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Title: IS1111 insertion sequences of Coxiella burnetii: characterization and use for repetitive element PCR-based differentiation of Coxiella burnetii isolates

Abstract

Coxiella burnetii contains the IS1111 transposase which is present 20 times in the Nine Mile phase I (9Mi/I) genome. A single PCR primer that binds to each IS element, and primers specific to a region ~500-bp upstream of each of the 20 IS1111 elements were designed. The amplified products were characterized and used to develop a repetitive element PCR genotyping method. Isolates Nine Mile phase II, Nine Mile RSA 514, Nine Mile Baca, Scottish, Ohio, Australian QD, Henzerling phase I, Henzerling phase II, M44, KAV, PAV, Q238, Q195 and WAV were tested by PCR and compared to 9Mi/I. Sequencing was used to determine the exact differences in isolates which lacked specific IS elements or produced PCR products of differing size. From this data, an algorithm was created utilizing four primer pairs that allows for differentiation of unknown isolates into five genomic groups. Additional isolates (Priscilla Q177, Idaho Q, Qiyi, Poker Cat, Q229 and Q172) and nine veterinary samples were characterized using the algorithm which resulted in their placement into three distinct genomic groups. Through this study significant differences, including missing elements and sequence alterations within and near IS element coding regions, were found between the isolates tested. Further, a methodmore » for differentiation of C. burnetii isolates into one of five genomic groups was created. This algorithm may ultimately help to determine the relatedness between known and unknown isolates of C. burnetii.« less

Authors:
 [1];  [1];  [1]
  1. Centers for Disease Control and Prevention, Atlanta, GA (United States)
Publication Date:
Research Org.:
Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division
OSTI Identifier:
1626493
Grant/Contract Number:  
SC0014664
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
BMC Microbiology
Additional Journal Information:
Journal Volume: 7; Journal Issue: 1; Journal ID: ISSN 1471-2180
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Microbiology; Restriction Fragment Length Polymorphism; Genomic Group; Coxiella Burnetii; Multispacer Sequence Typing; Unknown Isolate

Citation Formats

Denison, Amy M., Thompson, Herbert A., and Massung, Robert F. IS1111 insertion sequences of Coxiella burnetii: characterization and use for repetitive element PCR-based differentiation of Coxiella burnetii isolates. United States: N. p., 2007. Web. doi:10.1186/1471-2180-7-91.
Denison, Amy M., Thompson, Herbert A., & Massung, Robert F. IS1111 insertion sequences of Coxiella burnetii: characterization and use for repetitive element PCR-based differentiation of Coxiella burnetii isolates. United States. https://doi.org/10.1186/1471-2180-7-91
Denison, Amy M., Thompson, Herbert A., and Massung, Robert F. 2007. "IS1111 insertion sequences of Coxiella burnetii: characterization and use for repetitive element PCR-based differentiation of Coxiella burnetii isolates". United States. https://doi.org/10.1186/1471-2180-7-91. https://www.osti.gov/servlets/purl/1626493.
@article{osti_1626493,
title = {IS1111 insertion sequences of Coxiella burnetii: characterization and use for repetitive element PCR-based differentiation of Coxiella burnetii isolates},
author = {Denison, Amy M. and Thompson, Herbert A. and Massung, Robert F.},
abstractNote = {Coxiella burnetii contains the IS1111 transposase which is present 20 times in the Nine Mile phase I (9Mi/I) genome. A single PCR primer that binds to each IS element, and primers specific to a region ~500-bp upstream of each of the 20 IS1111 elements were designed. The amplified products were characterized and used to develop a repetitive element PCR genotyping method. Isolates Nine Mile phase II, Nine Mile RSA 514, Nine Mile Baca, Scottish, Ohio, Australian QD, Henzerling phase I, Henzerling phase II, M44, KAV, PAV, Q238, Q195 and WAV were tested by PCR and compared to 9Mi/I. Sequencing was used to determine the exact differences in isolates which lacked specific IS elements or produced PCR products of differing size. From this data, an algorithm was created utilizing four primer pairs that allows for differentiation of unknown isolates into five genomic groups. Additional isolates (Priscilla Q177, Idaho Q, Qiyi, Poker Cat, Q229 and Q172) and nine veterinary samples were characterized using the algorithm which resulted in their placement into three distinct genomic groups. Through this study significant differences, including missing elements and sequence alterations within and near IS element coding regions, were found between the isolates tested. Further, a method for differentiation of C. burnetii isolates into one of five genomic groups was created. This algorithm may ultimately help to determine the relatedness between known and unknown isolates of C. burnetii.},
doi = {10.1186/1471-2180-7-91},
url = {https://www.osti.gov/biblio/1626493}, journal = {BMC Microbiology},
issn = {1471-2180},
number = 1,
volume = 7,
place = {United States},
year = {Thu Oct 18 00:00:00 EDT 2007},
month = {Thu Oct 18 00:00:00 EDT 2007}
}

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Use of Pulsed Field Gel Electrophoresis to Differentiate Coxiella burnetii Strains
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Molecular characterization of Coxiella burnetii isolates by infrequent restriction site-PCR and MLVA typing
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Establishment of a genotyping scheme forCoxiella burnetii
journal, January 2006


Complete genome sequence of the Q-fever pathogen Coxiella burnetii
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A Coxiella burnetti repeated DNA element resembling a bacterial insertion sequence
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Analysis of the O-antigen biosynthesis regions of phase II Isolates ofCoxiella burnetii
journal, February 2007


A Widely Applicable Protocol for DNA Isolation from Fecal Samples
journal, November 2006


Works referencing / citing this record:

Comprehensive Biothreat Cluster Identification by PCR/Electrospray-Ionization Mass Spectrometry
journal, June 2012


From Q Fever to Coxiella burnetii Infection: a Paradigm Change
journal, January 2017


Genotyping of Coxiella burnetii strains detected in cattle from a nationwide survey in Korea
journal, January 2019


From Q Fever to Coxiella burnetii Infection: a Paradigm Change
journal, January 2017


Clinical and epidemiological use of nested PCR targeting the repetitive element IS 1111 associated with the transposase gene from Coxiella burnetii
journal, January 2018


High throughput detection of Coxiella burnetii by real-time PCR with internal control system and automated DNA preparation
journal, January 2008


Coxiella burnetii in Humans and Ticks in Rural Senegal
journal, April 2010


Coxiella burnetii in Humans and Ticks in Rural Senegal
journal, April 2010


Enhanced Detection of Coxiella burnetii with a Complementary Locked Primer-Based Real-Time PCR Method
journal, April 2011


Molecular method for the characterization of Coxiella burnetii from clinical and environmental samples: variability of genotypes in Spain
journal, January 2012