Similarity of bacterial community structure between Asian dust and its sources determined by rRNA gene-targeted approaches

Microbes and Environments

Volumn 25, Issue 1, 2010, Pages 22-27

  Nishimura, Yoshinori ^a   Kenzaka, Takehiko ^a,b   Sueyoshi, Akio ^a   Li, Pinfang ^c   Fujiyama, Hideyasu ^d   Baba, Takashi ^a   Yamaguchi, Nobuyasu ^a   Nasu, Masao ^a  

^a OSAKA UNIVERSITY   (Japan)

^b OSAKA OHTANI UNIVERSITY   (Japan)

^c CHINA AGRICULTURAL UNIVERSITY   (China)

^d TOTTORI UNIVERSITY   (Japan)

Author keywords

Arid soil; Asian dust; Community structure; Diversity; rRNA gene

Indexed keywords

BACTERIAL DNA; RIBOSOME DNA; RNA 16S;

ARTICLE; ASIA; BACTERIUM; BIODIVERSITY; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; DNA FINGERPRINTING; DNA SEQUENCE; DUST; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY; RESTRICTION FRAGMENT LENGTH POLYMORPHISM;

ASIA; BACTERIA; BIODIVERSITY; CLUSTER ANALYSIS; DNA FINGERPRINTING; DNA, BACTERIAL; DNA, RIBOSOMAL; DUST; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

BACTERIA (MICROORGANISMS);

EID: 77349101092     PISSN: 13426311     EISSN: 13426311     Source Type: Journal    
DOI: 10.1264/jsme2.ME09166     Document Type: Article

References (33)

1. Bishop, J.K.B., R.E. Davis, and J.T. Sherman. 2002. Robotic observa-tions of dust storm enhancement of carbon biomass in the North Pacific. Science 298:817-821.
2. D'Almeida, G.A. 1986. A model for Saharan dust transport. J. Appl. Meteorol. 25:903-916.
3. Díez, B., C. Pedrós-Alió, T.L. Marsh, and R. Massana. 2001. Appli-cation of denaturing gradient gel electrophoresis (DGGE) to study the diversity of marine picoeukaryotic assemblages and comparison of DGGE with other molecular techniques. Appl. Environ. Microbiol. 67:2942-2951.
4. Edwards, U., T. Rogall, H. Blöcker, M. Emde, and E.C. Böttger. 1989. Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res. 17:7843-7853.
5. Falke, S.R., R.B. Husar, and B.A. Schichtel. 2001. Fusion of SeaWiFS and TOMS satellite data with surface observations and topographic data during extreme aerosol events. J. Air Waste Manag. Assoc. 51:1579-1585.
6. Fierer, N., and R.B. Jackson. 2006. The diversity and biogeography of soil bacterial communities. Proc. Natl. Acad. Sci. USA 103:626-631.
7. Garrison, V.H., E.A. Shinn, W.T. Foreman, et al. 2003. African and Asian dust: From desert soils to coral reefs. Bioscience 53:469-480.
8. Glavin, D.P., H.J. Cleaves, M. Schubert, A. Aubrey, and J.L. Bada. 2004. New method for estimating bacterial cell abundances in natural samples by use of sublimation. Appl. Environ. Microbiol. 70:5923-5928.
9. Goris, J., P. De Vos, T. Coenye, et al. 2001. Classification of metal-resistant bacteria from industrial biotopes as Ralstonia campinensis sp. nov., Ralstonia metallidurans sp. nov. and Ralstonia basilensis Steinle et al. 1998 emend. Int. J. Syst. Evol. Microbiol. 51:1773-1782.
10. Griffin, D.W. 2007. Atmospheric movement of microorganisms in clouds of desert dust and implications for human health. Clin. Microbiol. Rev. 20:459-477.
11. Grimont, F., and P.A.D. Grimont. 1992. The genus Serratia. p. 2822-2848. In A. Balows, H.G. Trüper, M. Dworkin, W. Harder, and K.H. Schleifer (ed.), The Prokaryotes, 2nd ed,. vol. 3. Springer-Verlag, New York, USA.
12. Hiyoshi, K., T. Ichinose, K. Sadakane, et al. 2005. Asian sand dust enhances ovalbumin-induced eosinophil recruitment in the alveoli and airway of mice. Environ. Res. 99:361-368.
13. Hodges, T.W., and J.B. Olson. 2009. Molecular comparison of bacterial communities within iron-containing flocculent mats associated with submarine volcanoes along the Kermadec Arc. Appl. Environ. Microbiol. 75:1650-1657.
14. Huang, J., P. Minnis, B. Chen, Z. Huang, Z. Liu, Q. Zhao, Y. Yi, and J.K. Ayers. 2008. Long-range transport and vertical structure of Asian dust from CALIPSO and surface measurements during PACDEX. J. Geophys. Res. 113:D23212.
15. Huang, J., J. Pang, T. Watanabe, H.K. Ng, and H. Ohgaki. 2009. Whole genome amplification for array comparative genomic hybridization using DNA extracted from formalin-fixed, paraffin-embedded histological sections. J. Mol. Diagn. 11:109-116.
16. Iwamoto, T., K. Tani, K. Nakamura, Y. Suzuki, M. Kitagawa, M. Eguchi, and M. Nasu. 2000. Monitoring impact of in situ biostimulation treatment on groundwater bacterial community by DGGE. FEMS Microbiol. Ecol. 32:129-141.
17. Klappenbach, J.A., P.R. Saxman, J.R. Cole, and T.M. Schmidt. 2001. rrndb: the ribosomal RNA operon copy number database. Nucleic Acids Res. 29:181-184.
18. Lasken, R.S. 2009. Genomic DNA amplification by the multiple displacement amplification (MDA) method. Biochem. Soc. Trans. 37:450-453.
19. Lee, S., B. Choi, S.M. Yi, and G. Ko. 2009. Characterization of microbial community during Asian dust events in Korea. Sci. Total Environ. 407:5308-5314.
20. Lester, E.D., M. Satomi, and A. Ponce. 2007. Microflora of extreme arid Atacama Desert soils. Soil Biol. Biochem. 39:704-708.
21. Moulin, C., and I. Chiapello. 2006. Impact of human-induced desertification on the intensification of Sahel dust emission and export over the last decades. Geophys Res. Lett. 33:L18808.
22. Pinard, R., A. de Winter, G.J. Sarkis, M.B. Gerstein, K.R. Tartaro, R.N. Plant, M. Egholm, J.M. Rothberg, and J.H. Leamon. Assessment of whole genome amplification-induced bias through high-through-put, massively parallel whole genome sequencing. BMC Genomics. 7:216.
23. Prospero, J.M., and P.J. Lamb. 2003. African droughts and dust transport to the Caribbean: Climate change implications. Science 302:1024-1027.
24. Qualls, R.G., M.P. Flynn, and J.D. Johnson. 1983. The role of suspended particles in ultraviolet disinfection. J. Water Pollut. Control Fed. 55:1280-1285.
25. Schlesinger, P., Y. Mamane, and I. Grishkan. 2006. Transport of microorganisms to Israel during Saharan dust events. Aerobiologia (Bologna) 22:259-273.
26. Shao, Y., and C.H. Dong. 2006. A review on East Asian dust storm climate, modelling and monitoring. Glob. Planet. Change. 52:1-22.
27. Shinn, E.A., D.W. Griffin, and D.B. Seba. 2003. Atmospheric transport of mold spores in clouds of desert dust. Arch. Environ. Health 58:498-504.
28. Tani, K., M. Muneta, K. Nakamura, K. Shibuya, and M. Nasu. 2002. Monitoring of Ralstonia eutropha KT1 in groundwater in an experimental bioaugmentation field by in situ PCR. Appl. Environ. Microbiol. 68:412-416.
29. Yang, Y.J., P.J. Wu, and D.M. Livermore. 1990. Biochemical characterization of a β-lactamase that hydrolyzes penems and carbapenems from two Serratia marcescens isolates. Antimicrob. Agents Chemother. 34:755-758.
30. Yang, C.Y., S.S. Tsai, C.C. Chang, and S.C. Ho. 2005. Effects of Asian dust storm events on daily admissions for asthma in Taipei, Taiwan. Inhal. Toxicol. 17:817-821.
31. Yang, J., G. Li, W. Rao, and J. Ji. 2009. Isotopic evidences for provenance of East Asian Dust. Atmos. Environ. 43:4481-4490.
32. Yoshino, M. 2002. Climatology of yellow sand (Asian sand, Asian dust or Kosa) in East Asia. Sci. China Ser. D Earth Sci. 45:59-70.
33. Wilson, K.H., R.B. Blitchington, and R.C. Green. 1990. Amplification of bacterial 16S ribosomal DNA with polymerase chain reaction. J. Clin. Microbiol. 28:1942-1946.