Application of a Broad-Range Resequencing Array for Detection of Pathogens in Desert Dust Samples from Kuwait and Iraq

ABSTRACT A significant percentage of the human population is exposed to high levels of naturally occurring airborne dusts. Although the link between airborne particulate inhalation and a variety of respiratory diseases has long been established, little is known about the pathogenic role of the microbial component of the dust. In this study, we applied highly multiplexed PCR and a high-density resequencing microarray (RPM-TEI version 1.0) to screen samples of fine topsoil particles and airborne dust collected in 19 locations in Iraq and Kuwait for the presence of a broad range of human pathogens. The results indicated the presence of potential human pathogens, including Mycobacterium, Brucella, Coxiella burnetii, Clostridium perfringens, and Bacillus. The presence of Coxiella burnetii, a highly infectious potential biowarfare agent, was confirmed and detected in additional samples by use of a more sensitive technique (real-time PCR), indicating a high prevalence of this organism in the analyzed samples. The detection of potentially viable pathogens in breathable dusts from arid regions of Iraq and Kuwait underscores the importance of further study of these environments.

[1]  Christopher Davies,et al.  Massively parallel pathogen identification using high‐density microarrays , 2007, Microbial biotechnology.

[2]  Baochuan Lin,et al.  Testing and Validation of High Density Resequencing Microarray for Broad Range Biothreat Agents Detection , 2009, PloS one.

[3]  R. Washington,et al.  Dust-Storm Source Areas Determined by the Total Ozone Monitoring Spectrometer and Surface Observations , 2003 .

[4]  C. Kuske,et al.  Composition of Bacillus Species in Aerosols from 11 U.S. Cities , 2006, Journal of forensic sciences.

[5]  P. Danaher,et al.  Q fever in members of the United States armed forces returning from Iraq. , 2006, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

[6]  F. Mims,et al.  Fungal spores are transported long distances in smoke from biomass fires , 2004 .

[7]  Eoin L. Brodie,et al.  Urban aerosols harbor diverse and dynamic bacterial populations , 2007, Proceedings of the National Academy of Sciences.

[8]  M. Majewski,et al.  Saharan dust - a carrier of persistent organic pollutants, metals and microbes to the Caribbean? , 2006 .

[9]  Richard T. Barber,et al.  African dust and the demise of Caribbean Coral Reefs , 2000 .

[10]  George N. Appenzeller,et al.  Outbreak of sandfly fever in central Iraq, September 2007. , 2008, Military medicine.

[11]  C C Clooman,et al.  Six degrees of Kevin Bacon--Al Eskan disease and "dirty dust.". , 2000, Military medicine.

[12]  W. Verstraete,et al.  Occurrence and community composition of fast-growing Mycobacterium in soils contaminated with polycyclic aromatic hydrocarbons. , 2005, FEMS microbiology ecology.

[13]  A. Korenyi-both,et al.  Al Eskan disease: Desert Storm pneumonitis. , 1992, Military medicine.

[14]  C. Ockenhouse,et al.  Q Fever and the US Military , 2005, Emerging infectious diseases.

[15]  F Nistal de Paz,et al.  [Q fever]. , 1994, Medicina clinica.

[16]  Andrew P. Morse,et al.  Dust clouds and spread of infection , 2002, The Lancet.

[17]  M. Boko,et al.  Weather conditions and cerebrospinal meningitis in Benin (gulf of Guinea, West Africa) , 1997, European Journal of Epidemiology.

[18]  K. Schleifer,et al.  Phylogenetic identification and in situ detection of individual microbial cells without cultivation. , 1995, Microbiological reviews.

[19]  D. Norwood,et al.  Detection of biological threat agents by real-time PCR: comparison of assay performance on the R.A.P.I.D., the LightCycler, and the Smart Cycler platforms. , 2006, Clinical chemistry.

[20]  B. Corrin,et al.  Silicosis in a Himalayan village population: role of environmental dust. , 1991, Thorax.

[21]  M. Bronze,et al.  Bacterial Pathogens as Biological Weapons and Agents of Bioterrorism , 2002, The American journal of the medical sciences.

[22]  D. Griffin,et al.  Atmospheric Movement of Microorganisms in Clouds of Desert Dust and Implications for Human Health , 2007, Clinical Microbiology Reviews.

[23]  G. Dasch,et al.  Rickettsial agents in Egyptian ticks collected from domestic animals , 2006, Experimental & Applied Acarology.

[24]  K. Lee,et al.  Clinical significance of Mycobacterium fortuitum isolated from respiratory specimens. , 2008, Respiratory medicine.

[25]  E. Tortoli.  Impact of Genotypic Studies on Mycobacterial Taxonomy: the New Mycobacteria of the 1990s , 2003, Clinical Microbiology Reviews.

[26]  H. Saiyed,et al.  Non-occupational pneumoconiosis at high altitude villages in central Ladakh. , 1991, British journal of industrial medicine.

[27]  N. Aronson,et al.  In harm's way: infections in deployed American military forces. , 2006, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

[28]  Joshua S. Self,et al.  Presence of Coxiella burnetii DNA in the Environment of the United States, 2006 to 2008 , 2010, Applied and Environmental Microbiology.

[29]  W. Carr,et al.  Acute eosinophilic pneumonia among US Military personnel deployed in or near Iraq. , 2004, JAMA.

[30]  M. S. Nouh.  Is the desert lung syndrome (nonoccupational dust pneumoconiosis) a variant of pulmonary alveolar microlithiasis? Report of 4 cases with review of the literature. , 1989, Respiration; international review of thoracic diseases.

[31]  D. Raoult,et al.  Mycobacterium barrassiae sp. nov., a Mycobacterium moriokaense Group Species Associated with Chronic Pneumonia , 2006, Journal of Clinical Microbiology.

[32]  T. Brown,et al.  The Rapidly Growing Mycobacteria— Mycobacterium fortuitum and Mycobacterium chelonei , 1985, Infection Control.

[33]  Christian Drosten,et al.  SARS Transmission Pattern in Singapore Reassessed by Viral Sequence Variation Analysis , 2005, PLoS medicine.

[34]  Frances S. Ligler,et al.  Application of Broad-Spectrum, Sequence-Based Pathogen Identification in an Urban Population , 2007, PloS one.

[35]  Sang Pyo Lee,et al.  Effects of ambient particulate matter on peak expiratory flow rates and respiratory symptoms of asthmatics during Asian dust periods in Korea , 2005, Respirology.

[36]  V. Katoch,et al.  Pathogenic rapidly growing: Mycobacterium manitobense in the environment of Agra, north India. , 2007, The Indian journal of medical research.

[37]  Joshua D. Hartzell,et al.  Atypical Q Fever in US Soldiers , 2007, Emerging infectious diseases.

[38]  Baochuan Lin,et al.  Automated identification of multiple micro-organisms from resequencing DNA microarrays , 2006, Nucleic acids research.

[39]  David A Stenger,et al.  Broad-spectrum respiratory tract pathogen identification using resequencing DNA microarrays. , 2006, Genome research.

[40]  Kevin L. Russell,et al.  Using a Resequencing Microarray as a Multiple Respiratory Pathogen Detection Assay , 2006, Journal of Clinical Microbiology.

[41]  J. Bartlett.  Severe acute pneumonitis among deployed U.S. military personnel--Southwest Asia, March-August 2003. , 2003, MMWR. Morbidity and mortality weekly report.

[42]  H. Ellerbrok,et al.  Highly sensitive real-time PCR for specific detection and quantification of Coxiella burnetii , 2006, BMC Microbiology.

[43]  D. Griffin,et al.  Aerobiology and the global transport of desert dust. , 2006, Trends in ecology & evolution.

[44]  Hussain M. Al-Rizzo,et al.  Particle-size distribution of Iraqi sand and dust storms and their influence on microwave communication systems , 1988 .

[45]  D. Griffin,et al.  Dust Storms and Their Impact on Ocean and Human Health: Dust in Earth’s Atmosphere , 2004, EcoHealth.

[46]  A. Dublineau,et al.  High-density resequencing DNA microarrays in public health emergencies , 2010, Nature Biotechnology.

[47]  John A. Gillies,et al.  Dust concentrations and particle-size characteristics of an intense dust haze event: Inland Delta Region, Mali, West Africa , 1996 .

[48]  Jason E Stajich,et al.  Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives. , 2009, Genome research.

[49]  S. Perkins.  Dust, the thermostat: How tiny airborne particles manipulate global climate , 2001 .

[50]  John E. Bennett,et al.  Principles and practice of infectious diseases. Vols 1 and 2. , 1979 .

[51]  S. Revankar,et al.  Melanized Fungi in Human Disease , 2010, Clinical Microbiology Reviews.

[52]  P. Desai.  Alternative medicine: old ideas with new interests? , 1998, The West Indian medical journal.

[53]  A. Goudie,et al.  Dust storms: recent developments. , 2009, Journal of environmental management.

[54]  S. Abbott,et al.  16S rRNA Gene Sequencing for Bacterial Identification in the Diagnostic Laboratory: Pluses, Perils, and Pitfalls , 2007, Journal of Clinical Microbiology.

[55]  P. Woo,et al.  Then and now: use of 16S rDNA gene sequencing for bacterial identification and discovery of novel bacteria in clinical microbiology laboratories. , 2008, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[56]  Lisa C Shriver-Lake,et al.  Discrimination between biothreat agents and 'near neighbor' species using a resequencing array. , 2008, FEMS immunology and medical microbiology.

[57]  D. Norwood,et al.  Real-time PCR for the early detection and quantification of Coxiella burnetii as an alternative to the murine bioassay. , 2009, Molecular and cellular probes.

[58]  J. Bar-ziv,et al.  Simple siliceous pneumoconiosis of Bedouin females in the Negev desert. , 1974, Clinical radiology.

[59]  Jean-François Guégan,et al.  Climate Drives the Meningitis Epidemics Onset in West Africa , 2005, PLoS medicine.