Diagnosis of a malayan filariasis case using a shotgun diagnostic metagenomics assay
Identifieur interne : 000E10 ( Pmc/Curation ); précédent : 000E09; suivant : 000E11Diagnosis of a malayan filariasis case using a shotgun diagnostic metagenomics assay
Auteurs : Dian Gao [République populaire de Chine] ; Qiongfang Yu [République populaire de Chine] ; Guangqiang Wang [République populaire de Chine] ; Guitang Wang [République populaire de Chine] ; Fan Xiong [République populaire de Chine]Source :
- Parasites & Vectors [ 1756-3305 ] ; 2016.
Abstract
Malayan filariasis is a lymphatic filariasis caused by
An unbiased metagenomic approach was used in this study. After DNA was extracted from the patient’s eye discharge sample and subcutaneous tissue sample, extended parallel sequencing was performed. The obtained raw reads were aligned to human genome to filter out the reads of the host, and the remaining reads were aligned to a candidate pathogenic protein database and four filarial genomes. The result showed that the reads of
The present study proved that metagenomic assay can be an effective approach in the diagnosis of parasitic infection. We report a rare case of malayan filariasis from the United States.
The online version of this article (doi:10.1186/s13071-016-1363-2) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s13071-016-1363-2
PubMed: 26879053
PubMed Central: 4754835
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Chine</country><wicri:regionArea>Department of Gastroenterology and Hepatology, Second Affiliated Hospital of Nanchang University, Nanchang</wicri:regionArea></affiliation></author><author><name sortKey="Wang, Guangqiang" sort="Wang, Guangqiang" uniqKey="Wang G" first="Guangqiang" last="Wang">Guangqiang Wang</name><affiliation wicri:level="1"><nlm:aff id="Aff3">Qilu Hospital of Shandong University, Jinan, 250012 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Qilu Hospital of Shandong University, Jinan</wicri:regionArea></affiliation></author><author><name sortKey="Wang, Guitang" sort="Wang, Guitang" uniqKey="Wang G" first="Guitang" last="Wang">Guitang Wang</name><affiliation wicri:level="1"><nlm:aff id="Aff4">Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Institute of Hydrobiology, Chinese Academy of Sciences, 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Nanchang University, Nanchang, 330006 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Gastroenterology and Hepatology, Second Affiliated Hospital of Nanchang University, Nanchang</wicri:regionArea></affiliation></author><author><name sortKey="Wang, Guangqiang" sort="Wang, Guangqiang" uniqKey="Wang G" first="Guangqiang" last="Wang">Guangqiang Wang</name><affiliation wicri:level="1"><nlm:aff id="Aff3">Qilu Hospital of Shandong University, Jinan, 250012 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Qilu Hospital of Shandong University, Jinan</wicri:regionArea></affiliation></author><author><name sortKey="Wang, Guitang" sort="Wang, Guitang" uniqKey="Wang G" first="Guitang" last="Wang">Guitang Wang</name><affiliation wicri:level="1"><nlm:aff id="Aff4">Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Xiong, Fan" sort="Xiong, Fan" uniqKey="Xiong F" first="Fan" last="Xiong">Fan Xiong</name><affiliation wicri:level="1"><nlm:aff id="Aff4">Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan</wicri:regionArea></affiliation></author></analytic><series><title level="j">Parasites & Vectors</title><idno type="eISSN">1756-3305</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Malayan filariasis is a lymphatic filariasis caused by <italic>Brugia malayi</italic>. It is easily misdiagnosed in non-endemic areas for atypical symptoms and rare diagnostic experience. A 34-year-old Chinese woman in New York presented with diffuse erythema on her body, swelling of her body, and watery, itchy, red, sore, swollen and stinging of the eyes, and severe night-time itching. No hospital that the patient visited could make a definite diagnosis by conventional diagnostic methods. It is therefore necessary to explore a new effective method to detect the pathogen that infected the patient.</p></sec><sec><title>Findings</title><p>An unbiased metagenomic approach was used in this study. After DNA was extracted from the patient’s eye discharge sample and subcutaneous tissue sample, extended parallel sequencing was performed. The obtained raw reads were aligned to human genome to filter out the reads of the host, and the remaining reads were aligned to a candidate pathogenic protein database and four filarial genomes. The result showed that the reads of <italic>B. malayi</italic> accounted for an overwhelming ratio in the two samples, which indicated that the patient suffered from malayan filariasis. The subsequent therapeutic efficacy of anti-filariasis treatment validated the result of metagenomics assay.</p></sec><sec><title>Conclusions</title><p>The present study proved that metagenomic assay can be an effective approach in the diagnosis of parasitic infection. We report a rare case of malayan filariasis from the United States.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s13071-016-1363-2) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Chu, Bk" uniqKey="Chu B">BK Chu</name></author><author><name sortKey="Hooper, Pj" uniqKey="Hooper P">PJ Hooper</name></author><author><name sortKey="Bradley, Mh" uniqKey="Bradley M">MH Bradley</name></author><author><name sortKey="Mcfarland, Da" uniqKey="Mcfarland D">DA McFarland</name></author><author><name sortKey="Ottesen, Ea" uniqKey="Ottesen E">EA Ottesen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rebollo, Mp" uniqKey="Rebollo M">MP Rebollo</name></author><author><name sortKey="Bockarie, Mj" uniqKey="Bockarie M">MJ Bockarie</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Ramzy, Rm" uniqKey="Ramzy R">RM Ramzy</name></author><author><name sortKey="Helmy, H" uniqKey="Helmy H">H Helmy</name></author><author><name sortKey="Faris, R" uniqKey="Faris R">R Faris</name></author><author><name sortKey="Gad, Am" uniqKey="Gad A">AM Gad</name></author><author><name sortKey="Chandrashekar, R" uniqKey="Chandrashekar R">R Chandrashekar</name></author><author><name sortKey="Weil, Gj" uniqKey="Weil G">GJ Weil</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Weil, Gj" uniqKey="Weil G">GJ Weil</name></author><author><name sortKey="Lammie, Pj" uniqKey="Lammie P">PJ Lammie</name></author><author><name sortKey="Weiss, N" uniqKey="Weiss N">N Weiss</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Naccache, Sn" uniqKey="Naccache S">SN Naccache</name></author><author><name sortKey="Peggs, Ks" uniqKey="Peggs K">KS Peggs</name></author><author><name sortKey="Mattes, Fm" uniqKey="Mattes F">FM Mattes</name></author><author><name sortKey="Phadke, R" uniqKey="Phadke R">R Phadke</name></author><author><name sortKey="Garson, Ja" uniqKey="Garson J">JA Garson</name></author><author><name sortKey="Grant, P" uniqKey="Grant P">P Grant</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bhatt, As" uniqKey="Bhatt A">AS Bhatt</name></author><author><name sortKey="Freeman, Ss" uniqKey="Freeman S">SS Freeman</name></author><author><name sortKey="Herrera, Af" uniqKey="Herrera A">AF Herrera</name></author><author><name sortKey="Pedamallu, Cs" uniqKey="Pedamallu C">CS Pedamallu</name></author><author><name sortKey="Gevers, D" uniqKey="Gevers D">D Gevers</name></author><author><name sortKey="Duke, F" uniqKey="Duke F">F Duke</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Khairat, R" uniqKey="Khairat R">R Khairat</name></author><author><name sortKey="Ball, M" uniqKey="Ball M">M Ball</name></author><author><name sortKey="Chang, Cc" uniqKey="Chang C">CC Chang</name></author><author><name sortKey="Bianucci, R" uniqKey="Bianucci R">R Bianucci</name></author><author><name sortKey="Nerlich, Ag" uniqKey="Nerlich A">AG Nerlich</name></author><author><name sortKey="Trautmann, M" uniqKey="Trautmann M">M Trautmann</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mccarthy, Cb" uniqKey="Mccarthy C">CB McCarthy</name></author><author><name sortKey="Diambra, La" uniqKey="Diambra L">LA Diambra</name></author><author><name sortKey="Rivera Pomar, Rv" uniqKey="Rivera Pomar R">RV Rivera Pomar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Jiang, F" uniqKey="Jiang F">F Jiang</name></author><author><name sortKey="Pang, Z" uniqKey="Pang Z">Z Pang</name></author><author><name sortKey="Yu, S" uniqKey="Yu S">S Yu</name></author><author><name sortKey="Li, Z" uniqKey="Li Z">Z Li</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nutman, Tb" uniqKey="Nutman T">TB Nutman</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nakamura, S" uniqKey="Nakamura S">S Nakamura</name></author><author><name sortKey="Maeda, N" uniqKey="Maeda N">N Maeda</name></author><author><name sortKey="Miron, Im" uniqKey="Miron I">IM Miron</name></author><author><name sortKey="Yoh, M" uniqKey="Yoh M">M Yoh</name></author><author><name sortKey="Izutsu, K" uniqKey="Izutsu K">K Izutsu</name></author><author><name sortKey="Kataoka, C" uniqKey="Kataoka C">C Kataoka</name></author></analytic></biblStruct></listBibl></div1></back></TEI><pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Parasit Vectors</journal-id><journal-id journal-id-type="iso-abbrev">Parasit Vectors</journal-id><journal-title-group><journal-title>Parasites & Vectors</journal-title></journal-title-group><issn pub-type="epub">1756-3305</issn><publisher><publisher-name>BioMed Central</publisher-name><publisher-loc>London</publisher-loc></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">26879053</article-id><article-id pub-id-type="pmc">4754835</article-id><article-id pub-id-type="publisher-id">1363</article-id><article-id pub-id-type="doi">10.1186/s13071-016-1363-2</article-id><article-categories><subj-group subj-group-type="heading"><subject>Short Report</subject></subj-group></article-categories><title-group><article-title>Diagnosis of a malayan filariasis case using a shotgun diagnostic metagenomics assay</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Gao</surname><given-names>Dian</given-names></name><address><email>gaodian@ncu.edu.cn</email></address><xref ref-type="aff" rid="Aff1"></xref></contrib><contrib contrib-type="author"><name><surname>Yu</surname><given-names>Qiongfang</given-names></name><address><email>qiongfangyu@yeah.net</email></address><xref ref-type="aff" rid="Aff2"></xref></contrib><contrib contrib-type="author"><name><surname>Wang</surname><given-names>Guangqiang</given-names></name><address><email>doctor.wgq@126.com</email></address><xref ref-type="aff" rid="Aff3"></xref></contrib><contrib contrib-type="author"><name><surname>Wang</surname><given-names>Guitang</given-names></name><address><email>gtwang@ihb.ac.cn</email></address><xref ref-type="aff" rid="Aff4"></xref></contrib><contrib contrib-type="author" corresp="yes"><name><surname>Xiong</surname><given-names>Fan</given-names></name><address><email>xiongcandy@hotmail.com</email></address><xref ref-type="aff" rid="Aff4"></xref></contrib><aff id="Aff1"><label></label>Department of Pathogen Biology and Immunology, Medical College of Nanchang University, Nanchang, 330006 China</aff><aff id="Aff2"><label></label>Department of Gastroenterology and Hepatology, Second Affiliated Hospital of Nanchang University, Nanchang, 330006 China</aff><aff id="Aff3"><label></label>Qilu Hospital of Shandong University, Jinan, 250012 China</aff><aff id="Aff4"><label></label>Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072 China</aff></contrib-group><pub-date pub-type="epub"><day>16</day><month>2</month><year>2016</year></pub-date><pub-date pub-type="pmc-release"><day>16</day><month>2</month><year>2016</year></pub-date><pub-date pub-type="collection"><year>2016</year></pub-date><volume>9</volume><elocation-id>86</elocation-id><history><date date-type="received"><day>16</day><month>12</month><year>2015</year></date><date date-type="accepted"><day>5</day><month>2</month><year>2016</year></date></history><permissions><copyright-statement>© Gao et al. 2016</copyright-statement><license license-type="OpenAccess"><license-p><bold>Open Access</bold>This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/4.0/">http://creativecommons.org/licenses/by/4.0/</ext-link>), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/publicdomain/zero/1.0/">http://creativecommons.org/publicdomain/zero/1.0/</ext-link>) applies to the data made available in this article, unless otherwise stated.</license-p></license></permissions><abstract id="Abs1"><sec><title>Background</title><p>Malayan filariasis is a lymphatic filariasis caused by <italic>Brugia malayi</italic>. It is easily misdiagnosed in non-endemic areas for atypical symptoms and rare diagnostic experience. A 34-year-old Chinese woman in New York presented with diffuse erythema on her body, swelling of her body, and watery, itchy, red, sore, swollen and stinging of the eyes, and severe night-time itching. No hospital that the patient visited could make a definite diagnosis by conventional diagnostic methods. It is therefore necessary to explore a new effective method to detect the pathogen that infected the patient.</p></sec><sec><title>Findings</title><p>An unbiased metagenomic approach was used in this study. After DNA was extracted from the patient’s eye discharge sample and subcutaneous tissue sample, extended parallel sequencing was performed. The obtained raw reads were aligned to human genome to filter out the reads of the host, and the remaining reads were aligned to a candidate pathogenic protein database and four filarial genomes. The result showed that the reads of <italic>B. malayi</italic> accounted for an overwhelming ratio in the two samples, which indicated that the patient suffered from malayan filariasis. The subsequent therapeutic efficacy of anti-filariasis treatment validated the result of metagenomics assay.</p></sec><sec><title>Conclusions</title><p>The present study proved that metagenomic assay can be an effective approach in the diagnosis of parasitic infection. We report a rare case of malayan filariasis from the United States.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s13071-016-1363-2) contains supplementary material, which is available to authorized users.</p></sec></abstract><kwd-group xml:lang="en"><title>Keywords</title><kwd>Filariasis</kwd><kwd>Parasite</kwd><kwd>Helminth</kwd><kwd>Metagenomics</kwd><kwd><italic>Brugia malayi</italic></kwd></kwd-group><funding-group><award-group><funding-source><institution-wrap><institution-id institution-id-type="FundRef">http://dx.doi.org/10.13039/501100001809</institution-id><institution>National Natural Science Foundation of China</institution></institution-wrap></funding-source><award-id>31460696</award-id><award-id>81460462</award-id><principal-award-recipient><name><surname>Gao</surname><given-names>Dian</given-names></name><name><surname>Yu</surname><given-names>Qiongfang</given-names></name></principal-award-recipient></award-group><award-group><funding-source><institution>Major Scientific and Technological Innovation Project of Hubei Province</institution></funding-source><award-id>2015ABA045</award-id><principal-award-recipient><name><surname>Xiong</surname><given-names>Fan</given-names></name></principal-award-recipient></award-group></funding-group><custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name><meta-value>© The Author(s) 2016</meta-value></custom-meta></custom-meta-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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