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All Journal Biodiversitas Journal of Biological Diversity
IMAN RUSMANA
Department of Biology, Faculty of Mathematics and Natural Sciences, Institut Pertanian Bogor. Jl. Raya Dramaga, Bogor 16680, West Java, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology

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Short Communication: Identification and characterization of nitrifying bacteria in mud crab (Scylla serrata) recirculation aquaculture system by 16S rRNA sequencing YUNI PUJI HASTUTI; IMAN RUSMANA; KUKUH NIRMALA; RIDWAN AFFANDI; SISKA TRIDESIANTI
Biodiversitas Journal of Biological Diversity Vol. 20 No. 5 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200524

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Abstract. Hastuti YP, Rusmana I, Nirmala K, Affandi R, Tridesianti S. 2019. Identification and characterization of nitrifying bacteria in mud crab (Scylla serrata) recirculation aquaculture system by 16S rRNA sequencing. Biodiversitas 20: 1339-1343. Recirculation is one of the systems used for increasing aquaculture production, for example, is mud crab Scylla serrata culture. Aquaculture activities will produce organic nitrogen waste and can be affected to inorganic condition (nitrification bacteria). Nitrifying bacteria are capable of changing aerobically from NH4+ to NO2-(nitrite) and from NO2-to NO3-(nitrate). This current work aimed to identify and characterize nitrifying bacteria in mud crab (S. serrata) culture with a recirculated system. Nitrifying bacteria were isolated using serial dilution (10-1 until 10-5) of open filter FB water sample previously cultured in a specific medium. Bacterial identification was performed using a procedure of PrestoTM Mini gDNA Kit (Geneid) for DNA extraction and Polymerase Chain Reaction (PCR) primer 63F and 1387R for 16S rRNA gene amplification. Molecular identification using 16S rRNA sequences, the nitrifying bacteria isolated from mud crab recirculation aquaculture system were 99% identified as a group Pantoea calida, Pseudomonas stutzerii dan Halomonas sp. Morphological characterization of the colony morphology showed that a mucoid appearance and appeared cream in color and large size. Furthermore, their cells were recognized as basil and Gram-negative.
Bacteria and methanogen community in the rumen fed different levels of grass-legume silages RONI RIDWAN; IMAN RUSMANA; YANTYATI WIDYASTUTI; KOMANG G. WIRYAWAN; BAMBANG PRASETYA; MITSUO SAKAMOTO; MORIYA OHKUMA
Biodiversitas Journal of Biological Diversity Vol. 20 No. 4 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200417

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Abstract. Ridwan R, Rusmana I, Widyastuti Y, Wiryawan KG, Prasetya B, Sakamoto M, Ohkuma M. 2019. Bacteria and methanogen community in the rumen fed different levels of grass-legume silages. Biodiversitas 20: 1055-1062. This study aimed to investigate the effects of dietary grass-legume silages on the microbial community by using a culture-independent approach. Treatments consisted of R0: 50% Pennisetum purpureum and 50 % concentrate; R1: 20% P. purpureum, 50 % concentrate, and 30% grass-legumes silage; R2: 20% P. purpureum, 35 % concentrate, and 45% grass-legumes silage; and R3; 20% P. purpureum, 20 % concentrate, and 60% grass-legumes silage. The rumen fluid obtained from fistulated cattle was used for T-RFLP, 16S rDNA clone library, and qPCR analyses. The results indicated that bacterial diversity was dominated by Bacteroidetes, Firmicutes, and methanogen by Methanobacteriales, based on partial 16S rDNA sequences. The microbial communities were dominated by Prevotella brevis, P. ruminicola, Succiniclasticum ruminis, and Methanobrevibacter ruminantium, M. smithi, M. thueri, and M. millerae. The increasing silage diet in a rumen suppressed methanogenesis by reducing population distribution of Methanobacteriales, directly or indirectly, by reducing the diversity of bacterial populations. Generally, the increase silage in the diet changed the bacterial and methanogen community. Grass-legume silage diets of less than 45% are potential for ruminant diet to reduce methane production by a decrease of 4% in the relative distribution of methanogens in the rumen.
Co-Authors BAMBANG PRASETYA KOMANG G. WIRYAWAN KUKUH NIRMALA MITSUO SAKAMOTO MORIYA OHKUMA RIDWAN AFFANDI RONI RIDWAN SISKA TRIDESIANTI YANTYATI WIDYASTUTI YUNI PUJI HASTUTI