Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant

<em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was...
Ausführliche Beschreibung

Gespeichert in:

Autor*in:	Federica Palma [verfasserIn] Frédérique Pasquali [verfasserIn] Alex Lucchi [verfasserIn] Alessandra De Cesare [verfasserIn] Gerardo Manfreda [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch ; Italienisch

Erschienen:	2017

Schlagwörter:	Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes

Übergeordnetes Werk:	In: Italian Journal of Food Safety - PAGEPress Publications, 2013, 6(2017), 3
Übergeordnetes Werk:	volume:6 ; year:2017 ; number:3

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.4081/ijfs.2017.6879

Katalog-ID:	DOAJ037064266

Internformat


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allfields	10.4081/ijfs.2017.6879 doi (DE-627)DOAJ037064266 (DE-599)DOAJa08e261a66684a2ba72a284f969b54ba DE-627 ger DE-627 rakwb eng ita TP368-456 Federica Palma verfasserin aut Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates. Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes Food processing and manufacture Frédérique Pasquali verfasserin aut Alex Lucchi verfasserin aut Alessandra De Cesare verfasserin aut Gerardo Manfreda verfasserin aut In Italian Journal of Food Safety PAGEPress Publications, 2013 6(2017), 3 (DE-627)74650697X (DE-600)2717104-8 22397132 nnns volume:6 year:2017 number:3 https://doi.org/10.4081/ijfs.2017.6879 kostenfrei https://doaj.org/article/a08e261a66684a2ba72a284f969b54ba kostenfrei http://www.pagepressjournals.org/index.php/ijfs/article/view/6879 kostenfrei https://doaj.org/toc/2239-7132 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2017 3
spelling	10.4081/ijfs.2017.6879 doi (DE-627)DOAJ037064266 (DE-599)DOAJa08e261a66684a2ba72a284f969b54ba DE-627 ger DE-627 rakwb eng ita TP368-456 Federica Palma verfasserin aut Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates. Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes Food processing and manufacture Frédérique Pasquali verfasserin aut Alex Lucchi verfasserin aut Alessandra De Cesare verfasserin aut Gerardo Manfreda verfasserin aut In Italian Journal of Food Safety PAGEPress Publications, 2013 6(2017), 3 (DE-627)74650697X (DE-600)2717104-8 22397132 nnns volume:6 year:2017 number:3 https://doi.org/10.4081/ijfs.2017.6879 kostenfrei https://doaj.org/article/a08e261a66684a2ba72a284f969b54ba kostenfrei http://www.pagepressjournals.org/index.php/ijfs/article/view/6879 kostenfrei https://doaj.org/toc/2239-7132 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2017 3
allfields_unstemmed	10.4081/ijfs.2017.6879 doi (DE-627)DOAJ037064266 (DE-599)DOAJa08e261a66684a2ba72a284f969b54ba DE-627 ger DE-627 rakwb eng ita TP368-456 Federica Palma verfasserin aut Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates. Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes Food processing and manufacture Frédérique Pasquali verfasserin aut Alex Lucchi verfasserin aut Alessandra De Cesare verfasserin aut Gerardo Manfreda verfasserin aut In Italian Journal of Food Safety PAGEPress Publications, 2013 6(2017), 3 (DE-627)74650697X (DE-600)2717104-8 22397132 nnns volume:6 year:2017 number:3 https://doi.org/10.4081/ijfs.2017.6879 kostenfrei https://doaj.org/article/a08e261a66684a2ba72a284f969b54ba kostenfrei http://www.pagepressjournals.org/index.php/ijfs/article/view/6879 kostenfrei https://doaj.org/toc/2239-7132 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2017 3
allfieldsGer	10.4081/ijfs.2017.6879 doi (DE-627)DOAJ037064266 (DE-599)DOAJa08e261a66684a2ba72a284f969b54ba DE-627 ger DE-627 rakwb eng ita TP368-456 Federica Palma verfasserin aut Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates. Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes Food processing and manufacture Frédérique Pasquali verfasserin aut Alex Lucchi verfasserin aut Alessandra De Cesare verfasserin aut Gerardo Manfreda verfasserin aut In Italian Journal of Food Safety PAGEPress Publications, 2013 6(2017), 3 (DE-627)74650697X (DE-600)2717104-8 22397132 nnns volume:6 year:2017 number:3 https://doi.org/10.4081/ijfs.2017.6879 kostenfrei https://doaj.org/article/a08e261a66684a2ba72a284f969b54ba kostenfrei http://www.pagepressjournals.org/index.php/ijfs/article/view/6879 kostenfrei https://doaj.org/toc/2239-7132 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2017 3
allfieldsSound	10.4081/ijfs.2017.6879 doi (DE-627)DOAJ037064266 (DE-599)DOAJa08e261a66684a2ba72a284f969b54ba DE-627 ger DE-627 rakwb eng ita TP368-456 Federica Palma verfasserin aut Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates. Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes Food processing and manufacture Frédérique Pasquali verfasserin aut Alex Lucchi verfasserin aut Alessandra De Cesare verfasserin aut Gerardo Manfreda verfasserin aut In Italian Journal of Food Safety PAGEPress Publications, 2013 6(2017), 3 (DE-627)74650697X (DE-600)2717104-8 22397132 nnns volume:6 year:2017 number:3 https://doi.org/10.4081/ijfs.2017.6879 kostenfrei https://doaj.org/article/a08e261a66684a2ba72a284f969b54ba kostenfrei http://www.pagepressjournals.org/index.php/ijfs/article/view/6879 kostenfrei https://doaj.org/toc/2239-7132 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2017 3
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author	Federica Palma
spellingShingle	Federica Palma misc TP368-456 misc Whole genome sequencing misc Listeria monocytogenes misc Rabbit meat misc cgMLST misc Virulence genes misc Food processing and manufacture Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant
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topic_title	TP368-456 Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant Whole genome sequencing Listeria monocytogenes Rabbit meat cgMLST Virulence genes
topic	misc TP368-456 misc Whole genome sequencing misc Listeria monocytogenes misc Rabbit meat misc cgMLST misc Virulence genes misc Food processing and manufacture
topic_unstemmed	misc TP368-456 misc Whole genome sequencing misc Listeria monocytogenes misc Rabbit meat misc cgMLST misc Virulence genes misc Food processing and manufacture
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title	Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant
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title_full	Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant
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title_sort	whole genome sequencing for typing and characterisation of listeria monocytogenes isolated in a rabbit meat processing plant
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title_auth	Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant
abstract	<em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates.
abstractGer	<em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates.
abstract_unstemmed	<em<Listeria monocytogenes</em< is a food-borne pathogen able to survive and grow in different environments including food processing plants where it can persist for month or years. In the present study the discriminatory power of Whole Genome Sequencing (WGS)-based analysis (cgMLST) was compared to that of molecular typing methods on 34 <em<L. monocytogenes</em< isolates collected over one year in the same rabbit meat processing plant and belonging to three genotypes (ST14, ST121, ST224). Each genotype included isolates indistinguishable by standard molecular typing methods. The virulence potential of all isolates was assessed by Multi Virulence-Locus Sequence Typing (MVLST) and the investigation of a representative database of virulence determinant genes. The whole genome of each isolate was sequenced on a MiSeq platform. The cgMLST, MVLST, and <em<in silico</em< identification of virulence genes were performed using publicly available tools. Draft genomes included a number of contigs ranging from 13 to 28 and N50 ranging from 456298 to 580604. The coverage ranged from 41 to 187X. The cgMLST showed a significantly superior discriminatory power only in comparison to ribotyping, nevertheless it allows the detection of two singletons belonging to ST14 that were not observed by other molecular methods. All ST14 isolates belonged to VT107, which 7-loci concatenated sequence differs for only 4 nucleotides to VT1 (Epidemic clone III). Analysis of virulence genes showed the presence of a fulllength <em<inlA</em< version in all ST14 isolates and of a mutated version including a premature stop codon (PMSC) associated to attenuated virulence in all ST121 isolates.
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title_short	Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant
url	https://doi.org/10.4081/ijfs.2017.6879 https://doaj.org/article/a08e261a66684a2ba72a284f969b54ba http://www.pagepressjournals.org/index.php/ijfs/article/view/6879 https://doaj.org/toc/2239-7132
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Whole genome sequencing for typing and characterisation of Listeria monocytogenes isolated in a rabbit meat processing plant

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