Study of Symbiont Bacteria of Acropora digitifera Coral From Ciletuh Bay, Sukabumi by Using Culture and Molecular Approach

Nurfitri Nurfitri, Fiddy Semba Prasetiya, Indah Riyantini, Yuniar Mulyani, Sulastri Arsad, Mochamad Untung Kurnia Agung

Abstract


Bacteria are one of the prokaryotic microorganisms that are symbiotic with coral reefs. These microorganisms help corals in secreting mucus layers which are used as a place to live for bacteria and control the presence of pathogenic bacteria in corals. The purpose of this study was to determine the diversity of bacterial communities associated with Acropora digitifera corals in Ciletuh bay, West Java, by culture approach. Sampling was carried out at a depth of 4 meters. Morphology-based identification and molecular approach based on sequence of the small ribosomal unit (16S) rRNA gene were used to determine the bacterial species in the samples. A total of six pure isolates were identified based on morphological observation and the molecular DNA characteristics from three of them were identified with 16S rRNA gene sequences. The identification using 16S rRNA gene showed that the isolate ACD.P4.PH7.P had a close relationship with the BF strain and zb strain of Bacillus flexus (acc number MH569560.1) with a similarity of 85.44 %. While ACD.P4.PH9.P isolate has a close relationship with Bacillus sp. c234 (acc number FJ950647.1) with a similarity of 98.50 %. Additionally, ACD.P4.PH9.K isolates closely related to Bacillus sp. of strain 6RM1 (acc number MK134607.1) with a similarity of 94.78 %. This study also revealed that both microscopic identifications by morphological traits and molecular approach using 16S rRNA gene can be used in bacterial diversity assessment.


Full Text:

PDF

References


Cappuccino, James G. and Welsh, C. 2018. Microbiology a Laboratory Manual. Eleventh Edition. England: Pearson.

Claverie, J. & Notredame, C. 2003 Bioinformatics for Dummies. Wiley Publishing, Indianapolis, USA.

Drancourt, M, Bollet, C., Carlioz, A., Martelin, R., Gayral, J., and Raoult, D. 2000. 16S Ribosomal Sequence Analysis of A Large Collection of Environmental and Clinical Unidentifiable Bacterial Isolates. Journal of Clinical Microbiology 38(10): 3623–3630.

Hatmanti. 2000. Pengenalan Bacillus sp. Oseana 27(1): 31-41.

Iqbal, M., Buwono, I. D., Kurniawati, N. 2016. Analisis Perbandingan Metode Isolasi DNA Untuk Deteksi White Spot Syndrome Virus (WSSV) Pada Udang Vaname (Litopenaeus vannamei). Jurnal Perikanan Kelautan 7(1): 54-65.

Lane, D. J. 1991. 16S/23S rRNA Sequencing. In: Stackebrandt, E.,Goodfellow, M., editors. Nucleic Acid Techniques in Bacterial Systematics. New York: Wiley & Sons; p. 115-76.

Lauro, F. M., McDougald, D., Thomas, T., Williams, T. J., Egan, S., Rice, S., Demaere, M. Z., Ting, L., Ertan, H., Johnson, J., Ferriera, S., Lapidus, A., Anderson, I., Kyrpides, N., Munk, A. C., Detter, C., Han, C. S., Brown, M. V., Robb, F. T., Kjelleberg, S., Cavicchioli, R. 2009. The genomic basis of trophic strategy in marine bacteria. PNAS 106(37): 15527-15533.

Miller, G., Beckwith, R., Fellbaum, C., Gross, D., Miller, K. 1990. Wordnet: An On line Lexical Database. International Journal of Lexicography.

Mulyani, Y., Purwanto, A., Nurruhwati, I. 2011. Perbandingan Beberapa Metode Isolasi DNA untuk Deteksi Dini Koi Herpes Virus (KHV) Pada Ikan Mas (Cyprinus carpio L.). Jurnal Akuatika 8(11): 1-16.

Napitupulu, Hatopan, G. 2019. Bacillus sp. Sebagai Agensia Pengurai Dalam Pemeliharaan Brachionus rotundiformis yang Menggunakan Ikan Mentah Sebagai Sumber Nutrisi.Jurnal Ilmiah Platax 7(1): 158-169.

Pangastuti, A. 2006. Definisi Spesies Prokaryota Berdasarkan Urutan Basa Gen Penyandi 16S rRNA dan Penyandi Protein. Biodiversitas 7(3): 292 – 296.

Rinanda, T. 2011. Analisis Sekuensing 16S rRNA di Bidang Mikrobiologi. Jurnal Kedokteran Syiah Kuala.11(3): 172-177.

Ritchie, K. B. and Smith, G. K. 1997. Physiological Comparisons of Bacteria From Various Species of Scleractinia Corals. Dalam: Proceedings of The 8th International Symposium for Reef Studies: 521-526.

Utama, R. S., Budiyanto, A. 2017. Kondisi dan Keanekaragaman Karang Batu di Perairan Sabang. Jurnal Oseanologi dan Limnologi di Indonesia 2(1) : 69-82.

Zhang, Y. Y., Ling, L., Yang, Q., Wang, Y., Sun, C., Sun, H., Feng, J. 2015. The diversityof coral associated bacteria and the environmental factors affect their community variation. Ecotoxicology 24(7): 1467–1477




DOI: http://dx.doi.org/10.20884/1.oa.2019.15.2.748

Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 International License.

 

Lisensi Creative Commons

Omni-Akuatika de Fisheries and Marine Science Faculty - Jenderal Soedirman University est mis à disposition selon les termes de la licence Creative Commons Attribution 4.0 International.

Fondé(e) sur une œuvre à www.ojs.omniakuatika.net.
Les autorisations au-delà du champ de cette licence peuvent être obtenues à www.ojs.omniakuatika.net.