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All Journal Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences Jurnal Veteriner Microbiology Indonesia The Journal of Experimental Life Sciences (JELS) Journal of Innovation and Applied Technology Jurnal Biodjati JFMR (Journal of Fisheries and Marine Research) Berkala Penelitian Hayati
Yoga Dwi Jatmiko
Department Of Biology Faculty Of Mathematics And Natural Sciences Universitas Brawijaya
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Computer Science & IT Earth & Planetary Sciences Engineering Environmental Science Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Veterinary

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Next-Generation Sequencing of the Microbial Community Profile In Free-Range Chicken (Gallus gallus domesticus) Cecum from East Nusa Tenggara Province: Microbial community profile in free-range chicken (Gallus gallus domesticus) cecum Eufrasia Reneilda Arianti Lengur; Yoga Dwi Jatmiko; Endang Arisoesilaningsih; Eko Widodo
Journal of Tropical Life Science Vol. 13 No. 2 (2023)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.13.02.13

Abstract

Free-range chicken is livestock reared to support the humans' need for protein alongside its ritualistic use in traditional medicine to treat diseases. This study investigates the diversity of bacterial communities in the free-range chicken cecum reared in different East Nusa Tenggara Province localities comprising Sambi 1, Sambi 2 villages, Labuan Bajo, and Kupang City. The extracted chromosomal DNA was subjected to next-generation sequencing using the V3-V4 region primers. Results revealed that the Kupang chicken cecum had the highest total tags, while the Sambi 2 village recorded the lowest. Similarly, Sambi 2 chicken cecum exhibited the highest unique tags (6662) and OTUs number (1261), while the Kupang samples gave the lowest at 2550 and 745, respectively. The Shannon diversity index for bacterial diversity demonstrated that cecum samples from Labuan Bajo (5.679) were more diverse than Sambi 1 (5.378), Sambi 2 (5.653), and Kupang samples (3.77). The bacteria with the highest dominance index (0.935) was found in Sambi 2, while the lowest was observed in the Kupang samples (0.082). The three bacterial phyla showing the highest relative abundance were those from Sambi 1, Sambi 2, and Labuan Bajo cecum samples, comprising Firmicutes, Bacteroidota, and Actinobacteriota.Conversely, the Kupang samples showed an abundance of Firmicutes, Bacteroidota, and Campilobacterota, compared to the Lactobacillus-dominated Kupang, Sambi 1, and Sambi 2 chicken cecum samples. The highest relative abundance for Bifidobacterium occurred in Sambi 1 and Sambi 2 chicken cecum samples, the Kupang samples were Campylobacter dominated, and Olsenella was abundant in the Labuan Bajo samples. Intriguingly, the bacterial composition in the tested chicken cecum samples largely comprised beneficial bacteria such as the lactic acid bacteria group. This bacterial group can be further characterized for obtaining probiotic cultures that could improve the health of free-range chickens.
Co-Authors Abdul Aziz Jaziri, Abdul Aziz Aditya Ragil Suharto Affan Gaffar Agung Putra Purwanto Alifia Issabella Mulyawati Angie Via Resty Kimbal Asep Awaludin Prihanto Dayu Nirwana Putri Eko Widodo Elsa Mega Suryani Endang Arisoesilaningsih Eufrasia Reneilda Arianti Lengur Furzania Mumtaza Helena Daten Herjuno Ari Nugroho Hidayatun Muyasyaroh Irfan Mustafa MARY D BARTON MIGUEL DE BARROS LOPES Rahmi Nurdiani Siska Aditya Sri Widyarti Sugiyono Saputra Tri Ardyati Wiwik Handayani