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New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica
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| Zeitschriftentitel: | Journal of Clinical Microbiology |
|---|---|
| Personen und Körperschaften: | , , , , , , , , , , , , , , , , |
| In: | Journal of Clinical Microbiology, 52, 2014, 8, S. 2955-2962 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
American Society for Microbiology
|
| Schlagwörter: |
| author_facet |
Li, Hao Li, Peng Xie, Jing Yi, Shengjie Yang, Chaojie Wang, Jian Sun, Jichao Liu, Nan Wang, Xu Wu, Zhihao Wang, Ligui Hao, Rongzhang Wang, Yong Jia, Leili Li, Kaiqin Qiu, Shaofu Song, Hongbin Li, Hao Li, Peng Xie, Jing Yi, Shengjie Yang, Chaojie Wang, Jian Sun, Jichao Liu, Nan Wang, Xu Wu, Zhihao Wang, Ligui Hao, Rongzhang Wang, Yong Jia, Leili Li, Kaiqin Qiu, Shaofu Song, Hongbin |
|---|---|
| author |
Li, Hao Li, Peng Xie, Jing Yi, Shengjie Yang, Chaojie Wang, Jian Sun, Jichao Liu, Nan Wang, Xu Wu, Zhihao Wang, Ligui Hao, Rongzhang Wang, Yong Jia, Leili Li, Kaiqin Qiu, Shaofu Song, Hongbin |
| spellingShingle |
Li, Hao Li, Peng Xie, Jing Yi, Shengjie Yang, Chaojie Wang, Jian Sun, Jichao Liu, Nan Wang, Xu Wu, Zhihao Wang, Ligui Hao, Rongzhang Wang, Yong Jia, Leili Li, Kaiqin Qiu, Shaofu Song, Hongbin Journal of Clinical Microbiology New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica Microbiology (medical) |
| author_sort |
li, hao |
| spelling |
Li, Hao Li, Peng Xie, Jing Yi, Shengjie Yang, Chaojie Wang, Jian Sun, Jichao Liu, Nan Wang, Xu Wu, Zhihao Wang, Ligui Hao, Rongzhang Wang, Yong Jia, Leili Li, Kaiqin Qiu, Shaofu Song, Hongbin 0095-1137 1098-660X American Society for Microbiology Microbiology (medical) http://dx.doi.org/10.1128/jcm.00696-14 <jats:title>ABSTRACT</jats:title> <jats:p> A clustered regularly interspaced short palindromic repeat (CRISPR) typing method has recently been developed and used for typing and subtyping of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> spp., but it is complicated and labor intensive because it has to analyze all spacers in two CRISPR loci. Here, we developed a more convenient and efficient method, namely, CRISPR locus spacer pair typing (CLSPT), which only needs to analyze the two newly incorporated spacers adjoining the leader array in the two CRISPR loci. We analyzed a CRISPR array of 82 strains belonging to 21 <jats:named-content content-type="genus-species">Salmonella</jats:named-content> serovars isolated from humans in different areas of China by using this new method. We also retrieved the newly incorporated spacers in each CRISPR locus of 537 <jats:named-content content-type="genus-species">Salmonella</jats:named-content> isolates which have definite serotypes in the Pasteur Institute's CRISPR Database to evaluate this method. Our findings showed that this new CLSPT method presents a high level of consistency (kappa = 0.9872, Matthew's correlation coefficient = 0.9712) with the results of traditional serotyping, and thus, it can also be used to predict serotypes of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> spp. Moreover, this new method has a considerable discriminatory power (discriminatory index [DI] = 0.8145), comparable to those of multilocus sequence typing (DI = 0.8088) and conventional CRISPR typing (DI = 0.8684). Because CLSPT only costs about $5 to $10 per isolate, it is a much cheaper and more attractive method for subtyping of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> isolates. In conclusion, this new method will provide considerable advantages over other molecular subtyping methods, and it may become a valuable epidemiologic tool for the surveillance of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> infections. </jats:p> New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica Journal of Clinical Microbiology |
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| title |
New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_unstemmed |
New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_full |
New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_fullStr |
New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_full_unstemmed |
New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_short |
New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_sort |
new clustered regularly interspaced short palindromic repeat locus spacer pair typing method based on the newly incorporated spacer for salmonella enterica |
| topic |
Microbiology (medical) |
| url |
http://dx.doi.org/10.1128/jcm.00696-14 |
| publishDate |
2014 |
| physical |
2955-2962 |
| description |
<jats:title>ABSTRACT</jats:title>
<jats:p>
A clustered regularly interspaced short palindromic repeat (CRISPR) typing method has recently been developed and used for typing and subtyping of
<jats:named-content content-type="genus-species">Salmonella</jats:named-content>
spp., but it is complicated and labor intensive because it has to analyze all spacers in two CRISPR loci. Here, we developed a more convenient and efficient method, namely, CRISPR locus spacer pair typing (CLSPT), which only needs to analyze the two newly incorporated spacers adjoining the leader array in the two CRISPR loci. We analyzed a CRISPR array of 82 strains belonging to 21
<jats:named-content content-type="genus-species">Salmonella</jats:named-content>
serovars isolated from humans in different areas of China by using this new method. We also retrieved the newly incorporated spacers in each CRISPR locus of 537
<jats:named-content content-type="genus-species">Salmonella</jats:named-content>
isolates which have definite serotypes in the Pasteur Institute's CRISPR Database to evaluate this method. Our findings showed that this new CLSPT method presents a high level of consistency (kappa = 0.9872, Matthew's correlation coefficient = 0.9712) with the results of traditional serotyping, and thus, it can also be used to predict serotypes of
<jats:named-content content-type="genus-species">Salmonella</jats:named-content>
spp. Moreover, this new method has a considerable discriminatory power (discriminatory index [DI] = 0.8145), comparable to those of multilocus sequence typing (DI = 0.8088) and conventional CRISPR typing (DI = 0.8684). Because CLSPT only costs about $5 to $10 per isolate, it is a much cheaper and more attractive method for subtyping of
<jats:named-content content-type="genus-species">Salmonella</jats:named-content>
isolates. In conclusion, this new method will provide considerable advantages over other molecular subtyping methods, and it may become a valuable epidemiologic tool for the surveillance of
<jats:named-content content-type="genus-species">Salmonella</jats:named-content>
infections.
</jats:p> |
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| description | <jats:title>ABSTRACT</jats:title> <jats:p> A clustered regularly interspaced short palindromic repeat (CRISPR) typing method has recently been developed and used for typing and subtyping of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> spp., but it is complicated and labor intensive because it has to analyze all spacers in two CRISPR loci. Here, we developed a more convenient and efficient method, namely, CRISPR locus spacer pair typing (CLSPT), which only needs to analyze the two newly incorporated spacers adjoining the leader array in the two CRISPR loci. We analyzed a CRISPR array of 82 strains belonging to 21 <jats:named-content content-type="genus-species">Salmonella</jats:named-content> serovars isolated from humans in different areas of China by using this new method. We also retrieved the newly incorporated spacers in each CRISPR locus of 537 <jats:named-content content-type="genus-species">Salmonella</jats:named-content> isolates which have definite serotypes in the Pasteur Institute's CRISPR Database to evaluate this method. Our findings showed that this new CLSPT method presents a high level of consistency (kappa = 0.9872, Matthew's correlation coefficient = 0.9712) with the results of traditional serotyping, and thus, it can also be used to predict serotypes of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> spp. Moreover, this new method has a considerable discriminatory power (discriminatory index [DI] = 0.8145), comparable to those of multilocus sequence typing (DI = 0.8088) and conventional CRISPR typing (DI = 0.8684). Because CLSPT only costs about $5 to $10 per isolate, it is a much cheaper and more attractive method for subtyping of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> isolates. In conclusion, this new method will provide considerable advantages over other molecular subtyping methods, and it may become a valuable epidemiologic tool for the surveillance of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> infections. </jats:p> |
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| spelling | Li, Hao Li, Peng Xie, Jing Yi, Shengjie Yang, Chaojie Wang, Jian Sun, Jichao Liu, Nan Wang, Xu Wu, Zhihao Wang, Ligui Hao, Rongzhang Wang, Yong Jia, Leili Li, Kaiqin Qiu, Shaofu Song, Hongbin 0095-1137 1098-660X American Society for Microbiology Microbiology (medical) http://dx.doi.org/10.1128/jcm.00696-14 <jats:title>ABSTRACT</jats:title> <jats:p> A clustered regularly interspaced short palindromic repeat (CRISPR) typing method has recently been developed and used for typing and subtyping of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> spp., but it is complicated and labor intensive because it has to analyze all spacers in two CRISPR loci. Here, we developed a more convenient and efficient method, namely, CRISPR locus spacer pair typing (CLSPT), which only needs to analyze the two newly incorporated spacers adjoining the leader array in the two CRISPR loci. We analyzed a CRISPR array of 82 strains belonging to 21 <jats:named-content content-type="genus-species">Salmonella</jats:named-content> serovars isolated from humans in different areas of China by using this new method. We also retrieved the newly incorporated spacers in each CRISPR locus of 537 <jats:named-content content-type="genus-species">Salmonella</jats:named-content> isolates which have definite serotypes in the Pasteur Institute's CRISPR Database to evaluate this method. Our findings showed that this new CLSPT method presents a high level of consistency (kappa = 0.9872, Matthew's correlation coefficient = 0.9712) with the results of traditional serotyping, and thus, it can also be used to predict serotypes of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> spp. Moreover, this new method has a considerable discriminatory power (discriminatory index [DI] = 0.8145), comparable to those of multilocus sequence typing (DI = 0.8088) and conventional CRISPR typing (DI = 0.8684). Because CLSPT only costs about $5 to $10 per isolate, it is a much cheaper and more attractive method for subtyping of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> isolates. In conclusion, this new method will provide considerable advantages over other molecular subtyping methods, and it may become a valuable epidemiologic tool for the surveillance of <jats:named-content content-type="genus-species">Salmonella</jats:named-content> infections. </jats:p> New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica Journal of Clinical Microbiology |
| spellingShingle | Li, Hao, Li, Peng, Xie, Jing, Yi, Shengjie, Yang, Chaojie, Wang, Jian, Sun, Jichao, Liu, Nan, Wang, Xu, Wu, Zhihao, Wang, Ligui, Hao, Rongzhang, Wang, Yong, Jia, Leili, Li, Kaiqin, Qiu, Shaofu, Song, Hongbin, Journal of Clinical Microbiology, New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica, Microbiology (medical) |
| title | New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_full | New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_fullStr | New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_full_unstemmed | New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_short | New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| title_sort | new clustered regularly interspaced short palindromic repeat locus spacer pair typing method based on the newly incorporated spacer for salmonella enterica |
| title_unstemmed | New Clustered Regularly Interspaced Short Palindromic Repeat Locus Spacer Pair Typing Method Based on the Newly Incorporated Spacer for Salmonella enterica |
| topic | Microbiology (medical) |
| url | http://dx.doi.org/10.1128/jcm.00696-14 |