Microbiome of Pacific Whiteleg shrimp reveals differential bacterial community composition between Wild, Aquacultured and AHPND/EMS outbreak conditions

QIIME allows analysis of high-throughput community sequencing data

Caporaso, J. G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F. D., Costello, E. K., Fierer, N., Peña, A. G., Goodrich, J. K., Gordon, J. I., et al. (2010) · Nature Methods · doi:10.1038/nmeth.f.303 · Cited by 34,887

Metagenomic biomarker discovery and explanation

Segata, N., Izard, J., Waldron, L., Gevers, D., Miropolsky, L., Garrett, W. S., & Huttenhower, C. (2011) · Genome Biology · doi:10.1186/gb-2011-12-6-r60 · Cited by 16,192

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

Langille, M. G. I., Zaneveld, J., Caporaso, J. G., McDonald, D., Knights, D., Reyes, J. A., Clemente, J. C., Burkepile, D. E., Vega Thurber, R. L., Knight, R., et al. (2013) · Nature Biotechnology · doi:10.1038/nbt.2676 · Cited by 9,116

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

Bokulich, N. A., Subramanian, S., Faith, J. J., Gevers, D., Gordon, J. I., Knight, R. D., Mills, D. A., & Caporaso, J. G. (2012) · Nature Methods · doi:10.1038/nmeth.2276 · Cited by 4,525

A tale of three next generation sequencing platforms: comparison of Ion torrent, pacific biosciences and illumina MiSeq sequencers

Quail, M., Smith, M. E., Coupland, P., Otto, T. D., Harris, S. R., Connor, T. R., Bertoni, A., Swerdlow, H. P., & Gu, Y. (2012) · BMC Genomics · doi:10.1186/1471-2164-13-341 · Cited by 2,031

The Genus Aeromonas : Taxonomy, Pathogenicity, and Infection

Janda, J. M., & Abbott, S. L. (2010) · Clinical Microbiology Reviews · doi:10.1128/cmr.00039-09 · Cited by 1,766

How glycan metabolism shapes the human gut microbiota

Koropatkin, N. M., Cameron, E. A., & Martens, E. C. (2012) · Nature Reviews Microbiology · doi:10.1038/nrmicro2746 · Cited by 1,419

Performance comparison of benchtop high-throughput sequencing platforms

Loman, N. J., Misra, R., Dallman, T. J., Constantinidou, C., Gharbia, S. E., Wain, J. R., & Pallen, M. J. (2012) · Nature Biotechnology · doi:10.1038/nbt.2198 · Cited by 1,383

Regulation of immune cell function by short‐chain fatty acids

Corrêa‐Oliveira, R., Fachi, J. L., Vieira, A., Sato, F. T., & Vinolo, M. A. R. (2016) · Clinical & Translational Immunology · doi:10.1038/cti.2016.17 · Cited by 1,346

Succession, sources, and assembly of bacterial community in the developing crab larval microbiome

Lu, Z., Ren, Z., Lin, W., Shi, C., Mu, C., Wang, C., Wu, Q., & Ye, Y. (2021) · Aquaculture · doi:10.1016/j.aquaculture.2021.737600 · Cited by 21

Pathobiology of Enterocytozoon hepatopenaei (EHP) in shrimp: Diagnosis and interpretation from the gut bacterial community

Shen, H., Zhang, X., Qian, D., Chen, J., & Xiong, J. (2022) · Aquaculture · doi:10.1016/j.aquaculture.2022.738169 · Cited by 20

White spot syndrome virus impact on the expression of immune genes and gut microbiome of black tiger shrimp Penaeus monodon

Jatuyosporn, T., Laohawutthichai, P., Ochoa‐Romo, J. P., Gallardo-Becerra, L., Sánchez, F., Tassanakajon, A., Ochoa‐Leyva, A., & Krusong, K. (2023) · Scientific Reports · doi:10.1038/s41598-023-27906-8 · Cited by 20

Intestinal Microbiota Differences in Litopenaeus vannamei Shrimp between Greenhouse and Aquaponic Rearing

Dou, Y., Wen, M., Shen, H., Zhang, S., Jiang, G., Qiao, Y., Cheng, J., Cao, X., Wan, X., & Sun, X. (2023) · Life · doi:10.3390/life13020525 · Cited by 20

Changes on the intestinal bacterial community of white shrimp Penaeus vannamei fed with green seaweeds

Elizondo‐González, R., Quiróz-Guzmán, E., Howe, A., Yang, F., Flater, J. S., Gemin, M., Palacios, E., & Peña‐Rodríguez, A. (2020) · Journal of Applied Phycology · doi:10.1007/s10811-020-02072-w · Cited by 20

Changes of bacterial communities and bile acid metabolism reveal the potential “intestine-hepatopancreas axis” in shrimp

Bao, S., Wang, W., Deng, Z., Zhou, R., Zeng, S., Hou, D., He, J., & Huang, Z. (2024) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2024.173384 · Cited by 19

Effects of Hermetia illucens larvae meal on the Pacific white shrimp (Litopenaeus vannamei) revealed by innate immunity and 16S rRNA gene sequencing analysis

Chen, Y., Zhuang, Z., Liu, J., Wang, Z., Guo, Y., Chen, A., Chen, B., Zhao, W., & Niu, J. (2023) · Comparative Biochemistry and Physiology Part D Genomics and Proteomics · doi:10.1016/j.cbd.2023.101080 · Cited by 19

Comparative gut microbiome research through the lens of ecology: theoretical considerations and best practices

Degregori, S., Wang, X., Kommala, A., Schulhof, N., Moradi, S., MacDonald, A., Eblen, K., Jukovich, S., Smith, E., Kelleher, E., et al. (2024) · Biological reviews/Biological reviews of the Cambridge Philosophical Society · doi:10.1111/brv.13161 · Cited by 19

Rapid environmental change shapes pond water microbial community structure and function, affecting mud crab (Scylla paramamosain) survivability

Deng, Y., Cheng, C.-H., Feng, J., Liu, S., Ma, H., Chen, X., Chen, H., & Guo, Z. (2020) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-019-10328-w · Cited by 18

16 S rRNA gene diversity and gut microbial composition of the Indian white shrimp (Penaeus indicus)

Patil, P. K., Vinay, T. N., Ghate, S. D., Baskaran, V., & Avunje, S. (2021) · Antonie van Leeuwenhoek · doi:10.1007/s10482-021-01658-9 · Cited by 18

Effects of fermented soybean meal and guanosine 5'-monophosphate on growth, intestinal health and anti-stress capability of Penaeus vannamei in low fish meal diet

Song, X., Ye, H., Jin, F., Li, H., Kim, Y.-S., Xiao, J., & Guo, Z. (2021) · Aquaculture · doi:10.1016/j.aquaculture.2021.737591 · Cited by 18

Atypical integrative element with strand-biased circularization activity assists interspecies antimicrobial resistance gene transfer from Vibrio alfacsensis

Nonaka, L., Masuda, M., & Yano, H. (2022) · PLoS ONE · doi:10.1371/journal.pone.0271627 · Cited by 16

Effect of functional diets on intestinal microbiota and resistance to Vibrio parahaemolyticus causing acute hepatopancreatic necrosis disease (AHPND) of Pacific white shrimp (Penaeus vannamei)

Quiróz-Guzmán, E., Cabrera-Stevens, M. J., Sánchez‐Paz, A., Mendoza-Cano, F., Encinas-García, T., Barajas-Sandoval, D. R., Gómez‐Gil, B., & Peña‐Rodríguez, A. (2022) · Journal of Applied Microbiology · doi:10.1111/jam.15448 · Cited by 17

The Prebiotic Effect of an Organic Acid Mixture on Faecalibacterium prausnitzii Metabolism and Its Anti-Pathogenic Role against Vibrio parahaemolyticus in Shrimp

Butucel, E., Balta, I., McCleery, D., Marcu, A., Stef, D. S., Peț, I., Callaway, T. R., Ştef, L., & Corcionivoschi, N. (2022) · Biology · doi:10.3390/biology12010057 · Cited by 17

Microbiome analysis reveals microecological advantages of emerging ditchless rice-crayfish co-culture mode

Huang, X., Li, M., Huang, Y., Yang, H., Geng, Y., Ouyang, P., Chen, D., Yin, L., Yang, S., Jiang, J., et al. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.892026 · Cited by 16

Genome-wide analysis of ATP-binding cassette (ABC) transporter in Penaeus vannamei and identification of two ABC genes involved in immune defense against Vibrio parahaemolyticus by affecting NF-κB signaling pathway

Luo, S., Chen, X., Wang, A., Liu, Q., Peng, M., Yang, C., Yin, C.-C., Zhu, W., Zeng, D., Zhang, B., et al. (2024) · International Journal of Biological Macromolecules · doi:10.1016/j.ijbiomac.2024.129984 · Cited by 16

Ecytonucleospora hepatopenaei (EHP) disease prevalence and mortality in Litopenaeus vannamei: a comparative study from Eastern India shrimp farms

Kumar, V., Das, B. K., Dhar, S., Bisai, K., Julyantoro, P. G. S., Zheng, X., Parida, S. N., Adhikari, A., & Jana, A. K. (2024) · BMC Microbiology · doi:10.1186/s12866-024-03681-y · Cited by 16

Alterations in the gut-associated microbiota of juvenile Caribbean spiny lobsters Panulirus argus (Latreille, 1804) infected with PaV1

Zamora‐Briseño, J. A., Cerqueda‐García, D., Hernández-Velázquez, I. M., Rivera-Bustamante, R. F., Huchín-Mian, J. P., Briones‐Fourzán, P., Lozano‐Álvarez, E., & Rodríguez‐Canul, R. (2020) · Journal of Invertebrate Pathology · doi:10.1016/j.jip.2020.107457 · Cited by 16

Solea senegalensis Bacterial Intestinal Microbiota Is Affected by Low Dietary Inclusion of Ulva ohnoi

Cerezo, I. M., Fumanal, M., Tapia-Paniagua, S. T., Bautista, R., Anguís, V., Fernández‐Díaz, C., Alarcón, F. J., Moríñigo, M. Á., & Balebona, M. C. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2021.801744 · Cited by 20

Effects of dietary probiotic (Clostridium butyricum I9, C. butyricum G15, or Paraclostridium bifermentans X13) on growth, digestive enzyme activities, immunity, and intestinal microbiota of Pacific white shrimp (Penaeus vannamei)

Yang, W., Liang, H., Chen, R., Du, Z., Deng, T., Zheng, Y., Song, Y., Duan, Y., Lin, J., Bakky, M. A. H., et al. (2024) · Frontiers in Microbiology · doi:10.3389/fmicb.2024.1479446 · Cited by 15

Complete genome sequence and characterization of a novel Enterococcus faecium with probiotic potential isolated from the gut of Litopenaeus vannamei

de la Cruz, C. M. C., Cornejo‐Granados, F., Gallardo-Becerra, L., Rodríguez-Alegría, M. E., Ochoa‐Leyva, A., & López-Munguı́a, A. (2023) · Microbial Genomics · doi:10.1099/mgen.0.000938 · Cited by 15

Resilience and probiotic interventions to prevent and recover from shrimp gut dysbiosis

Kumar, R., Huang, M., Chen, C.-L., Wang, H., & Lu, H. (2023) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2023.108886 · Cited by 14

Diversity, community structure, and abundance of nirS-type denitrifying bacteria on suspended particulate matter in coastal high-altitude aquaculture pond water

chunyi, K., Wei, S., Wei, M., Chunyu, X., & Changxiu, L. (2024) · Scientific Reports · doi:10.1038/s41598-024-56196-x · Cited by 15

Aberrations in the microbiome of cyanobacteria from a tropical estuary polluted by heavy metals

Jasmin, C., Anas, A., Singh, D., Purohit, H. J., Gireeshkumar, T. R., & Nair, S. (2020) · Marine Pollution Bulletin · doi:10.1016/j.marpolbul.2020.111575 · Cited by 15

Quantifying the Importance of Abiotic and Biotic Factors Governing the Succession of Gut Microbiota Over Shrimp Ontogeny

Zhang, W., Zhu, Z., Chen, J., Qiu, Q., & Xiong, J. (2021) · Frontiers in Microbiology · doi:10.3389/fmicb.2021.752750 · Cited by 15

Bacterial Community Dynamics During Nursery Rearing of Pacific White Shrimp (Litopenaeus vannamei) Revealed via High-Throughput Sequencing

Yan, M., Zhang, X., Hu, L., Huang, X., Zhou, Q., Zeng, G., Zhang, J., Xiao, G., Chai, X., & Chen, J. (2020) · Indian Journal of Microbiology · doi:10.1007/s12088-019-00853-7 · Cited by 15

Gut bacterial community profile in Pacific white shrimp Litopenaeus vannamei following 5‐aminolevulinic acid supplementation

Pedrosa‐Gerasmio, I. R., Nozaki, R., Kondo, H., & Hırono, I. (2020) · Aquaculture Research · doi:10.1111/are.14750 · Cited by 15

Influence of gut microbiome on health and development of penaeid shrimps

Hembrom, P. S., Barik, S., Deepthi, M., Kannoth, S., & Grace, T. (2023) · Aquatic Sciences · doi:10.1007/s00027-023-01018-x · Cited by 15

Genomic identification and characterization of co-occurring Harveyi clade species following a vibriosis outbreak in Pacific white shrimp, Penaeus (litopenaeus) vannamei

Bachand, P. T., Tallman, J. J., Powers, N. C., Woods, M. A., Azadani, D. N., Zimba, P. V., & Turner, J. W. (2019) · Aquaculture · doi:10.1016/j.aquaculture.2019.734628 · Cited by 14

The links among Enterocytozoon hepatopenaei infection, growth retardation and intestinal microbiota in different sized shrimp Penaeus vannamei

Shen, H., Fan, X., Qiao, Y., Jiang, G., Wan, X., Cheng, J., Li, H., Dou, Y., Li, H., Wang, L., et al. (2021) · Aquaculture Reports · doi:10.1016/j.aqrep.2021.100888 · Cited by 14

Biochemical indexes and gut microbiota testing as diagnostic methods for Penaeus monodon health and physiological changes during AHPND infection with food safety concerns

Soo, T. C. C., & Bhassu, S. (2022) · Food Science & Nutrition · doi:10.1002/fsn3.2873 · Cited by 14

Effects of Nannochloropsis oculata and Thalassiosira pseudonana monocultures on growth performance and nutrient composition of Litopenaeus vannamei

Zhang, P., Peng, R., Jiang, X., Jiang, M., & Zeng, G. (2022) · Algal Research · doi:10.1016/j.algal.2022.102769 · Cited by 14

Environmental factors of rearing water and growth performance of shrimp (Penaeus vannamei) in a microalgal monoculture system

Zhang, P., Huang, Q., Peng, R., Jiang, X., Jiang, M., Zeng, G., & Lin, J. (2022) · Aquaculture · doi:10.1016/j.aquaculture.2022.738620 · Cited by 13

Effects of dietary Ginkgo biloba leaf extract on growth performance, immunity and environmental stress tolerance of Penaeus vannamei

Liao, M., Wang, F., Huang, L., Liu, C., Dong, W., Zhuang, X., Yin, X., Liu, Y., & Wang, W. (2022) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2022.108500 · Cited by 14

Dietary Use of Methionine Sources and Bacillus amyloliquefaciens CECT 5940 Influences Growth Performance, Hepatopancreatic Histology, Digestion, Immunity, and Digestive Microbiota of Litopenaeus vannamei Fed Reduced Fishmeal Diets

Casillas‐Hernández, R., González-Galavíz, J. R., Rodríguez-Anaya, L. Z., Núñez, J. C. G., & Rodríguez-Jaramillo, M. D. C. (2022) · Animals · doi:10.3390/ani13010043 · Cited by 14

Quantitative PCR Analysis of Gut Disease-Discriminatory Phyla for Determining Shrimp Disease Incidence

Yu, W., Cao, J., Dai, W., Qiu, Q., & Xiong, J. (2018) · Applied and Environmental Microbiology · doi:10.1128/aem.01387-18 · Cited by 14

Effect of rearing conditions on astaxanthin accumulation in the white shrimp Penaeus vannamei (Boone, 1931)

Lopez, A. Q., Hurtado‐Oliva, M. Á., Manzano‐Sarabia, M., Peraza, D. J. L., Hernández, C., Garcia, S., & Palacios, E. (2019) · Latin American Journal of Aquatic Research · doi:10.3856/vol47-issue2-fulltext-10 · Cited by 14

Microencapsulation of Bacillus subtilis E20 Probiotic, a Promising Approach for the Enrichment of Intestinal Microbiome in White Shrimp, Penaeus vannamei

Cheng, A., Ballantyne, R., Chiu, S.-T., & Liu, C. (2023) · Fishes · doi:10.3390/fishes8050264 · Cited by 13

Response of Gut Microbiota, Digestive Enzyme Ability, and Immune Function to Starvation in the Oriental River Prawn Macrobrachium nipponense

Shen, W., Qu, Y., Zhang, H., Zhang, X., Freeman, B. M., & Ren, G. (2022) · Aquaculture Nutrition · doi:10.1155/2022/6836727 · Cited by 13

Incomplete recovery of gut microbiota in marine medaka (Oryzias melastigma) during the depuration phase, after exposure to sulfamethazine/nanoplastics

Wang, F., Zhang, C., Cai, S., Yang, J., Li, F., Liu, X., Zhang, Y., & Mu, J. (2023) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2023.164841 · Cited by 13

Litopenaeus vannamei fed diets with different replacement levels of fish meal by fish silage: A molecular approach on intestinal microbiota

Shao, J., Jiang, K., & Wang, L. (2019) · Aquaculture Nutrition · doi:10.1111/anu.12900 · Cited by 13

Bacterial, archaeal, and fungal community structure and interrelationships of deep-sea shrimp intestine and the surrounding sediment

Lin, G., Huang, J., Luo, K., Lin, X., Su, M., & Lü, J. (2021) · Environmental Research · doi:10.1016/j.envres.2021.112461 · Cited by 13

The effect of “Fishery-PV Integration” on Penaeus monodon culture and research on the micro-ecological environment

Liao, M., Long, X., He, Z., Zhao, J., Chen, X., Zhu, D., & Sun, C. (2022) · Frontiers in Marine Science · doi:10.3389/fmars.2022.963331 · Cited by 12

Translucent disease outbreak in Penaeus vannamei post-larva accompanies the imbalance of pond water and shrimp gut microbiota homeostasis

Yu, P., Shan, H., Cheng, Y., Ma, J., Wang, K., & Li, H. (2022) · Aquaculture Reports · doi:10.1016/j.aqrep.2022.101410 · Cited by 12

Effect of soybean meal replacement with corn gluten meal on the survival, biochemical and metabolic responses, and disease resistance of Pacific white shrimp ( Litopenaeus vannamei )

Yohana, M. A., Ray, G. W., Yang, Q., Beiping, T., Shuyan, C., & Junming, D. (2023) · Annals of Animal Science · doi:10.2478/aoas-2023-0085 · Cited by 12

Novel indigenous probiotic isolated from the healthy Pacific white shrimp Litopenaeus vannamei intestine in differing stages based on metagenomic and screening approaches

Sutanti, S., Sukenda, S., Widanarni, W., Alimuddin, A., & Aliah, R. S. (2024) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2024.109678 · Cited by 12

Bacterial communities and signatures in the stomach and intestine of juvenile Penaeus (litopenaeus) vannamei shrimp affected by acute hepatopancreatic necrosis disease

Reyes, G., Andrade, B., Betancourt, I., Panchana, F., Preciado, C., & Bayot, B. (2024) · Heliyon · doi:10.1016/j.heliyon.2024.e33034 · Cited by 12

Infection by a eukaryotic gut parasite in wild Daphnia sp. associates with a distinct bacterial community

Rajarajan, A., Wolinska, J., Walser, J., Mäder, M., & Spaak, P. (2022) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiac097 · Cited by 16

Phage-prokaryote coexistence strategy mediates microbial community diversity in the intestine and sediment microhabitats of shrimp culture pond ecosystem

Deng, Z., Zeng, S., Zhou, R., Hou, D., Bao, S., Zhang, L., Hou, Q., Li, X., Weng, S., He, J., et al. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.1011342 · Cited by 12

Composition of the cutaneous bacterial community of a cave amphibian,Proteus anguinus

Kostanjšek, R., Prodan, Y., Stres, B., & Trontelj, P. (2019) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiz007 · Cited by 13

Genomic characterization of Vibrio parahaemolyticus from Pacific white shrimp and rearing water in Malaysia reveals novel sequence types and structural variation in genomic regions containing the Photorhabdus insect-related (Pir) toxin-like genes

Yan, C. Z. Y., Austin, C. M., Ayub, Q., Rahman, S., & Gan, H. M. (2019) · FEMS Microbiology Letters · doi:10.1093/femsle/fnz211 · Cited by 12

Metagenomic Analyses of Biofilms on Whiteleg Shrimp (Litopenaeus vannamei) Effluents: Implications for Worldwide Aquaculture Bioremediation and Environmental Sustainability in the Current Trend of Climate Change and Global Warming – State of the Art and Experimental Proof of Concept

Mendoza-Neyra, O. A., Pretell, K., Ramírez, B., Sandoval, J., Caballero, J. L., & Dorado, G. (2020) · Reviews in Fisheries Science & Aquaculture · doi:10.1080/23308249.2020.1820720 · Cited by 12

Growth, Biochemical Characteristics, Flesh Quality, and Gut Microbiota of the Pacific White Shrimp (Penaeus vannamei) Fed a Defatted Superworm (Zophobas atratus) Larvae Meal

Lin, H., Liang, X., Han, F., Luo, X., & Li, E. (2023) · Aquaculture Nutrition · doi:10.1155/2023/8627246 · Cited by 11

Effects of Dietary β-Glucan Feeding Strategy on the Growth, Physiological Response, and Gut Microbiota of Pacific White Shrimp, Litopenaeus vannamei, under Low Salinity

Qiao, Y., Han, F., Lu, K., Zhou, L. Y., Rombenso, A., & Li, E. (2023) · Animals · doi:10.3390/ani13243778 · Cited by 11

Unveiling the Bacterial Community across the Stomach, Hepatopancreas, Anterior Intestine, and Posterior Intestine of Pacific Whiteleg Shrimp

Chaudhary, D. K., Kim, S.-E., Park, H.-J., & Kim, K. (2024) · Journal of Microbiology and Biotechnology · doi:10.4014/jmb.2403.03039 · Cited by 11

Integrating short- and full-length 16S rRNA gene sequencing to elucidate microbiome profiles in Pacific white shrimp ( Litopenaeus vannamei ) ponds

Rajonhson, D. M., Angthong, P., Thepsuwan, T., Sutheeworapong, S., Satanwat, P., Tapaneeyaworawong, P., Powtongsook, S., Kruasuwan, W., Jenjaroenpun, P., Wongsurawat, T., et al. (2024) · Microbiology Spectrum · doi:10.1128/spectrum.00965-24 · Cited by 11

How a holobiome perspective could promote intensification, biosecurity and eco-efficiency in the shrimp aquaculture industry

Gutiérrez-Pérez, E. D., Vázquez‐Juárez, R., Magallón‐Barajas, F. J., Martínez, M. Á., Escobar‐Zepeda, A., & Magallón‐Servín, P. (2022) · Frontiers in Marine Science · doi:10.3389/fmars.2022.975042 · Cited by 12

Integrated Analysis of the Intestinal Microbiota and Transcriptome of Fenneropenaeus chinensis Response to Low-Salinity Stress

Tian, C., Wang, Q., Wang, J., Li, J., Guan, C., He, Y., & Gao, H. (2023) · Biology · doi:10.3390/biology12121502 · Cited by 11

Changes in the microbial community of Litopenaeus vannamei larvae and rearing water during different growth stages after disinfection treatment of hatchery water

Duan, Y., Tang, Y., Huang, J., Zhang, J., Lin, H., Jiang, S., Wang, R., & Wang, G. (2020) · The Journal of Microbiology · doi:10.1007/s12275-020-0053-0 · Cited by 11

Water microbiome dynamics of Pacific white shrimp Penaeus vannamei infected with Vibrio parahaemolyticus strains responsible for acute hepatopancreatic necrosis disease

Aguilar-Rendón, K. G., Soto-Rodríguez, S. A., Gómez‐Gil, B., Lozano‐Olvera, R., & Yáñez‐Rivera, B. (2022) · Aquaculture · doi:10.1016/j.aquaculture.2021.737871 · Cited by 11

Microbial Community Structure and Diversity of Shrimp Paste at Different Fermentation StagesPreprint

Dai, L., Wang, L., Sun, J., Zheng, L., & Qi, B. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/334136 · Cited by 11

Intestinal microbial diversity and functional analysis of Urechis unicinctus from two different habitats: pond polycultured with Penaeus japonicus and coastal zone

Tang, Y. Z., Ma, S., Liu, Y., Pi, Y., Liu, Y., & Zhao, Y. (2021) · Aquaculture Environment Interactions · doi:10.3354/aei00395 · Cited by 10

Identification, functional analysis of chitin-binding proteins and the association of its single nucleotide polymorphisms with Vibrio parahaemolyticus resistance in Penaeus vannamei

Luo, S., Chen, X., Wang, A., Liu, Q., Peng, M., Yang, C.-L., Zeng, D.-G., Zhao, Y., & Wang, H. (2024) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2024.109966 · Cited by 10

Vibrio areninigrae as a pathogenic bacterium in a crustacean

Hernández-Pérez, A., Söderhäll, K., Sirikharin, R., Jiravanichpaisal, P., & Söderhäll, I. (2020) · Journal of Invertebrate Pathology · doi:10.1016/j.jip.2020.107517 · Cited by 10

A metagenomic comparison of clearwater, probiotic, and Rapid BFTTM on Pacific whiteleg shrimp, Litopenaeus vannamei cultures

Waiho, K., Razak, M. S. A., Rahman, M. Z. A., Zaid, Z., Ikhwanuddin, M., Fazhan, H., Shu‐Chien, A. C., Lau, N., Azmie, G., Ishak, A. N., et al. (2023) · PeerJ · doi:10.7717/peerj.15758 · Cited by 10

Host-Derived Probiotics Shape the Intestinal Microbial Composition, but not Putative Function in Juvenile Japanese Seabass (Lateolabrax japonicus)

Yang, H., Liu, Z., Jian, J., Liu, Z., Ye, J., & Sun, Y. (2022) · Frontiers in Marine Science · doi:10.3389/fmars.2022.878633 · Cited by 9

Unraveling the etiology of shrimp diseases: a review through the perspectives of gut microbial dynamics

Murugan, R., Priya, P. S., Boopathi, S., Haridevamuthu, B., Kumar, T. T. A., & Arockiaraj, J. (2024) · Aquaculture International · doi:10.1007/s10499-024-01437-z · Cited by 9

The hepatopancreas microbiome of velvet crab, Necora puber

Martin, S., Smith, C. J., Stewart, K., Barr, W., Cheslett, D., O’Connor, I., Swords, F., Ijaz, U. Z., & O’Dwyer, K. (2024) · Environmental Microbiology Reports · doi:10.1111/1758-2229.70014 · Cited by 9

Analysis of Gut Microbiota Associated with WSSV Resistance in Litopenaeus vannamei

Wanna, W., Aucharean, C., & Jaeram, N. (2024) · Marine Biotechnology · doi:10.1007/s10126-024-10381-1 · Cited by 9

Monitoring the occurrence of Zoea Syndrome (ZS) in pacific white shrimp (Litopenaeus vannamei) larval from several hatcheries in East Java, Indonesia

Wiradana, P. A., Sani, M. D., Mawli, R. E., Ashshoffa, F. N. D., Widhiantara, I. G., & Mukti‬, ‪. T. (2022) · IOP Conference Series Earth and Environmental Science · doi:10.1088/1755-1315/1036/1/012003 · Cited by 9

Effects of feed transition on digestive tract digestive enzyme, morphology and intestinal community in cuttlefish (Sepia pharaonis)

Jiang, M., Xiao, W., Ye, J., Xu, L., Peng, R., Han, Q., Lü, Z., Shi, H., & Jiang, X. (2022) · Frontiers in Marine Science · doi:10.3389/fmars.2022.941488 · Cited by 9

Peroxiredoxin-4 supplementation modulates the immune response, shapes the intestinal microbiome, and enhances AHPND resistance in Penaeus vannamei

Wanvimonsuk, S., & Somboonwiwat, K. (2023) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2023.108915 · Cited by 9

Microbial signature profiles of Penaeus vannamei larvae in low-survival hatchery tanks affected by vibriosis

Reyes, G., Andrade, B., Betancourt, I., Panchana, F., Solórzano, R., Preciado, C., Ochoa, L. S., Trujillo, L. E., & Bayot, B. (2023) · PeerJ · doi:10.7717/peerj.15795 · Cited by 9

Comparison of the gut microbiota and metabolism in different regions of Red Swamp Crayfish (Procambarus clarkii)

Liu, S., Wang, Z., Wang, Z., Wu, Q., Zhou, J., Wang, R., Han, J., & Su, X. (2023) · Frontiers in Microbiology · doi:10.3389/fmicb.2023.1289634 · Cited by 10

Amplicon sequencing reveals significantly increased Vibrio abundance and associated gene functions in vibriosis‐infected black tiger shrimp (Penaeus monodon)

Foysal, M. J., Momtaz, F., Kawser, A. Q. M. R., Ali, M. H., Raihan, T., Siddik, M. A. B., Rahman, M. M., & Tay, C. Y. (2020) · Journal of Fish Diseases · doi:10.1111/jfd.13304 · Cited by 8

Micro-Aid Liquid 10 Promotes Growth Performance and Health Status of White Shrimp, Litopenaeus vannamei

Huang, K., Lee, J., Shiu, Y., Ballantyne, R., & Liu, C. (2022) · Journal of Marine Science and Engineering · doi:10.3390/jmse10010049 · Cited by 8

Intestinal microbiota analysis and probiotic application in gamat sea cucumber ( Stichopus horrens )

Jaengkhao, W., Maeroh, P., & Wanna, W. (2022) · Aquaculture Research · doi:10.1111/are.15795 · Cited by 8

Changes in the gene expression and gut microbiome to the infection of decapod iridescent virus 1 in Cherax quadricarinatus

Zheng, J., Jia, Y., Li, F., Chi, M., Cheng, S., Liu, S., Jiang, W., & Liu, Y. (2022) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2022.108451 · Cited by 8

Impact of Soybean Bioactive Peptides on Growth, Lipid Metabolism, Antioxidant Ability, Molecular Responses, and Gut Microbiota of Oriental River Prawn (Macrobrachium nipponense) Fed with a Low-Fishmeal Diet

Yang, C., Liu, B., Pan, L., Xia, D., Sun, C., Zheng, X., Chen, P., Hu, H., & Zhou, Q. (2024) · Biology · doi:10.3390/biology14010011 · Cited by 7

Impact of ozone nanobubble on water quality, gut microbiota, and growth performance of white leg shrimp (Penaeus vannamei) in an intensive indoor farming system

Bình, P. T., Van, P. T., Nghĩa, N. H., Huy, T. T., May, L. T., St‐Hilaire, S., & Giang, P. T. (2025) · Energy Nexus · doi:10.1016/j.nexus.2025.100450 · Cited by 7

Host genome drives the microbiota enrichment of beneficial microbes in shrimp: exploring the hologenome perspective

Cornejo‐Granados, F., Gallardo-Becerra, L., Romero‐Hidalgo, S., López-Zavala, A. A., Cota-Huízar, A., Cervantes-Echeverría, M., Sotelo‐Mundo, R. R., & Ochoa‐Leyva, A. (2025) · Animal Microbiome · doi:10.1186/s42523-025-00414-y · Cited by 7

Metabolic and immune status of Pacific white shrimp Penaeus vannamei concerning farming conditions

Molina, J. P. A., Robles-Romo, A., Matsumoto, T., & Racotta, I. S. (2024) · Latin American Journal of Aquatic Research · doi:10.3856/vol52-issue2-fulltext-3102 · Cited by 7

Technical pitfalls that bias comparative microbial community analyses of aquatic disease Ian Hewson*

Hewson, I. (2019) · Diseases of Aquatic Organisms · doi:10.3354/dao03432 · Cited by 7

In silico prediction of potential indigenous microbial biomarkers in Penaeus vannamei identified through meta-analysis and genome-scale metabolic modelling

Devika, N. T., Katneni, V. K., Jangam, A. K., Nathamuni, S. P., Shekhar, M. S., & Jithendran, K. P. (2023) · Environmental Microbiome · doi:10.1186/s40793-022-00458-6 · Cited by 7

Effect of sample type and the use of high or low fishmeal diets on bacterial communities in the gastrointestinal tract of Penaeus monodon

Noble, T. H., Truong, H. H., Rombenso, A., Simon, C. J., Wade, N. M., & Wynne, J. W. (2021) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-020-11052-6 · Cited by 7

Long-read sequencing reveals the shell microbiome of apparently healthy American lobsters Homarus americanus from Atlantic Canada

Koepper, S., Clark, K. F., McClure, J. T., Revie, C. W., Stryhn, H., & Thakur, K. K. (2023) · Frontiers in Microbiology · doi:10.3389/fmicb.2023.1245818 · Cited by 6

Gut Microbiome and Fish Health: An Overview in Finfish Aquaculture Prospective

Hoque, F., Das, A., & Sundaray, J. K. (2023) · Springer eBooks · doi:10.1007/978-981-99-0852-3_3 · Cited by 6

The potential use of prodigiosin as a shrimp feed additive and its dynamic influence on the shrimp gut microbial community – an in vitro gut model

Suhaimi, N. S. M., Yin, Y. S., Nazari, T. F., Halim, M. A., Daud, F., Ibrahim, D., & Zarkasi, K. Z. (2019) · Malaysian Journal of Microbiology · doi:10.21161/mjm.180236 · Cited by 6

Characterization of Microbiome Diversity in the Digestive Tract of Penaeus vannamei Fed with Probiotics and Challenged with Vibrio parahaemolyticus Acute Hepatopancreatic Necrosis Disease

Galavíz-Silva, L., la Fuente, A. O. R., Gomez‐Flores, R., Ibarra‐Gámez, J. C., Luna-Cruz, I. E., Elizondo‐Luévano, J. H., Sánchez‐Díaz, R., & Molina‐Garza, Z. J. (2025) · Pathogens · doi:10.3390/pathogens14040320 · Cited by 5

Intestinal microbiota responses to environmental microbiomes and factors across populations of the Manila clam Ruditapes philippinarum

Liu, L., Liu, L., Zhuang, H., Li, A., Liu, Z., Jiao, M., Li, J., Xue, S., Li, J., Ren, Y., et al. (2025) · Marine Environmental Research · doi:10.1016/j.marenvres.2025.107296 · Cited by 5

Disturbance in invasion? Idiopathic necrotizing hepatopancreatitis in the signal crayfish Pacifastacus leniusculus (Dana, 1852) in Croatia

Bekavac, A., Beck, A., Dragičević, P., Dragun, Z., Maguire, I., Ivanković, D., Fiket, Ž., Gračan, R., & Hudina, S. (2021) · Journal of Fish Diseases · doi:10.1111/jfd.13552 · Cited by 5

Synergistic effects of combined probiotics Bacillus pumilis D5 and Leuconostoc mesenteroide B4 on immune enhancement and disease resistance in Litopenaeus vannamei

Huang, M., Truong, B. N., Nguyen, T. P., Ju, H.-J., & Lee, P. (2024) · Developmental & Comparative Immunology · doi:10.1016/j.dci.2024.105158 · Cited by 5

The impact of host development and density stress on the diversity of microbial communities in the gut and its surrounding environment of the Chinese alligator

Wang, C., Li, C., Liu, P., Zhang, S., Zhou, Y., Zhang, X., Wang, Y., Liu, R., Wu, X., & Nie, H. (2024) · Ecology and Evolution · doi:10.1002/ece3.11667 · Cited by 5

Environmental factors and potential probiotic lineages shape the active prokaryotic communities associated with healthy Penaeus stylirostris larvae and their rearing water

Giraud, C., Wabete, N., Lemeu, C., Selmaoui‐Folcher, N., Pham, D., Boulo, V., & Callac, N. (2024) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiae156 · Cited by 5

Microbiome-MX 2018: microbiota and microbiome opportunities in Mexico, a megadiverse country

Cornejo‐Granados, F., de la Barca, A. M. C., Torres, N., Martínez‐Romero, E., Torres, J., López‐Vidal, Y., Soberón, X., Partida‐Martínez, L. P., Pinto-Cardoso, S. M., Alcaraz, L. D., et al. (2019) · Research in Microbiology · doi:10.1016/j.resmic.2019.03.001 · Cited by 5

Intestinal Microbiota Analyses of Litopenaeus vannamei During a Case of Atypical Massive Mortality in Northwestern Mexico

López‐Cortés, A., Latisnere‐Barragán, H., García‐Maldonado, J. Q., Martínez, M. Á., & Munguía‐Vega, A. (2020) · Current Microbiology · doi:10.1007/s00284-020-02079-z · Cited by 5

Characterisation of the Gut Bacteria of Cultured and Wild Spiny Lobster Panulirus ornatus

Ooi, M. C., Trotter, A. J., Smith, G. G., & Bridle, A. R. (2023) · Applied Microbiology · doi:10.3390/applmicrobiol3010016 · Cited by 4

Applying Modified VP53A Recombinant Protein as an Anti-White Spot Syndrome Virus Biological Agent in Litopenaeus vannamei Farming

Hsu, J. C.-K., Huang, H., Lin, H. ‐., Chou, H., Huang, P.-Y., Prachumwat, A., & Chen, L.-L. (2022) · Viruses · doi:10.3390/v14071353 · Cited by 4

Common disease-discriminatory fungal taxa accurately diagnose shrimp white feces syndrome, black gills, and retardation diseases

Song, T.-T., Sha, H., Qiu, Q., Chen, J., & Xiong, J. (2022) · Aquaculture · doi:10.1016/j.aquaculture.2022.738643 · Cited by 4

Effects of nanopolystyrene and/or phoxim exposure on digestive function of Eriocheir sinensis

Huang, M., Ma, Y., Fan, Q., Che, S., Zhang, J., Ding, S., Zhu, S.-R., & Li, X. (2024) · Comparative Biochemistry and Physiology Part C Toxicology & Pharmacology · doi:10.1016/j.cbpc.2024.110102 · Cited by 4

Unveiling the Bacterial Community across the Stomach, Hepatopancreas, Anterior Intestine, and Posterior Intestine of Pacific Whiteleg Shrimp

Chaudhary, D. K., Kim, S.-E., Park, H.-J., & Kim, K. (2024) · Journal of Microbiology and Biotechnology · doi:10.4014/jmb.2403.03039 · Cited by 11

The intestine microbiota of shrimp and its impact on cultivation

Zeng, S., He, J., & Huang, Z. (2024) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-024-13213-3 · Cited by 33

Proportions of Pacific white shrimp, Litopenaeus vannamei, gut microbiota from ambient microbiota increased with aquaculture process

Liu, Q., Gao, Y., Wang, C., Zeng, Y., & Lai, Z. (2022) · Journal of the World Aquaculture Society · doi:10.1111/jwas.12933 · Cited by 8

Impact of Aquaculture Practices on Intestinal Bacterial Profiles of Pacific Whiteleg Shrimp Litopenaeus vannamei

Landsman, A., St‐Pierre, B., Rosales-Leija, M., Brown, M. L., & Gibbons, W. R. (2019) · Microorganisms · doi:10.3390/microorganisms7040093 · Cited by 64

Environmental and Host Associated Microbiota in Whiteleg Shrimp Litopenaeus vannamei Aquaculture: Functional and Taxonomic Insights From 16S rRNA Gene Sequencing

Orin, A. J., Ferdoush, J., Islam, M. M., Kundu, G. K., Barman, A., Yeasmin, M. N., & Mandal, S. C. (2025) · Aquaculture Research · doi:10.1155/are/6646341 · Cited by 1