., Bossier, P., & Verstraete, W. (2012). Biofloc technology in aquaculture: Beneficial effects and future challenges. Aquaculture, 356, 351–356.

Article  Google Scholar 

Cytryn, E., van Rijn, J., Schramm, A., Gieseke, A., de Beer, D., & Minz, D. (2005). Identification of bacteria potentially responsible for oxic and anoxic sulfide oxidation in biofilters of a recirculating mariculture system. Applied and Environmental Microbiology, 71, 6134–6141.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Dang, H., & Lovell, C. R. (2016). Microbial surface colonization and biofilm development in marine environments. Microbiology and Molecular Biology Reviews, 80, 91–138.

Article  CAS  PubMed  Google Scholar 

Dashtbin, R., Mahmoudi, N., Besharati, H., & Lalevic, B. (2023). Identification of sulfur-oxidizing bacteria from fishponds and their performance to remove hydrogen sulfide under aquarium conditions. Brazilian Journal of Microbiology, 54, 3163–3172.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Deng, C., Zhao, R., Qiu, Z., Li, B., Zhang, T., Guo, F., Mu, R., Wu, Y., Qiao, X., Zhang, L., et al. (2022). Genome-centric metagenomics provides new insights into the microbial community and metabolic potential of landfill leachate microbiota. Science of the Total Environment, 816, 151635.

Article  CAS  PubMed  Google Scholar 

Deng, M., Chen, J., Gou, J., Hou, J., Li, D., & He, X. (2018). The effect of different carbon sources on water quality, microbial community, and structure of biofloc systems. Aquaculture, 482, 103–110.

Article  CAS  Google Scholar 

Deng, M., Dai, Z., Senbati, Y., Li, L., Song, K., & He, X. (2020). Aerobic denitrification microbial community and function in zero-discharge recirculating aquaculture system using a single biofloc-based suspended growth reactor: Influence of the carbon-to-nitrogen ratio. Frontiers in Microbiology, 11, 1760.

Article  PubMed  PubMed Central  Google Scholar 

Ding, W., Wang, S., Qin, P., Fan, S., Su, X., Cai, P., Lu, J., Cui, H., Wang, M., Shu, Y., et al. (2023). Anaerobic thiosulfate oxidation by the Roseobacter group is prevalent in marine biofilms. Nature Communications, 14, 2033.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Dogs, M., Wemheuer, B., Wolter, L., Bergen, N., Daniel, R., Simon, M., & Brinkhoff, T. (2017). Rhodobacteraceae on the marine brown alga Fucus spiralis are abundant and show physiological adaptation to an epiphytic lifestyle. Systematic and Applied Microbiology, 40, 370–382.

Article  CAS  PubMed  Google Scholar 

Dong, P., Guo, H., Huang, L., Zhang, D., & Wang, K. (2023). Glucose addition improves the culture performance of Pacific white shrimp by regulating the assembly of Rhodobacteraceae taxa in the gut bacterial community. Aquaculture, 567, 739254.

Article  CAS  Google Scholar 

Durazzi, F., Sala, C., Castellani, G., Manfreda, G., Remondini, D., & De Cesare, A. (2021). Comparison between 16S rRNA and shotgun sequencing data for the taxonomic characterization of the gut microbiota. Scientific Reports, 11, 3030.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Elifantz, H., Horn, G., Ayon, M., Cohen, Y., & Minz, D. (2013). Rhodobacteraceae are the key members of the microbial community of the initial biofilm formed in Eastern Mediterranean coastal seawater. FEMS Microbiology Ecology, 85, 348–357.

Article  CAS  PubMed  Google Scholar 

Guo, H., Fu, X., He, J., Wang, R., Yan, M., Wang, J., Dong, P., Huang, L., & Zhang, D. (2023a). Gut bacterial consortium enriched in a biofloc system protects shrimp against Vibrio parahaemolyticus infection. Microbiome, 11, 230.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Guo, H., Huang, L., Hu, S., Chen, C., Huang, X., Liu, W., Wang, S., Zhu, Y., Zhao, Y., & Zhang, D. (2020). Effects of carbon/nitrogen ratio on growth, intestinal microbiota, and metabolome of shrimp (Litopenaeus vannamei). Frontiers in Microbiology, 11, 652.

Article  PubMed  PubMed Central  Google Scholar 

Guo, X., Lai, C. Y., Hartmann, E. M., & Zhao, H. P. (2023b). Heterotrophic denitrification: An overlooked factor that contributes to nitrogen removal in n-DAMO mixed culture. Environmental Research, 216, 114802.

Article  CAS  PubMed  Google Scholar 

Hao, Z. L., Ali, A., Ren, Y., Su, J. F., & Wang, Z. (2022). A mechanistic review on aerobic denitrification for nitrogen removal in water treatment. Science of the Total Environment, 847, 157452.

Article  CAS  PubMed  Google Scholar 

Huang, L., Guo, H., Chen, C., Huang, X., Chen, W., Bao, F., Liu, W., Wang, S., & Zhang, D. (2020). The bacteria from large-sized bioflocs are more associated with the shrimp gut microbiota in culture system. Aquaculture, 523, 735159.

Article  CAS  Google Scholar 

Jeong, S.-W., Han, J. E., Lee, J.-Y., Yoo, J.-H., Kim, D.-Y., Jeong, I. C., Choi, J. W., Jeong, Y. S., Lee, J. Y., Lee, S. Y., et al. (2022). Description of Polaribacter batillariae sp. nov., Polaribacter cellanae sp. nov., and Polaribacter pectinis sp. nov., novel bacteria isolated from the gut of three types of South Korean shellfish. Journal of Microbiology, 60, 576–584.

Article  CAS  PubMed  Google Scholar 

Kang, S., Lee, J.-Y., Han, J. E., Jeong, Y.-S., Gim, D.-H., & Bae, J.-W. (2022). Description of Flavobacterium cyclinae sp. nov. and Flavobacterium channae sp. nov., isolated from the intestines of Cyclina sinensis (Corb shell) and Channa argus (Northern snakehead). Journal of Microbiology, 60, 890–898.

Article  CAS  PubMed  Google Scholar 

Khanjani, M. H., Mohammadi, A., & Emerenciano, M. G. C. (2022). Microorganisms in biofloc aquaculture system. Aquaculture Reports, 26, 101300.

Article  Google Scholar 

Kim, S.-J., Kim, Y.-S., Kim, S.-E., Jung, H.-K., Park, J., Yu, M.-J., & Kim, K.-H. (2022a). Rasiella rasia gen. nov. sp. nov. within the family Flavobacteriaceae isolated from seawater recirculating aquaculture system. Journal of Microbiology, 60, 1070–1076.

Article  PubMed  Google Scholar 

Kim, S. K., Song, J., Rajeev, M., Kim, S. K., Kang, I., Jang, I. K., & Cho, J. C. (2022b). Exploring bacterioplankton communities and their temporal dynamics in the rearing water of a biofloc-based shrimp (Litopenaeus vannamei) aquaculture system. Frontiers in Microbiology, 13, 995699.

Article  PubMed  PubMed Central  Google Scholar 

Lapébie, P., Lombard, V., Drula, E., Terrapon, N., & Henrissat, B. (2019). Bacteroidetes use thousands of enzyme combinations to break down glycans. Nature Communications, 10, 2043.

Article  PubMed 

Comments (0)

No login
gif