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All Journal Biodiversitas Journal of Biological Diversity
AGUNG HARIS WIDIANTO
Graduate Program of Genome Analytics, Faculty of Science, Monash University. 900 Dandenong Rd., Caulfield East Victoria 3145, Melbourne, Australia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology

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Genome analysis of novel Salmonella-infecting bacteriophage ?Sen-NF RISKA AYU FEBRIANTI; ERLIA NARULITA; FADHILAH AYU SAVITRI; AGUNG HARIS WIDIANTO; HARDIAN SUSILO ADDY; ERMA SULISTYANINGSIH; KUSWATI KUSWATI; BINAR RAHMA UTAMI
Biodiversitas Journal of Biological Diversity Vol. 26 No. 4 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d260450

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Abstract. Febrianti RA, Narulita E, Savitri FA, Widianto AH, Addy HS, Sulistyaningsih E, Kuswati K, Utami BR. 2025. Genome analysis of novel Salmonella-infecting bacteriophage ?Sen-NF. Biodiversitas 26: 2011-2019. Genome mapping of bacteriophages that infect Salmonella is an important step in understanding the interactions between these pathogenic bacteria and viruses. Salmonella is one of the leading causes of food poisoning worldwide, with multiple serotypes that can cause serious infections in humans. This study aimed to identify and analyze bacteriophage genomes that can be used as therapeutic agents to control Salmonella infections. The study began with isolating bacteriophages from food samples, followed by morphological characterization, molecular and genomic analysis, and phylogenetics. The successfully isolated bacteriophage ?Sen-NF can only infect Salmonella enterica ser. Typhi, which has a diameter of ±1mm with a clear plaque. Bacteriophage ?Sen-NF, which infects Salmonella, is a linear double-stranded DNA virus with a genome size of 108,537 base pairs and a G+C content of 46.8%. Comparative genomic analysis revealed similarities with Myoviridae, such as ?SE24 and ?Sw2. Phylogenetic reconstruction showed a close evolutionary relationship with phages such as ?SE24 and ?Sw2. The results from this study are expected to make significant contributions to the development of new strategies to address food poisoning caused by Salmonella, as well as improve overall food safety.
Genomic and evolutionary perspectives on bacteriophage ΦAfa-NA1 targeting MDR Gram-negative bacteria in diabetic ulcer ERLIA NARULITA; DHIVA AULIA WINDA UTAMI; LAILI IZZATURROHMAH; HALIZA INAYAH ARRACHMI; RISKA AYU FEBRIANTI; RAYYAN ZHAFIR LUDFILLAH; AGUNG HARIS WIDIANTO; HARDIAN SUSILO ADDY; BINAR RAHMA UTAMI; KUSWATI KUSWATI; KAMALIA FIKRI
Biodiversitas Journal of Biological Diversity Vol. 26 No. 12 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d261205

Abstract

Abstract. Narulita E, Utami DAW, Izzaturrohmah L, Arrachmi HI, Febrianti RA, Ludfillah RZ, Widianto AH, Addy HS, Utami BR, Kuswati, Fikri K. 2025. Genomic and evolutionary perspectives on bacteriophage ?Afa-NA1 targeting MDR Gram-negative bacteria in diabetic ulcer. Biodiversitas 26: 6014-6024. The rise of Multidrug-Resistant (MDR) bacterial infections poses a significant challenge in clinical settings, particularly for diabetic ulcer patients who are highly susceptible to persistent infections. This study reports the isolation, characterization, and genomic analysis of a novel lytic bacteriophage, ?Afa-NA1, specifically targeting MDR Gram-negative bacteria associated with diabetic ulcers in Indonesia. The bacteriophage was isolated from wound dressings and tested against four clinical isolates: Alcaligenes faecalis T17, Pseudomonas sp. FP1911, and the Gram-positive control Streptomyces violaceoruber S21. ?Afa-NA1 exhibited strong lytic activity against three Gram-negative isolates but none against the Gram-positive control, confirming host specificity. ?Afa-NA1 produced clear plaques with an average diameter of 3.0±0.5 mm on Alcaligenes faecalis T17, indicative of its potent lytic activity. Stability tests showed the phage retained >90% infective titer after 24 hours at -20°C and 4°C, and exhibited robust stability across a wide pH range (pH 6 to 11). One-step growth analysis revealed a short latent period of 21.7±8.1 minutes and a burst size of 27.7±1.5 PFU per infected cell. Genomic analysis showed ?Afa-NA1 possesses a 78,105 bp double-stranded DNA genome with 45.8% G+C content encoding 83 predicted open reading frames. Comparative genomics and phylogenetic reconstruction confirmed its placement among T7-like Podoviruses, consistent with its obligate lytic lifecycle and genomic architecture. However, the potential for therapeutic application remains preliminary, as host range testing was conducted on a limited panel of single clinical isolates, and all assays were performed in vitro.
Co-Authors BINAR RAHMA UTAMI DHIVA AULIA WINDA UTAMI ERLIA NARULITA ERLIA NARULITA ERMA SULISTYANINGSIH FADHILAH AYU SAVITRI HALIZA INAYAH ARRACHMI HARDIAN SUSILO ADDY HARDIAN SUSILO ADDY KAMALIA FIKRI KUSWATI KUSWATI KUSWATI KUSWATI LAILI IZZATURROHMAH RAYYAN ZHAFIR LUDFILLAH RISKA AYU FEBRIANTI RISKA AYU FEBRIANTI