Welcome to Open Science
Contact Us
Home Books Journals Submission Open Science Join Us News Unsubscribe Page
Metagenomic Profiles of Antibiotic Resistance Genes Associated with Bar-headed Goose (Anser indicus)
Current Issue
Volume 3, 2016
Issue 1 (September)
Pages: 1-11   |   Vol. 3, No. 1, September 2016   |   Follow on         
Paper in PDF Downloads: 76   Since Aug. 25, 2016 Views: 988   Since Aug. 25, 2016
Authors
[1]
Wang Wen, Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xi'ning, China.
[2]
Zheng Si-si, Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xi'ning, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China.
[3]
Sharshov Kirill, Research Institute of Experimental and Clinical Medicine, Novosibirsk, Russia.
[4]
Sun Hao, Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xi'ning, China.
[5]
Yang Fang, Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xi'ning, China.
[6]
Wang Xue-lian, Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xi'ning, China.
[7]
Li Lai-xing, Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xi'ning, China.
Abstract
Bar-headed goose (Anser indicus), a species endemic to Asia, has become one of the most popular economic species in recent years for wild birds artificial rearing industries in several provinces of China. The use of antibiotics may accelerate the development of antibiotic resistance genes (ARGs) and bacteria which shade health risks to humans and animals. The emerging of ARGs related to Bar-headed goose is becoming an increasing concern. In this study, the profiles of ARGs in both wild and artificially reared Bar-headed geese were investigated using a high-throughput functional metagenomic approach. Analysis of the data showed the existence of a broad-spectrum of different ARGs in both two groups, and the types and subtypes of ARGs were much more abundant and diverse in the artificially reared Bar-headed geese than wild ones. The ARGs related to resistance to streptomycin and trimethoprim have been detected at higher abundance in wild group. ARGs contributed to the resistance to acriflavin, aminoglycoside, beta_lactam, glycylcycline, bacitracin, staphylococcus, fluoroquinolone, thiostrepton and teicoplanin were found to be higher in artificially reared group. These findings provided a broad spectrum profile of ARGs in Bar-headed geese, and may help in the design of future studies to elucidate how artificial rearing environmental factors contributed to the spread of ARGs.
Keywords
Bar-headed Goose, Gut Metagenome, Antibiotic Resistance Genes, High-throughput Sequencing, Artificial Rearing
Reference
[1]
Wright GD. The antibiotic resistome: the nexus of chemical and genetic diversity. Nat. Rev. Microbiol. 2007; 5(3): 175-186.
[2]
Dantas G and Sommer MO. Context matters - the complex interplay between resistome genotypes and resistance phenotypes. Curr. Opin. Microbiol. 2012; 15(5): 577-582.
[3]
Sommer MO, Dantas G and Church GM. Functional characterization of the antibiotic resistance reservoir in the human microflora. Science. 2009; 325(5944): 1128-1131.
[4]
Forsberg KJ, Patel S, Gibson MK, Lauber CL, Knight R, Fierer N and Dantas G. Bacterial phylogeny structures soil resistomes across habitats. Nature. 2014; 509(7502): 612-616.
[5]
Durso LM, Miller DN and Wienhold BJ. Distribution and quantification of antibiotic resistant genes and bacteria across agricultural and non-agricultural metagenomes. PloS one. 2012; 7(11): e48325.
[6]
Allen HK, Donato J, Wang HH, Cloud-Hansen KA, Davies J and Handelsman J. Call of the wild: antibiotic resistance genes in natural environments. Nat. Rev. Microbiol. 2010; 8(4): 251-259.
[7]
van Schaik W. The human gut resistome. Phil. Trans. R. Soc. B. 2015; 370(1670): 20140087.
[8]
Sommer MO and Dantas G. Antibiotics and the resistant microbiome. Curr. Opin. Microbiol. 2011; 14(5): 556-563.
[9]
Hu Y, Yang X, Qin J, Lu N, Cheng G, Wu N, Pan Y, Li J, Zhu L, Wang X, Meng Z, Zhao F, Liu D, Ma J, Qin N, Xiang C, Xiao Y, Li L, Yang H, Wang J, Yang R, Gao GF, Wang J and Zhu B. Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota. Nat. Commun. 2013; 4: 2151.
[10]
Malmuthuge N, Griebel PJ and Guan L. The Gut Microbiome and Its Potential Role in the Development and Function of Newborn Calf Gastrointestinal Tract. Front. Vet. Sci. 2015; 2: 36.
[11]
Ahern PP, Faith JJ and Gordon JI. Mining the human gut microbiota for effector strains that shape the immune system. Immunity. 2014; 40(6): 815-823.
[12]
Kau AL, Ahern PP, Griffin NW, Goodman AL and Gordon JI. Human nutrition, the gut microbiome and the immune system. Nature. 2011; 474(7351): 327-336.
[13]
O'Mahony SM, Clarke G, Borre YE, Dinan TG and Cryan JF. Serotonin, tryptophan metabolism and the brain-gut-microbiome axis. Behav. Brain. Res. 2015; 277: 32-48.
[14]
Lee WJ and Hase K. Gut microbiota-generated metabolites in animal health and disease. Nat. Chem. Biol. 2014; 10(6): 416-424.
[15]
Kinross JM, Darzi AW and Nicholson JK. Gut microbiome-host interactions in health and disease. Genome. Med. 2011; 3(3): 14.
[16]
Singer RS and Hofacre CL. Potential impacts of antibiotic use in poultry production. Avian. Dis. 2006; 50(2): 161-172.
[17]
Faldynova M, Videnska P, Havlickova H, et al. Prevalence of antibiotic resistance genes in faecal samples from cattle, pigs and poultry. Vet. Med. 2013; 58(6): 298-304.
[18]
Takekawa J Y, Heath S R, Douglas D C, et al. Geographic variation in Bar-headed Geese Anser indicus: Connectivity of wintering areas and breeding grounds across a broad front. Wildfowl. 2012; 59(2009): 100-123.
[19]
Bishop MA, Song YL, Canjue ZM and Gu BY. Bar-headed Geese Anser indicus wintering in South-central Tibet. Wildfowl. 1997; 48: 118-126.
[20]
Javed S, Takekawa J Y, Rahmani A R, et al. Tracking the spring migration of a Bar-headed Goose (Anser indicus) across the Himalaya with satellite telemetry. Global. Environ. Res. 2000; 4: 195-205.
[21]
Feare CJ, Kato T and Thomas R. Captive rearing and release of Bar-headed Geese (Anser indicus) in China: a possible HPAI H5N1 virus infection route to wild birds. J. Wildl. Dis. 2010; 46: 1340-1342.
[22]
Card R, Zhang J, Das P, Cook C, Woodford N and Anjum MF. Evaluation of an expanded microarray for detecting antibiotic resistance genes in a broad range of gram-negative bacterial pathogens. Antimicrob. Agents. Ch. 2013; 57(1): 458-465.
[23]
Elbehery AH, Aziz RK and Siam R. Antibiotic Resistome: Improving Detection and Quantification Accuracy for Comparative Metagenomics. Omics. 2016; 20(4): 229-238.
[24]
Xiao KQ, Li B, Ma L, Bao P, Zhou X, Zhang T and Zhu YG. Metagenomic profiles of antibiotic resistance genes in paddy soils from South China. FEMS. Microbiol. Ecol. 2016; 92(3).
[25]
Wang W, Cao J, Yang F, Wang X, Zheng S, Sharshov K and Li L. High-throughput sequencing reveals the core gut microbiome of Bar-headed goose (Anser indicus) in different wintering areas in Tibet. MicrobiologyOpen. 2016; 5(2): 287-295.
[26]
Wang W, Cao J, Li JR, Yang F, Li Z and Li LX. Comparative analysis of the gastrointestinal microbial communities of bar-headed goose (Anser indicus) in different breeding patterns by high-throughput sequencing. Microbiol. Res. 2016; 182: 59-67.
[27]
Andrews S, et al. FastQC: A Quality Control tool for High Throughput Sequence Data. 2012; http://www.bioinformatics.babraham.ac.uk/projects/fastqc/.
[28]
Bolger AM, Marc L and Bjoern U. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014; 30: 2114-2120.
[29]
Huson DH, Auch AF, Qi J and Schuster SC. MEGAN analysis of metagenomic data. Genome. Res. 2007; 17: 377-386.
[30]
Li D, Liu CM, Luo R, Sadakane K and Lam TW. Megahit: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de bruijn graph. Bioinformatics. 2015; 31: 1674-1676.
[31]
Hyatt D, Locascio PF, Hauser LJ and Uberbacher EC. Gene and translation initiation site prediction in metagenomic sequences. Bioinformatics. 2012; 28: 2223-2230.
[32]
Forsberg KJ, Reyes A, Wang B, Selleck EM, Sommer MO and Dantas G. The shared antibiotic resistome of soil bacteria and human pathogens. Science. 2012; 337(6098): 1107-1111.
[33]
Dyer JR and Todd AW. The Absolute Configuration of Streptidine in Streptomycin. J. Vasc. Intervent. Radiol. 2015; 26(2): S115.
[34]
Iscla I, Wray R, Wei S, Posner B and Blount P. Streptomycin potency is dependent on MscL channel expression. Nat. Commun. 2014; 5: 4891.
[35]
Arjomandzadegan M and Gravand S. Analysis of rpsL and rrs genes mutations related to streptomycin resistance in Mdr and Xdr clinical isolates of Mycobacterium tuberculosis. Tuberkulozve. Toraks. 2015; 63(4): 235-242.
[36]
Falagas ME, Vardakas KZ and Roussos NS. Trimethoprim/sulfamethoxazole for Acinetobacter spp.: A review of current microbiological and clinical evidence. Int. J. Antimicrob. Ag. 2015; 46(3): 231-241.
[37]
Zhu YG, Johnson TA, Su JQ, Qiao M, Guo GX, Stedtfeld RD, et al. Diverse and abundant antibiotic resistance genes in Chinese swine farms. Proc. Natl. Acad. Sci. USA. 2013; 110: 3435-3440.
[38]
Zhang XX, Zhang T, and Fang HH. Antibiotic resistance genes in water environment. Appl. Microbiol. Biotechnol. 2009; 82(3): 397-414.
Open Science Scholarly Journals
Open Science is a peer-reviewed platform, the journals of which cover a wide range of academic disciplines and serve the world's research and scholarly communities. Upon acceptance, Open Science Journals will be immediately and permanently free for everyone to read and download.
CONTACT US
Office Address:
228 Park Ave., S#45956, New York, NY 10003
Phone: +(001)(347)535 0661
E-mail:
LET'S GET IN TOUCH
Name
E-mail
Subject
Message
SEND MASSAGE
Copyright © 2013-, Open Science Publishers - All Rights Reserved