Isolasi dan Identifikasi Bakteri Probiotik Dari Usus Udang Windu (Penaeus monodon) Berdasarkan Sekuens Gen 16S rDNA

  • Seprianto S Program Studi Bioteknologi Universitas Esa Unggul, Jakarta
    (ID)
  • Feliatra F Jurusan Ilmu Kelautan Universitas Riau, Pekanbaru
    (ID)
  • Titania T Nugroho Jurusan Kimia Universitas Riau, Pekanbaru

Abstract

Probiotics are living microorganisms that have beneficial effect on the host by improving the balance of bacteria in the intestines. This research was aimed to determine the diversity of bacteria that live in digestion of the shrimp and molecular characteristics along with to observe phylogenetic relationships among the bacteria identified based on sequence16S rDNA. The bacteria were isolated from intestine of the Tiger prawn (Penaeus monodon) obtained from fishpond at BBPBAP Jepara. The analyzed result of 16S rDNA shown that three bacterial species were potential as probiotic. These bacteria grow well at pH 2 and this indicates one of probiotic bacteria characteristic. Among the three isolates, two isolates i.e. SP2 and SU isolates were phylogenetically closely related to Bacillus bataviensis strain CCGE2059 (EU867382.1) with 97% homology. While the SWU Isolate is most likely a new species of Caulobacter sp. (AJ227775.1). The SWU isolates were phylogenetically one ancestor with the Chromobacterium violaceum.

References

Altschul SF, Gertz EM, Agarwala R, Schäffer AA, Yu YK. 2009. PSI-BLAST: psedocount and the minimum description length principle. Nucleic Acid Res. vol 37(3): 815-824. https://doi.org/10.1093/nar/gkn981.

Bijanti R, Wahjuni RS. Yuliani MGA. 2009. Suplementasi Probiotik Pada Pakan Ayam Komersial Terhadap Produk Metabolik Dalam Darah Ayam. J. Penelit. Med. Eksakta. vol 8(3): 178-184.

Cherif A, Ouzari H, and Deffonichio. 2001. Thuricin 7: A Novel Bacteriocin Produced by Bacillus sp BMGI a New Strain From Oil. Letter in Applied Microbiology. vol 32(4): 243-247.

Cowan and Steel’s. 2004. Manual for the Identification of Medical Bacteria. 3rd Edition. UK: Cambriage University Press

Gaggia F, Mattarelli P, Biavati B. 2010. Probiotics and Prebiotics in Animal Feeding For Safe Food Production. International Journal of Food Microbiology. vol 141: S15-S28. https://doi.org/10.1016/j.ijfoodmicro.2010.02.031.

Hagström A, Pinhassi J, Zweiefel UL. 2000. Biogeoghraphycal Diversity Among Marine Bacterioplankton. Aquatic Microbial Technology. vol 21: 231-244.

Heyman J. Vanparys B, Logan NA, Balcaen A, Rodríguez-Díaz M, Felske A, De Vos P. 2004. Bacillus novalis sp, Nov., Bacillus vireti sp. Nov., Bacillus soli sp. Nov., Bacillus bataviensis sp nov., and Bacillus dretensis sp., From The Drentse a Grasslands. International Journal of Sytematic and Evolutionary Microbiology. vol 54: 47-57. https://doi.org/10.1099/ijs.0.02723-0.

Lane DJ. 1991. 16S/23S rRNA Sequencing. In Stackebrandt, E. and Goodfellow, M., Eds., Nucleic Acid Techniques in Bacterial Systematic. New York: John Wiley and Sons. pp 115-175.

Liu D, Du L, Yu J, Li L, Ai Q, Feng J, Song C. 2015. 16S rDNA PCR-DGGE and sequencing in the diagnosis of neonatal late-onset septicemia. Mol Med Rep. vol 12(4):6346-52. https://doi.org/10.3892/mmr.2015.4131.

Marchesi JR, Sato T, Weightman AJ, Martin TA, Fry JC, Hiom SJ, Wade WG. 1998. Design and evaluation of useful bacterium-spesific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl Environ Microbiol. vol 64(2): 795-799.

Nur F, Hafsan, Wahdiniar A. 2015. Isolasi Bakteri Asam Laktat Berpotensi Probiotik Pada Dangke, Makanan Tradisional dari Susu Kerbau di Curio Kabupaten Enrekang. Biogenesis. vol 3(1): 60-65. https://doi.org/10.24252/bio.v3i1.568.

Yarza P, Richter M, Peplies J, Euzeby J, Amann R, Schleifer KH, Ludwig W, Glöckner FO, Rosselló-Móra R. 2008. The All-Species Living Tree Project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. System. Appl. Microbiol. vol 31(4): 241-250. https://doi.org/10.1016/j.syapm.2008.07.001.

Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA 6: Molecular Evolutionary Genetics Analysis Version 6.0. Molecular Biology and Evolution. vol 30(12): 2725-2729. https://doi.org/10.1093/molbev/mst197.

Verschere L, Rombaut G, Sorgeloos P, Verstraete W. 2000. Probiotic bacteria as biological control agents in aquaculture. Microbiol Mol Biol Rev. vol 64(4): 655–671.

Vinoj G, Vaseeharan B, Thomas S, Spiers AJ, Shanthi S. 2014. Quarum-Quenching activity of The AH-Lactonase from Bacillus licheniformis DAHBI Inhibits Vibrio Biofilm Formator In Vitro and Reduces Shimp Intestinal Colonisation and Mortality. Marine Biotechnology NY. vol 16(6): 707-715. https://doi.org/10.1007/s10126-014-9585-9.

Větrovský T, Baldrian P. 2013. The Variability of the 16S rRNA Gene in Bacterial Genomes and Its Consequences for Bacterial Community Analyses. PloS ONE. vol 8(2): e57923. https://doi.org/10.1371/journal.pone.0057923.

Xi Z, Liu L, Davis CC. 2015. Genes with Minimal Phylogenetic Information are Problematic for Coalescent Analyses when Gene Tree Estimation is Biased. Molecular Phylogenetics and Evolution. vol 92: 63-71. http://dx.doi.org/10.1016/j.ympev.2015.06.009.

Published
2018-02-03
Section
Research Articles
Abstract viewed = 1207 times