Cited by 179Aquaculture disease management and microbiotaMicrobial Community Ecology and PhysiologyAquaculture Nutrition and Growth

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Bacterial Population in Intestines of the Black Tiger Shrimp (Penaeus monodon) under Different Growth Stages

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Rungrassamee, Wanilada, Klanchui, Amornpan, Chaiyapechara, Sage, Maibunkaew, Sawarot, Tangphatsornruang, Sithichoke, Jiravanichpaisal, Pikul, Karoonuthaisiri, Nitsara·2013·PLoS ONE

DOI 10.1371/journal.pone.0060802PMC PMC3618293

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Abstract

Intestinal bacterial communities in aquaculture have been drawn to attention due to potential benefit to their hosts. To identify core intestinal bacteria in the black tiger shrimp (Penaeus monodon), bacterial populations of disease-free shrimp were characterized from intestines of four developmental stages (15-day-old post larvae (PL15), 1- (J1), 2- (J2), and 3-month-old (J3) juveniles) using pyrosequencing, real-time PCR and denaturing gradient gel electrophoresis (DGGE) approaches. A total of 25,121 pyrosequencing reads (reading length = 442±24 bases) were obtained, which were categorized by barcode for PL15 (7,045 sequences), J1 (3,055 sequences), J2 (13,130 sequences) and J3 (1,890 sequences). Bacteria in the phyla Bacteroides, Firmicutes and Proteobacteria were found in intestines at all four growth stages. There were 88, 14, 27, and 20 bacterial genera associated with the intestinal tract of PL15, J1, J2 and J3, respectively. Pyrosequencing analysis revealed that Proteobacteria (class Gammaproteobacteria) was a dominant bacteria group with a relative abundance of 89% for PL15 and 99% for J1, J2 and J3. Real-time PCR assay also confirmed that Gammaproteobacteria had the highest relative abundance in intestines from all growth stages. Intestinal bacterial communities from the three juvenile stages were more similar to each other than that of the PL shrimp based on PCA analyses of pyrosequencing results and their DGGE profiles. This study provides descriptive bacterial communities associated to the black tiger shrimp intestines during these growth development stages in rearing facilities.

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Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Schloss, P. D., Westcott, S. L., Ryabin, T., Hall, J. R., Hartmann, M., Hollister, E. B., Lesniewski, R. A., Oakley, B. B., Parks, D. H., Robinson, C. J., et al. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.01541-09 · Cited by 21,481 · cited 1×
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Method
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“in less harsh condition for bacteria to reside within [60,62], resulting in different intestinal bacterial diversity from the harsher conditions in the juveniles.”
Background

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The importance of gut microbes for nutrition and health
Piazzon, M. C., Ghosh, K., Ringø, E., & Kokou, F. (2025) · Elsevier eBooks · doi:10.1016/b978-0-443-21556-8.00013-2 · Cited by 2
Comparative metagenomic analysis of core gut microbiome in white leg shrimp (Penaeus vannamei) cultivated in low-saline and saline farmland
Varatharajan, J., Dilipan, E., Sivaperumal, P., & Rajaram, R. (2025) · Ecological Genetics and Genomics · doi:10.1016/j.egg.2025.100359 · Cited by 1
Alterations in intestinal microbiota and host response in Penaeus monodon experimentally challenged with Enterocytozoon hepatopenaei (EHP)
Naveen Rajeshwar, B., Kumar, T. S., Jithendran, K. P., Suganya, P. N., Gangaraj, K. P., Bedekar, M. K., Sanath Kumar, H., Jeena, K., Pathan, M. A., & Rajendran, K. (2025) · Aquaculture International · doi:10.1007/s10499-025-02290-4 · Cited by 1
“Earlier research identified Proteobacteria, Bacteroidetes, Cyanobacteria, Firmicutes, Actinobacteria, Acidobacteria, and Planctomycetes as the dominant phyla in the healthy shrimp gut (Rungrassamee et al. 2013; Dabadé et al. 2016; Duan et al. 2021; Shen et al. 2022a; Babu et al. 2023).”
Optimal dietary isoleucine requirement of juvenile red swamp crayfish (Procambarus clarkii): Consideration from growth performance and intestinal health
Zhang, J., Fan, Z., Li, C., Wu, D., Qin, D., Liu, B., Hao, Q., & Wang, L. (2025) · Aquaculture Reports · doi:10.1016/j.aqrep.2025.103184 · Cited by 1
Environmental factors shape the intestinal microbiota and function of Manila clam Ruditapes philippinarum
Gan, B. C., Li, G., Xu, Y., Yang, J., 林位琅, Yan, X., Lin, M., Ding, G., Su, F., & Xiao, Q. (2026) · Frontiers in Marine Science · doi:10.3389/fmars.2026.1774577 · Cited by 1
Comparative analysis of morphology and gut microbiome underlying trophic niche differentiation in three stomatopod species
Zhang, J., Wang, Y., Duan, X., Wang, R., Wang, Y., & Lou, F. (2026) · BMC Microbiology · doi:10.1186/s12866-026-05258-3 · Cited by 1
“Furthermore, Bacillota and Pseudomonadota have been confirmed as dominant bacterial phyla in the intestines of various crustaceans [91–93].”
Biorremediación de suelos contaminados con Hidrocarburos Policíclicos Aromáticos: una visión molecular
Festa, S. (2016) · doi:10.35537/10915/52136 · Cited by 1
Gut Microbiome Alteration of Cold-adapated Antarctic copepod Tigriopus kingsejongensis with Temperature Changes and Developmental StagesPreprint
Oh, H. N., Ri, M. N., Kim, T., Min, G., Kim, S., & Sul, W. J. (2021) · Research Square · doi:10.21203/rs.3.rs-611858/v1 · Cited by 1
Gut microbial diversity and composition of Indian white shrimp (Penaeus indicus)Preprint
Patil, P. K., Vinay, T. N., Ghate, S. D., Baskaran, V., & Avunje, S. (2021) · Research Square · doi:10.21203/rs.3.rs-807775/v1 · Cited by 1
“…Zeng et al. 2017; Li et al. 2018; Md-Zoqratt et al. 2018; Fan and Li 2019; Fan et al. 2019; Gao et al. 2019), P. monodon (Chaiyapechara et al. 2012; Rungrassamee et al. 2013, 2014, 2016) and P. stylirostris (Cardona et al. 2016) from farmed, wild, diseased and grown under different environmental…”
Background
Intestinal Bacteria Community Structures of Ruditapes philippinarum and Their Correlation with Environmental FactorsPreprint
Zhao, C., Zhao, X., Li, J., Chen, Y., Liu, S., Fang, L., & Huo, Z. (2024) · Preprints.org · doi:10.20944/preprints202403.0875.v1 · Cited by 1
The -Omics Race
Ciancio, A. (2016) · Springer eBooks · doi:10.1007/978-94-024-0884-3_9
Efecto del agregado de surfactantes sobre la degradación de PAH y la diversidad de la comunidad microbiana de suelos crónicamente contaminados
Cecotti, M. (2018) · doi:10.35537/10915/67958
La microbiota del tracto digestivo de camarones peneidos: una perspectiva histórica y estado del arte//The gut microbiota of penaeid shrimp: a historical perspective and state of the art
Garibay-Valdéz, E., Martínez‐Porchas, M., Calderón, K., Gollas‐Galván, T., Martínez‐Córdova, L. R., Vargas‐Albores, F., & Arvayo, M. A. (2019) · BIOtecnia · doi:10.18633/biotecnia.v22i1.1119
Efecto de la Dieta en el Microbioma Intestinal de Organismos Acuáticos
Gómez‐Gil, B., Enciso-Ibarra, K., Cruz‐Suárez, L. E., Hernández, C., Osuna‐García, E., Nieto-López, M. G., & Montero-Lizárraga, C. (2017) · Avances en Nutrición Acuicola
Peer Review #3 of "Potential lineage transmission within the active microbiota of the eggs and the nauplii of the shrimp Litopenaeus stylirostris: possible influence of the rearing water and more (v0.1)"
(2021) · PeerJ · doi:10.7287/peerj.12241v0.1/reviews/3
Status of the Polar BSRN Sites Ny-Ålesund and Neumayer
Maturilli, M., & König‐Langlo, G. (2008) · Helmholtz-Zentrum für Polar-und Meeresforschung (Alfred-Wegener-Institut)
Peer Review #2 of "Potential lineage transmission within the active microbiota of the eggs and the nauplii of the shrimp Litopenaeus stylirostris: possible influence of the rearing water and more (v0.1)"
(2021) · PeerJ · doi:10.7287/peerj.12241v0.1/reviews/2
Peer Review #1 of "Potential lineage transmission within the active microbiota of the eggs and the nauplii of the shrimp Litopenaeus stylirostris: possible influence of the rearing water and more (v0.1)"
(2021) · PeerJ · doi:10.7287/peerj.12241v0.1/reviews/1
Microbiome Associated with Laboratory Bred Horseshoe Crabs: A Case Study
Shah, V., Tanacredi, J. T., & Joshi, V. (2022) · Springer eBooks · doi:10.1007/978-3-030-82315-3_5
Amalgamation of Probiotics, Lactobacillus Acidophilus & Prebiotics, Moringa Oleifera Effecting Gut Microbiota Via Regulating Growth and Immune Signaling Pathways of Penaeus VannameiPreprint
Das, S. P., Abidin, Z., Huang, H., Lin, Y., Huang, C., Wu, Y., Hu, Y., & Nan, F. H. (2023) · SSRN Electronic Journal · doi:10.2139/ssrn.4507793
Occurrence of E. coli in marine prawns (Penaeus monodon) from Satpati, Vadarai and Palghar fish markets of Palghar district in Maharashtra, India
Kini, P. H., & Keni, S. J. (2024) · Ecology Environment and Conservation · doi:10.53550/eec.2024.v30i01s.005
“…that studies of bacterial di-versities in the intestines of P. monodon post-larval and juvenile stages were reported (Chaiyapechara et al., 2011,and Rungrassamee et al. , 2013), yet there has been no report on the intestinal bacteria of wild-caught P. monodon , which feed on slow moving benthic…”
Background
Novel Indigenous Probiotic Isolated from Healthy Pacific White Shrimp Litopenaeus Vannamei Intestine in Differing Stages Based on Metagenomic and Screening ApproachPreprint
Sutanti, S., Sukenda, S., Widanarni, W., Alimuddin, A., & Aliah, R. S. (2024) · SSRN Electronic Journal · doi:10.2139/ssrn.4776048
Changes Revealed by Histology, Physiology, Enteric Microbiota, and Transcriptome after Ovarian Ripening of Shrimp, Litopenaeus Vannamei, Through Using Fresh Baits Support the Innovation of Artificial Ripening of ShrimpsPreprint
Ma, B., Liu, Y., Zhang, X., Liu, Y., Yin, J., Pan, W., Huang, J., Yu, S., Hu, C., & Luo, P. (2024) · SSRN Electronic Journal · doi:10.2139/ssrn.4827124
Changes Revealed by Histology, Physiology, Enteric Microbiota, and Transcriptome after Ovarian Ripening of Shrimp, Litopenaeus Vannamei, Through Using Fresh Baits Support the Innovation of Artificial Ripening of ShrimpsPreprint
Ma, B., Liu, Y., Zhang, X., Liu, Y., Yin, J., Pan, W., Huang, J., Yu, S., Hu, C., & Luo, P. (2024) · SSRN Electronic Journal · doi:10.2139/ssrn.4873692
Alterations in Intestinal Microbiota and Host Response in Penaeus Monodon Experimentally Challenged with Enterocytozoon Hepatopenaei (Ehp)Preprint
Rajeshwar, B. N., Kumar, T. S., Jithendran, K. P., Nathamuni, S. P., Gangaraj, K. P., Bedekar, M. K., Kumar, S. H., Jeena, K., Pathan, M. A., & Rajendran, K. V. (2025) · SSRN Electronic Journal · doi:10.2139/ssrn.5338557
Bioinformatics in Aquatic Animal Health Management: Recent Advances and Applications
Rajeshwar, B. N., Kushala, K. B., Nithin, M. S., Nayak, A., Chakraborty, A., & Abraham, T. J. (2026) · Sustainability Sciences in Asia and Africa · doi:10.1007/978-981-95-2573-7_24
Dynamique des populations et communautés bactériennes au cours de l’hospitalisation et des infections associées aux soins : cas particulier de la chirurgie cardiaque
Romano-Bertrand, S. (2015) · theses.fr (ABES) · doi:10.70675/21d3992az768cz4956z94a2z4484f68f83b1
Influence de l'environnement trophique de l'élevage en biofloc sur les performances physiologiques de la crevette Litopenaeus stylirostris : Étude de paramètres de la nutrition, de l'immunité et de la reproduction
Cardona, E. (2015) · doi:10.70675/4faebe96zd9f0z48cfz9426z8456401484c1
“Parmi eux, nous pouvons noter des facteurs spécifiques à l’h te,à telsà ueà leà stadeà deà d eloppe e t,à laà st u tu eà deà l’i testi ,à laà nature de la paroi intestinale, le type d’ali e tatio et l’ tatàph siologi ueàdeàl’h teà áusti àetàBake ,à ; Harris, 1993 ; Rungrassamee et al., 2013).”
Influential
Dynamique des communautés procaryotiques actives dans l'élevage larvaires de la crevette bleue du Pacifique, Penaeus stylirostris : influence des intrants et identification de biomarqueurs bactériens de la santé des larves
Giraud, C. (2023) · theses.fr (ABES) · doi:10.70675/a2e25d6fzc86fz4127za381z3f3f3e22f7f7
Antibiotic Sensitivity of Vibrio spp. Isolated from the Hatchery Water of Tiger Shrimp Penaeus monodon
Sardar, A., Nadira, N., Islam, S. S., Ghosh, A. K., & Hasanuzzaman, A. F. M. (2026) · Khulna University Studies · doi:10.53808/kus.2026.si.7.01.marinex1505-ls

Authors: Rungrassamee, W., Klanchui, A., Chaiyapechara, S., Maibunkaew, S., Tangphatsornruang, S., Jiravanichpaisal, P., & Karoonuthaisiri, N.
Affiliations: National Center for Genetic Engineering and Biotechnology (TH)
Corresponding author: Karoonuthaisiri, Nitsara
ORCID: Rungrassamee, Wanilada
Chaiyapechara, Sage
Tangphatsornruang, Sithichoke
Karoonuthaisiri, Nitsara
Venue: PLoS ONE
Publisher: Public Library of Science (PLoS)
Published: 2013-04-05
Volume: 8
Issue: 4
Pages: e60802
ISSN: 1932-6203 (ISSN-L)
DOI: 10.1371/journal.pone.0060802
PMC: PMC3618293
OpenAlex: W2020616960
Cited by: 179
References: 77
Citations by year: 2026: 4 · 2025: 13 · 2024: 18 · 2023: 17 · 2022: 18 · 2021: 25 · 2020: 19 · 2019: 11 · 2018: 17 · 2017: 13 · 2016: 9 · 2015: 9 · 2014: 4 · 2013: 1
FWCI: 4.24
Type: journal article
Language: en
Open access: gold
doi.org
Licence: cc-by
creativecommons.org/licenses/by/4.0/ (unspecified)
Locations: PLoS ONE (publishedVersion, cc-by)
Europe PMC (PubMed Central) (publishedVersion, other-oa)
PubMed Central (publishedVersion, cc-by)
PubMed (publishedVersion)
DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Figshare (submittedVersion, cc-by)
Greater South Information System
Funders: Thailand Research Fund (TRG5480014)
Burapha University
National Center for Genetic Engineering and Biotechnology
Topics: Life Sciences › Immunology and Microbiology › Immunology › Aquaculture disease management and microbiota
Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
Life Sciences › Agricultural and Biological Sciences › Aquatic Science › Aquaculture Nutrition and Growth
Keywords: Penaeus monodon, intestinal bacterial community, gut microbiota, growth stages, postlarvae, juveniles, Gammaproteobacteria, Bacteroides, Firmicutes, shrimp aquaculture
MeSH terms: Animals, Bacteria, DNA, Bacterial, Intestines, Larva, Time Factors, Sequence Analysis, DNA, Aquaculture, Principal Component Analysis, Penaeidae

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Bacterial Population in Intestines of the Black Tiger Shrimp (Penaeus monodon) under Different Growth Stages

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