Whole metagenome sequencing of cecum microbiomes in Ethiopian indigenous chickens from two different altitudes reveals antibiotic resistance genes
- Authors
- Kumar, Himansu; Park, Woncheoul; Lim, Dajeong; Srikanth, Krishnamoorthy; Kim, Jun-Mo; Jia, Xin-Zheng; Han, Jian-Lin; Hanotte, Olivier; Park, Jong-Eun; Oyola, Samuel O.
- Issue Date
- Mar-2020
- Publisher
- Academic Press Inc.
- Keywords
- Antibiotic resistant gene.; CAZy; eggNOG; Indigenous chicken; KEGG; LEfSe; Microbiome
- Citation
- Genomics, v.112, no.2, pp 1988 - 1999
- Pages
- 12
- Journal Title
- Genomics
- Volume
- 112
- Number
- 2
- Start Page
- 1988
- End Page
- 1999
- URI
- https://scholarworks.bwise.kr/cau/handle/2019.sw.cau/37577
- DOI
- 10.1016/j.ygeno.2019.11.011
- ISSN
- 0888-7543
1089-8646
- Abstract
- We analyzed the whole genomes of cecum microbiomes of Ethiopian indigenous chickens from two distinct geographical zones: Afar (AF) district (Dulecha, 730 m above sea level) and Amhara (AM) district (Menz Gera Midir, 3300 m). Through metagenomic analysis we found that microbial populations were mainly dominated by Bacteroidetes and Firmicutes. We identified 2210 common genes in the two groups. LEfSe showed that the distribution of Coprobacter, Geobacter, Cronobacter, Alloprevotella, and Dysgonomonas were more abundant in AF than AM. Analyses using KEGG, eggNOG, and CAZy databases indicated that the pathways of metabolism, genetic information processing, environmental information processing, and cellular process were significantly enriched. Functional abundance was found to be associated with the nutrient absorption and microbial localization of indigenous chickens. We also investigated antibiotic resistant genes and found antibiotics like LSM, cephalosporin, and tetracycline were significantly more abundant in AF than AM. © 2019 Elsevier Inc.
- Files in This Item
- There are no files associated with this item.
- Appears in
Collections - ETC > 1. Journal Articles
![qrcode](https://api.qrserver.com/v1/create-qr-code/?size=55x55&data=https://scholarworks.bwise.kr/cau/handle/2019.sw.cau/37577)
Items in ScholarWorks are protected by copyright, with all rights reserved, unless otherwise indicated.