Source-Identifying Biomarker Ions between Environmental and Clinical Burkholderia pseudomallei Using Whole-Cell Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS)
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{"title"=>"Source-identifying biomarker ions between environmental and clinical Burkholderia pseudomallei using whole-cell Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS)", "type"=>"journal", "authors"=>[{"first_name"=>"Suthamat", "last_name"=>"Niyompanich", "scopus_author_id"=>"56209213100"}, {"first_name"=>"Janthima", "last_name"=>"Jaresitthikunchai", "scopus_author_id"=>"54994103400"}, {"first_name"=>"Kitima", "last_name"=>"Srisanga", "scopus_author_id"=>"56208619000"}, {"first_name"=>"Sittiruk", "last_name"=>"Roytrakul", "scopus_author_id"=>"6508382189"}, {"first_name"=>"Sumalee", "last_name"=>"Tungpradabkul", "scopus_author_id"=>"6601938023"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "sgr"=>"84902590136", "scopus"=>"2-s2.0-84902590136", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "pui"=>"373337831", "doi"=>"10.1371/journal.pone.0099160", "pmid"=>"24914956"}, "id"=>"3b20510b-1e00-3a09-ba0d-1219740519a4", "abstract"=>"Burkholderia pseudomallei is the causative agent of melioidosis, which is an endemic disease in Northeast Thailand and Northern Australia. Environmental reservoirs, including wet soils and muddy water, serve as the major sources for contributing bacterial infection to both humans and animals. The whole-cell matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (whole-cell MALDI-TOF MS) has recently been applied as a rapid, accurate, and high-throughput tool for clinical diagnosis and microbiological research. In this present study, we employed a whole-cell MALDI-TOF MS approach for assessing its potency in clustering a total of 11 different B. pseudomallei isolates (consisting of 5 environmental and 6 clinical isolates) with respect to their origins and to further investigate the source-identifying biomarker ions belonging to each bacterial group. The cluster analysis demonstrated that six out of eleven isolates were grouped correctly to their sources. Our results revealed a total of ten source-identifying biomarker ions, which exhibited statistically significant differences in peak intensity between average environmental and clinical mass spectra using ClinProTools software. Six out of ten mass ions were assigned as environmental-identifying biomarker ions (EIBIs), including, m/z 4,056, 4,214, 5,814, 7,545, 7,895, and 8,112, whereas the remaining four mass ions were defined as clinical-identifying biomarker ions (CIBIs) consisting of m/z 3,658, 6,322, 7,035, and 7,984. Hence, our findings represented, for the first time, the source-specific biomarkers of environmental and clinical B. pseudomallei.", "link"=>"http://www.mendeley.com/research/sourceidentifying-biomarker-ions-between-environmental-clinical-burkholderia-pseudomallei-using-whol", "reader_count"=>16, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Student > Doctoral Student"=>2, "Researcher"=>1, "Student > Ph. D. Student"=>5, "Student > Postgraduate"=>1, "Student > Master"=>4, "Lecturer"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Student > Doctoral Student"=>2, "Researcher"=>1, "Student > Ph. D. Student"=>5, "Student > Postgraduate"=>1, "Student > Master"=>4, "Lecturer"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>6, "Medicine and Dentistry"=>1, "Veterinary Science and Veterinary Medicine"=>1, "Chemistry"=>2, "Earth and Planetary Sciences"=>2}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Chemistry"=>{"Chemistry"=>2}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>6}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>2}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>1}}, "reader_count_by_country"=>{"Malaysia"=>1}, "group_count"=>0}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1528997"], "description"=>"<p>A) PCA analysis analyzed from total mass spectra showed intermixture and widely spreaded of all isolates from two source groups. <b>B</b>) Dendrogram constructed from the scores of PCA demonstrated that three of six environmental isolates; E239, E390, and E14 were grouped on their own cluster. Similarly, three clinical isolates, consisting of NF154/37, NF47/38, and NF10/38, were clustered together. <i>E. coli</i> DH5α was used as an outgroup taxon. Numbers shown in x-axis revealed distance level of tested isolates.</p>", "links"=>[], "tags"=>["Biochemistry", "proteomics", "Spectrometric identification of proteins", "biomarkers", "microbiology", "Diagnostic medicine", "epidemiology", "Biomarker epidemiology", "Environmental epidemiology", "Infectious disease epidemiology", "Spatial epidemiology", "Pathology and laboratory medicine", "research design", "Clinical research design"], "article_id"=>1052469, "categories"=>["Biological Sciences"], "users"=>["Suthamat Niyompanich", "Janthima Jaresitthikunchai", "Kitima Srisanga", "Sittiruk Roytrakul", "Sumalee Tungpradabkul"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099160.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Principal_component_analysis_PCA_and_cluster_analysis_of_B_pseudomallei_isolates_/1052469", "title"=>"Principal component analysis (PCA) and cluster analysis of <i>B. pseudomallei</i> isolates.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-10 03:22:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1528996"], "description"=>"<p>Environmental (E10-E390) and clinical <i>B. pseudomallei</i> (K96243-NF154/37) samples displayed very similar peak patterns. All prominent biomarkers proposed by Karger et al for the identification of <i>B. pseudomallei</i> at m/z 4,410, 5,794, 6,551, 7,553, and 9,713 were detected in all mass spectra of tested strains in this study (vertical dashed lines).</p>", "links"=>[], "tags"=>["Biochemistry", "proteomics", "Spectrometric identification of proteins", "biomarkers", "microbiology", "Diagnostic medicine", "epidemiology", "Biomarker epidemiology", "Environmental epidemiology", "Infectious disease epidemiology", "Spatial epidemiology", "Pathology and laboratory medicine", "research design", "Clinical research design", "maldi-tof", "spectra"], "article_id"=>1052468, "categories"=>["Biological Sciences"], "users"=>["Suthamat Niyompanich", "Janthima Jaresitthikunchai", "Kitima Srisanga", "Sittiruk Roytrakul", "Sumalee Tungpradabkul"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099160.g001", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Average_MALDI_TOF_mass_spectra_of_each_B_pseudomallei_isolates_/1052468", "title"=>"Average MALDI-TOF mass spectra of each <i>B. pseudomallei</i> isolates.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-10 03:22:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1529001"], "description"=>"<p>Identification scores of all <i>B. pseudomallei</i> isolates.</p>", "links"=>[], "tags"=>["Biochemistry", "proteomics", "Spectrometric identification of proteins", "biomarkers", "microbiology", "Diagnostic medicine", "epidemiology", "Biomarker epidemiology", "Environmental epidemiology", "Infectious disease epidemiology", "Spatial epidemiology", "Pathology and laboratory medicine", "research design", "Clinical research design", "scores"], "article_id"=>1052473, "categories"=>["Biological Sciences"], "users"=>["Suthamat Niyompanich", "Janthima Jaresitthikunchai", "Kitima Srisanga", "Sittiruk Roytrakul", "Sumalee Tungpradabkul"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099160.t001", "stats"=>{"downloads"=>4, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Identification_scores_of_all_B_pseudomallei_isolates_/1052473", "title"=>"Identification scores of all <i>B. pseudomallei</i> isolates.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-10 03:22:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1528999"], "description"=>"a<p>E10-E390 were received from Dr. Vanaporn Wuthiekanun, Wellcome Trust Unit, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand.</p>b<p>K96423 was received from Assoc. Dr. Surasakdi Wongratanacheewin, Melioidosis Research Center, Faculty of Medicine, Khon Kaen University, Khon Kaen, Thailand.</p>c<p>PP844 was received from Prof. Dr. Stitaya Sirisinha, Department of Microbiology, Faculty of Science, Mahidol University, Bangkok, Thailand.</p>d<p>NF10/38-NF154/37 were received from National Institute of Health of Thailand, Ministry of Public Health, Nonthaburi, Thailand.</p>", "links"=>[], "tags"=>["Biochemistry", "proteomics", "Spectrometric identification of proteins", "biomarkers", "microbiology", "Diagnostic medicine", "epidemiology", "Biomarker epidemiology", "Environmental epidemiology", "Infectious disease epidemiology", "Spatial epidemiology", "Pathology and laboratory medicine", "research design", "Clinical research design", "strains"], "article_id"=>1052471, "categories"=>["Biological Sciences"], "users"=>["Suthamat Niyompanich", "Janthima Jaresitthikunchai", "Kitima Srisanga", "Sittiruk Roytrakul", "Sumalee Tungpradabkul"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099160.t003", "stats"=>{"downloads"=>4, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_All_Burkholderia_pseudomallei_strains_used_in_this_study_/1052471", "title"=>"All <i>Burkholderia pseudomallei</i> strains used in this study.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-10 03:22:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1529000"], "description"=>"<p>All ten source-identifying biomarker ions were selected on the basis of Wilcoxon/Krustal-Wallis statistics which were significantly different at p < 0.01.</p><p>*Fold difference of each biomarker ion was calculated using peak intensity of environmental divided by that of clinical group.</p>", "links"=>[], "tags"=>["Biochemistry", "proteomics", "Spectrometric identification of proteins", "biomarkers", "microbiology", "Diagnostic medicine", "epidemiology", "Biomarker epidemiology", "Environmental epidemiology", "Infectious disease epidemiology", "Spatial epidemiology", "Pathology and laboratory medicine", "research design", "Clinical research design", "differences", "source-identifying", "biomarker", "ions"], "article_id"=>1052472, "categories"=>["Biological Sciences"], "users"=>["Suthamat Niyompanich", "Janthima Jaresitthikunchai", "Kitima Srisanga", "Sittiruk Roytrakul", "Sumalee Tungpradabkul"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099160.t002", "stats"=>{"downloads"=>6, "page_views"=>31, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Peak_intensity_values_and_fold_differences_of_all_source_identifying_biomarker_ions_of_B_pseudomallei_/1052472", "title"=>"Peak intensity values and fold differences of all source-identifying biomarker ions of <i>B. pseudomallei</i>.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-10 03:22:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/1528998"], "description"=>"<p>An average environmental spectrum of E10-E390 strains (<b>A</b>) had a very similar pattern as in a clinical set of K96243-NF154/37 (<b>B</b>) but peak intensity was different. The vertical dashed lines, E1-E6, indicated as environmental-identifying biomarker ions (EIBIs), consisting of m/z 4,056, 4,214, 5,814, 7,545, 7,895, and 8,112 whereas the vertical solid lines marked as C1-C4 displayed clinical-identifying biomarker ions (CIBIs), containing m/z 3,658, 6,322, 7,035, and 7,984.</p>", "links"=>[], "tags"=>["Biochemistry", "proteomics", "Spectrometric identification of proteins", "biomarkers", "microbiology", "Diagnostic medicine", "epidemiology", "Biomarker epidemiology", "Environmental epidemiology", "Infectious disease epidemiology", "Spatial epidemiology", "Pathology and laboratory medicine", "research design", "Clinical research design", "source-identifying", "biomarker", "ions", "clinprotools"], "article_id"=>1052470, "categories"=>["Biological Sciences"], "users"=>["Suthamat Niyompanich", "Janthima Jaresitthikunchai", "Kitima Srisanga", "Sittiruk Roytrakul", "Sumalee Tungpradabkul"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099160.g003", "stats"=>{"downloads"=>4, "page_views"=>17, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Potential_source_identifying_biomarker_ions_obtained_from_ClinProTools_analysis_/1052470", "title"=>"Potential source-identifying biomarker ions obtained from ClinProTools analysis.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-10 03:22:52"}

PMC Usage Stats | Further Information

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Relative Metric

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