A total of 30 bacterial isolates associated with milkfish gut were collected from traditional ponds at Northern Coast of Central Java, Indonesia. The study was conducted to isolate and identify the milkfish gut bacteria, and evaluate their potential for probiotics. Based on rapid grouping by using rep-PCR resulted in six groups. The six group represented by isolates of BS 11, BPI 01, BPL 10, BPi 03; BPi 08 and BPL 06 were then further selected for subsequent DNA sequencings. According to DNA sequencing it was demonstrated that the diversity of bacteria associated with milfish gut collected from Northern Coast of Central Java, revealed closely similar to Shewanella upenei, Basillus sp, Vibrio fluvialis, Shewanella algae, Shewanella sp. and Photobacterium ganghwense. Further sensitivity test among six baterial isolates demonstrated that Shewanella upenei and Shewanella algae were able to prevent the growth of Vibrio fluvialis and Photobacterium ganghwense. The six selected isolates were also successfully demonstrated antibacterial activity against pathogenic bacteria Vibrio alginoliticus and Vibrio parahaemolitycus. From this study, it can be concluded that the six bacteria isolated from milkfish intestine were potentially developed for probiotics.
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