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Abstract: Bacteria of the genus Myroides (Myroides spp.) are rare opportunistic pathogens. Myroides sp. infections have been reported mainly in China. Myroides sp. is highly resistant to most available antibiotics, but the resistance mechanisms are not fully elucidated. Current strain identification methods based on biochemical traits are unable to identify strains accurately at the species level. While 16S ribosomal RNA (rRNA) gene sequencing can accurately achieve this, it fails to give information on the status and mechanisms of antibiotic resistance, because the 16S rRNA sequence contains no information on resistance genes, resistance islands or enzymes. We hypothesized that obtaining the whole genome sequence of Myroides sp., using next generation sequencing methods, would help to clarify the mechanisms of pathogenesis and antibiotic resistance, and guide antibiotic selection to treat Myroides sp. infections. As Myroides sp. can survive in hospitals and the environment, there is a risk of nosocomial infections and pandemics. For better management of Myroides sp. infections, it is imperative to apply next generation sequencing technologies to clarify the antibiotic resistance mechanisms in these bacteria.

芳香黄杆菌的耐药机制

[1]Abrams, A.J., Trees, D.L., Nicholas, R.A., 2015. Complete genome sequences of three Neisseria gonorrhoeae laboratory reference strains, determined using PacBio single-molecule real-time technology. Genome Announc., 3(5):e01052-15.

[2]An, R.F., 1992. A strain of Flavobacterium odoratum isolated from liver hydatid postoperative drainage liquid. Lab. Med., (01):7 (in Chinese).

[3]Andreoni, S., 1986. Isolation of Flavobacterium odoratumfrom human matter. Quad. Sclavo. Diagn., 22(3):318-329.

[4]Bachmeyer, C., Entressengle, H., Khosrotehrani, K., et al., 2007. Cellulitis due to Myroides odoratimimus in a patient with alcoholic cirrhosis. Clin. Exp. Dermatol., 33:97-98.

[5]Benedetti, P., Rassu, M., Pavan, G., et al., 2011. Septic shock, pneumonia, and soft tissue infection due to Myroides odoratimimus: report of a case and review of Myroides infections. Infection, 39(2):161-165.

[6]Bentley, D., 2006. Whole-genome re-sequencing. Curr. Opin. Genet. Dev., 16(6):545-552.

[7]Burghartz, M., Bunk, B., Spröer, C., et al., 2015. Complete genome sequence of the urethral catheter isolate Myroides sp. A21. Genome Announc., 3(2):e00068-15.

[8]Chen, X.C., Liang, L., Lin, W., 2009. Analysis of elven Myroides sp. isolates from urine culture. Chin. J. Pract. Med. Tech., 16(9):691-692 (in Chinese).

[9]Chi, K.R., 2008. The year of sequencing. Nat. Methods, 5(1):11-14.

[10]Cho, S.H., Chae, S.H., Im, W.T., et al., 2011. Myroides marinus sp. nov., a member of the family Flavobacteriaceae, isolated from seawater. Int. J. Syst. Evol. Microbiol., 61(Pt 4):938-947.

[11]Crum-Cianflone, N.F., Matson, R.W., Ballon-Landa, G., 2014. Fatal case of necrotizing fasciitis due to Myroides odoratus. Infection, 42(5):931-935.

[12]Daum, L.T., Fischer, G.W., Sromek, J., et al., 2014. Characterization of multi-drug resistant Mycobacterium tuberculosis from immigrants residing in the USA using Ion Torrent full-gene sequencing. Epidemiol. Infect., 142(6):1328-1333.

[13]Geng, H.Q., Li, X.L., Li, S., 2000. Isolating and identifying a strain of Flavobacterium odoratum in blood and bone marrow. Cent. Plains Med. J., 27(3):52 (in Chinese).

[14]Guo, L., Liu, X.F., 2011. Separation of imipenem-resistant Flavobacterium odoratum from sputum in one case. Lab. Med. Clin., 8(2):175-177 (in Chinese).

[15]Holmes, B., Snell, J.J.S., Lapage, S.P., 1977. Revised description, from clinical isolates, of Flavobacterium odoratum Stutzer and Kwaschnina 1929, and designation of the neotype strain. Int. J. Syst. Bacteriol., 27(4):330-336.

[16]Hu, X.L., He, J.Y., Fu, P.M., et al., 2013. Participation of clinical pharmacists in one case of bone tissue infection by multidrug-resistant Flavobacterium odoratum and review of the literature. China Pharm., 24(30):2873-2875 (in Chinese).

[17]Huang, H., Yang, Z.L., Wu, X.M., et al., 2012. Complete genome sequence of Acinetobacter baumannii MDR-TJ and insights into its mechanism of antibiotic resistance. J. Antimicrob. Chemoth., 67(12):2825-2832.

[18]Huang, Y.K., Yao, Y., Wang, J., et al., 2014. One case of cellulitis complicated with bacteremia caused by multidrug-resistant fungus genus. J. Clin. Lab., 32(7):560 (in Chinese).

[19]Huang, Y.M., Lin, Y., 2003. A case of Flavobacterium odoratum septicemia. Chin. J. Infect. Dis., 21(2):131 (in Chinese).

[20]Hummel, A.S., Hertel, C., Holzapfel, W.H., et al., 2007. Antibiotic resistances of starter and probiotic strains of lactic acid bacteria. Appl. Environ. Microbiol., 73(3):730-739.

[21]Jin, Z.C., Xiao, Z.M., 1995. A case of nosocomial infection by Myroides sp. Chin. J. Pract. Intern. Med., 15(3):162 (in Chinese).

[22]Koren, S., Schatz, M.C., Walenz, B.P., et al., 2012. Hybrid error correction and de novo assembly of single-molecule sequencing reads. Nat. Biotechnol., 30(7):693-700.

[23]Ktari, S., Mnif, B., Koubaa, M., et al., 2012. Nosocomial outbreak of Myroides odoratimimus urinary tract infection in a Tunisian hospital. J. Hosp. Infect., 80(1):77-81.

[24]Kuai, S., Huang, L.H., Pei, H., et al., 2011. Imipenem resistance due to class A carbapenemase KPC-2 in a Flavobacterium odoratum isolate. J. Med. Microbiol., 60(Pt 9):1408-1409.

[25]Lan, Z.C., Bao, G.J., 2009. The culture, isolation, identification and antimicrobial susceptibility testing of 23 strains of Myroides sp. Chin. Commun. Dr., 11(14):162 (in Chinese).

[26]Lee, M.H., Chen, T.L., Lee, Y.T., et al., 2013. Dissemination of multidrug-resistant Acinetobacter baumannii carrying Bla_OxA-23 from hospitals in central Taiwan. J. Microbiol. Immunol. Infect., 46(6):419-424.

[27]Lee, M.J., Jang, S.J., Li, X.M., et al., 2014. Comparison of rpoB gene sequencing, 16S rRNA gene sequencing, gyrB multiplex PCR and the VITEK2 system for identification of Acinetobacter clinical isolates. Diagn. Microbiol. Infect. Dis., 78(1):29-34.

[28]Li, C.Y., Zhao, T.L., 1995. Isolation, identification and drug sensitivity results of 12 strains of Flavobacterium odoratum. Shanghai J. Med. Lab. Sci., 10(12):96 (in Chinese).

[29]Li, H., Li, Y., Xian, X., et al., 2010. Three isolates of Myroides sp. from middle urinary tract. Clin. Focus, 25(13):1125 (in Chinese).

[30]Liu, Z.Y., He, Y., 2001. A case of pulmonary infection caused by Clay Shah Ray Prandlofs real bacteria and Flavobacterium odoratum. Pract. Med. Technol., 8(3):175 (in Chinese).

[31]Macfarlane, D.E., Baum-Thureen, P., Crandon, I., 1985. Flavobacterium odoratum ventriculitis treated with intraventricular cefotaxime. J. Infect., 11(3):233-238.

[32]Mammeri, H., Bellais, S., Nordmann, P., 2002. Chromosome-encoded β-lactamases TUS-1 and MUS-1 from Myroides odoratus and Myroides odoratimimus (formerly Flavobacterium odoratum), new members of the lineage of molecular subclass B1 metalloenzymes. Antimicrob. Agents Chemother., 46(11):3561-3567.

[33]Maraki, S., Sarchianaki, E., Barbagadakis, S., 2012. Myroides odoratimimus soft tissue infection in an immunocompetent child following a pig bite: case report and literature review. Braz. J. Infect. Dis., 16(4):390-392.

[34]Marathe, N.P., Shetty, S.A., Lanjekar, V.B., et al., 2014. Genome sequencing of multidrug resistant novel Clostridium sp. BL8 reveals its potential for pathogenicity. Gut Pathog., 6(1):30.

[35]Margulies, M., Egholm, M., Altman, W.E., et al., 2005. Genome sequencing in microfabricated high-density picolitre reactors. Nature, 437:376-380.

[36]Meng, X.X., Xu, X.F., Lang, Q.L., 1999. Flavobacterium and Escherichia coli were isolated from the blood, bile, ascites at the same time. Shanghai Med. Test J., 14(6):372 (in Chinese).

[37]Ravindran, C., Varatharajan, G.R., Raju, R., et al., 2015. Infection and pathogenecity of Myroides odoratimimus (NIOCR-12) isolated from the gut of grey mullet (Mugil cephalus (Linnaeus, 1758)). Microb. Pathog., 88:22-28.

[38]Rolain, J.M., Diene, S.M., Kempf, M., et al., 2013. Real-time sequencing to decipher the molecular mechanism of resistance of a clinical pan-drug-resistant baumannii isolate from Marseille, France. Antimicrob. Agents Chemother., 57(1):592-596.

[39]Rothberg, J.M., Hinz, W., Rearick, T.M., et al., 2011. An integrated semiconductor device enabling non-optical genome sequencing. Nature, 475(7356):348-352.

[40]Schröttner, P., Rudolph, W.W., Eing, B.R., et al., 2014. Comparison of VITEK2, MALDI-TOF MS, and 16S rDNA sequencing for identification of Myroides odoratus and Myroides odoratimimus. Diagn. Microbiol. Infect. Dis., 79(2):155-159.

[41]Shi, W.F., Zhou, K.Q., 1993. Isolation of a strain of Flavobacterium odoratum from cerebrospinal fluid. Shanghai J. Med. Lab. Sci., 8(4):211 (in Chinese).

[42]Snitkin, E.S., Zelazny, A.M., Gupta, J., et al., 2013. Genomic insights into the fate of colistin resistance and Acinetobacter baumannii during patient treatment. Genome Res., 23(7):1155-1162.

[43]Song, C.G., 2005. One case of severe iatrogenic pulmonary infection caused by Flavobacterium odoratum. Chin. J. Hosp. Infect., 15(10):1141 (in Chinese).

[44]Song, K.Y., Zhang, H.W., Zhang, X.Y., 1995. A case of chewing muscle abscess caused by Flavobacterium odoratum. Shanghai Med. Test J., 10(4):245 (in Chinese).

[45]Spanik, S., Trupl, J., Krcmery, V., 1998. Nosocomial catheter-associated Flavobacterium odoraturn bacteraemia in cancer patients. J. Med. Microbiol., 47(2):183.

[46]Stutzer, M., Kwaschnina, A., 1929. Aussaaten aus den Fäzes des Menschen gelbe Kolonien bildende Bakterien (Gattung Flavobacterium u.a.). Zentralbl. Bakteriol. Parasitenkd. Infektionskr. Hyg. Abt. 1 Orig., 113:219-225 (in German).

[47]Suganthi, R., Priya, T.S., Saranya, A., et al., 2013. Relationship between plasmid occurrence and antibiotic resistance in Myroides odoratimimus SKS05-GRD isolated from raw chicken meat. World J. Microbiol. Biotechnol., 29(6):983-990.

[48]Sun, X.H., Zhang, C.L., 2006. A strain of Flavobacterium odoratum isolated from wounds in one case of traumatic patient. Chin. Commun. Dr., 12(8):82 (in Chinese).

[49]Tan, S.Y., Chua, S.L., Liu, Y., et al., 2013. Comparative genomic analysis of rapid evolution of an extreme-drug-resistant baumannii clone. Genome Biol. Evol., 5(5):807-818.

[50]Tatusova, T., Ciufo, S., Federhen, S., et al., 2015. Update on RefSeq microbial genomes resources. Nucleic Acids Res., 43(D1):D599-D605.

[51]Tian, G.Z., Wang, X.L., 2010. Advances in the study of Flavobacterium indologenes. J. Pathog. Biol., 5(2):134-136 (in Chinese).

[52]Vancanneyt, M., Segers, P., Torck, U., et al., 1996. Reclassification of Flavobacterium odoratum (Stutzer 1929) strains to a new genus, Myroides, as Myroides odoratus comb. nov. and Myroides odoratimimus sp. nov. Int. J. Syst. Bacteriol., 46(4):926-932.

[53]Wang, Y.L., Su, F.M., 1992. A case of neonatal septicemia caused by Flavobacterium odoratum. Lab. Med., (4):248 (in Chinese).

[54]Wu, G.M., 1998. Flavobacterium odoratum was detected from a burn patient blood and many other parts. Shanghai J. Med. Lab. Sci., 13(1):34 (in Chinese).

[55]Wuer, G.L., Aisi, K.E., Gu, H.E., 2002. One cases Flavobacterium odoratum isolated from urine separation. J. Clin. Lab., 20(1):44 (in Chinese).

[56]Yağci, A., Cerikçioğlu, N., Kaufmann, M.E., et al., 2000. Molecular typing of Myroides odoratimimus (Flavobacterium odoratum) urinary tract infections in a Turkish hospital. Eur. J. Clin. Microbiol. Infect. Dis., 19(9):731-732.

[57]Yan, S., Zhao, N., Zhang, X.H., 2012. Myroides phaeus sp. nov., isolated from human saliva, and emended descriptions of the genus Myroides and the species Myroides profundi Zhang et al. 2009 and Myroides marinus Cho et al. 2011. Int. J. Syst. Evol. Microbiol., 62(Pt 4):770-775.

[58]Yang, J.H., Wang, L.Y., 2001. A case of Flavobacterium odoratum wound infection. Pract. Med. Technol., 8(7):542 (in Chinese).

[59]Yoon, J., Maneerat, S., Kawai, F., et al., 2006. Myroides pelagicus sp. nov., isolated from seawater in Thailand. Int. J. Syst. Evol. Microbiol., 56(Pt 8):1917-1920.

[60]Zhang, B.C., Zhang, J.T., 1996. Neonatal sepsis associated with meningitis and strain identification of Flavobacterium odoratum. Tianjin Med., 24(3):181-182 (in Chinese).

[61]Zhang, X.Y., Zhang, Y.J., Chen, X.L., et al., 2008. Myroides profundi sp. nov., isolated from deep-sea sediment of the southern Okinawa Trough. FEMS Microbiol. Lett., 287(1):108-112.

[62]Zhang, Z.D., He, L.Y., Huang, Z., et al., 2014. Myroides xuanwuensis sp. nov., a mineral-weathering bacterium isolated from forest soil. Int. J. Syst. Evol. Microbiol., 64(Pt 2):621-624.

[63]Zhao, S.Q., 2000. One case of children with Flavobacterium odoratum septicemia. New Med., 31(8):482-483 (in Chinese).