Exploring the genomic traits of non-toxigenic Vibrio parahaemolyticus strains isolated in southern Chile

Daniel Castillo, Diliana Pérez-Reytor, Nicolás Plaza, Sebastián Ramírez-Araya, Carlos J. Blondel, Gino Corsini, Roberto Bastías, David E. Loyola, Víctor Jaña, Leonardo Pavez, Katherine García

Resultado de la investigación: Article

6 Citas (Scopus)

Resumen

Vibrio parahaemolyticus is the leading cause of seafood-borne gastroenteritis worldwide. As reported in other countries, after the rise and fall of the pandemic strain in Chile, other post-pandemic strains have been associated with clinical cases, including strains lacking the major toxins TDH and TRH. Since the presence or absence of tdh and trh genes has been used for diagnostic purposes and as a proxy of the virulence of V. parahaemolyticus isolates, the understanding of virulence in V. parahaemolyticus strains lacking toxins is essential to detect these strains present in water and marine products to avoid possible food-borne infection. In this study, we characterized the genome of four environmental and two clinical non-toxigenic strains (tdh-, trh-, and T3SS2-). Using whole-genome sequencing, phylogenetic, and comparative genome analysis, we identified the core and pan-genome of V. parahaemolyticus of strains of southern Chile. The phylogenetic tree based on the core genome showed low genetic diversity but the analysis of the pan-genome revealed that all strains harbored genomic islands carrying diverse virulence and fitness factors or prophage-like elements that encode toxins like Zot and RTX. Interestingly, the three strains carrying Zot-like toxin have a different sequence, although the alignment showed some conserved areas with the zot sequence found in V. cholerae. In addition, we identified an unexpected diversity in the genetic architecture of the T3SS1 gene cluster and the presence of the T3SS2 gene cluster in a non-pandemic environmental strain. Our study sheds light on the diversity of V. parahaemolyticus strains from the southern Pacific which increases our current knowledge regarding the global diversity of this organism.

Idioma originalEnglish
Número de artículo161
PublicaciónFrontiers in Microbiology
Volumen9
N.ºFEB
DOI
EstadoPublished - 8 feb 2018

Huella dactilar

Vibrio parahaemolyticus
Chile
Genome
Pandemics
Multigene Family
Virulence
Prophages
Genomic Islands
Seafood
Sequence Alignment
Cholera
Gastroenteritis
Proxy
Virulence Factors
Food
Water
Infection
Genes

ASJC Scopus subject areas

  • Microbiology
  • Microbiology (medical)

Citar esto

Castillo, Daniel ; Pérez-Reytor, Diliana ; Plaza, Nicolás ; Ramírez-Araya, Sebastián ; Blondel, Carlos J. ; Corsini, Gino ; Bastías, Roberto ; Loyola, David E. ; Jaña, Víctor ; Pavez, Leonardo ; García, Katherine. / Exploring the genomic traits of non-toxigenic Vibrio parahaemolyticus strains isolated in southern Chile. En: Frontiers in Microbiology. 2018 ; Vol. 9, N.º FEB.
@article{33356780630742c18bdd5b3ccbfeb00b,
title = "Exploring the genomic traits of non-toxigenic Vibrio parahaemolyticus strains isolated in southern Chile",
abstract = "Vibrio parahaemolyticus is the leading cause of seafood-borne gastroenteritis worldwide. As reported in other countries, after the rise and fall of the pandemic strain in Chile, other post-pandemic strains have been associated with clinical cases, including strains lacking the major toxins TDH and TRH. Since the presence or absence of tdh and trh genes has been used for diagnostic purposes and as a proxy of the virulence of V. parahaemolyticus isolates, the understanding of virulence in V. parahaemolyticus strains lacking toxins is essential to detect these strains present in water and marine products to avoid possible food-borne infection. In this study, we characterized the genome of four environmental and two clinical non-toxigenic strains (tdh-, trh-, and T3SS2-). Using whole-genome sequencing, phylogenetic, and comparative genome analysis, we identified the core and pan-genome of V. parahaemolyticus of strains of southern Chile. The phylogenetic tree based on the core genome showed low genetic diversity but the analysis of the pan-genome revealed that all strains harbored genomic islands carrying diverse virulence and fitness factors or prophage-like elements that encode toxins like Zot and RTX. Interestingly, the three strains carrying Zot-like toxin have a different sequence, although the alignment showed some conserved areas with the zot sequence found in V. cholerae. In addition, we identified an unexpected diversity in the genetic architecture of the T3SS1 gene cluster and the presence of the T3SS2 gene cluster in a non-pandemic environmental strain. Our study sheds light on the diversity of V. parahaemolyticus strains from the southern Pacific which increases our current knowledge regarding the global diversity of this organism.",
keywords = "Accessory genome, Genomic island, Non-toxigenic, Prophage, RTX, Vibrio parahaemolyticus, Virulence, Zot",
author = "Daniel Castillo and Diliana P{\'e}rez-Reytor and Nicol{\'a}s Plaza and Sebasti{\'a}n Ram{\'i}rez-Araya and Blondel, {Carlos J.} and Gino Corsini and Roberto Bast{\'i}as and Loyola, {David E.} and V{\'i}ctor Ja{\~n}a and Leonardo Pavez and Katherine Garc{\'i}a",
year = "2018",
month = "2",
day = "8",
doi = "10.3389/fmicb.2018.00161",
language = "English",
volume = "9",
journal = "Frontiers in Microbiology",
issn = "1664-302X",
publisher = "Frontiers Media S.A.",
number = "FEB",

}

Castillo, D, Pérez-Reytor, D, Plaza, N, Ramírez-Araya, S, Blondel, CJ, Corsini, G, Bastías, R, Loyola, DE, Jaña, V, Pavez, L & García, K 2018, 'Exploring the genomic traits of non-toxigenic Vibrio parahaemolyticus strains isolated in southern Chile', Frontiers in Microbiology, vol. 9, n.º FEB, 161. https://doi.org/10.3389/fmicb.2018.00161

Exploring the genomic traits of non-toxigenic Vibrio parahaemolyticus strains isolated in southern Chile. / Castillo, Daniel; Pérez-Reytor, Diliana; Plaza, Nicolás; Ramírez-Araya, Sebastián; Blondel, Carlos J.; Corsini, Gino; Bastías, Roberto; Loyola, David E.; Jaña, Víctor; Pavez, Leonardo; García, Katherine.

En: Frontiers in Microbiology, Vol. 9, N.º FEB, 161, 08.02.2018.

Resultado de la investigación: Article

TY - JOUR

T1 - Exploring the genomic traits of non-toxigenic Vibrio parahaemolyticus strains isolated in southern Chile

AU - Castillo, Daniel

AU - Pérez-Reytor, Diliana

AU - Plaza, Nicolás

AU - Ramírez-Araya, Sebastián

AU - Blondel, Carlos J.

AU - Corsini, Gino

AU - Bastías, Roberto

AU - Loyola, David E.

AU - Jaña, Víctor

AU - Pavez, Leonardo

AU - García, Katherine

PY - 2018/2/8

Y1 - 2018/2/8

N2 - Vibrio parahaemolyticus is the leading cause of seafood-borne gastroenteritis worldwide. As reported in other countries, after the rise and fall of the pandemic strain in Chile, other post-pandemic strains have been associated with clinical cases, including strains lacking the major toxins TDH and TRH. Since the presence or absence of tdh and trh genes has been used for diagnostic purposes and as a proxy of the virulence of V. parahaemolyticus isolates, the understanding of virulence in V. parahaemolyticus strains lacking toxins is essential to detect these strains present in water and marine products to avoid possible food-borne infection. In this study, we characterized the genome of four environmental and two clinical non-toxigenic strains (tdh-, trh-, and T3SS2-). Using whole-genome sequencing, phylogenetic, and comparative genome analysis, we identified the core and pan-genome of V. parahaemolyticus of strains of southern Chile. The phylogenetic tree based on the core genome showed low genetic diversity but the analysis of the pan-genome revealed that all strains harbored genomic islands carrying diverse virulence and fitness factors or prophage-like elements that encode toxins like Zot and RTX. Interestingly, the three strains carrying Zot-like toxin have a different sequence, although the alignment showed some conserved areas with the zot sequence found in V. cholerae. In addition, we identified an unexpected diversity in the genetic architecture of the T3SS1 gene cluster and the presence of the T3SS2 gene cluster in a non-pandemic environmental strain. Our study sheds light on the diversity of V. parahaemolyticus strains from the southern Pacific which increases our current knowledge regarding the global diversity of this organism.

AB - Vibrio parahaemolyticus is the leading cause of seafood-borne gastroenteritis worldwide. As reported in other countries, after the rise and fall of the pandemic strain in Chile, other post-pandemic strains have been associated with clinical cases, including strains lacking the major toxins TDH and TRH. Since the presence or absence of tdh and trh genes has been used for diagnostic purposes and as a proxy of the virulence of V. parahaemolyticus isolates, the understanding of virulence in V. parahaemolyticus strains lacking toxins is essential to detect these strains present in water and marine products to avoid possible food-borne infection. In this study, we characterized the genome of four environmental and two clinical non-toxigenic strains (tdh-, trh-, and T3SS2-). Using whole-genome sequencing, phylogenetic, and comparative genome analysis, we identified the core and pan-genome of V. parahaemolyticus of strains of southern Chile. The phylogenetic tree based on the core genome showed low genetic diversity but the analysis of the pan-genome revealed that all strains harbored genomic islands carrying diverse virulence and fitness factors or prophage-like elements that encode toxins like Zot and RTX. Interestingly, the three strains carrying Zot-like toxin have a different sequence, although the alignment showed some conserved areas with the zot sequence found in V. cholerae. In addition, we identified an unexpected diversity in the genetic architecture of the T3SS1 gene cluster and the presence of the T3SS2 gene cluster in a non-pandemic environmental strain. Our study sheds light on the diversity of V. parahaemolyticus strains from the southern Pacific which increases our current knowledge regarding the global diversity of this organism.

KW - Accessory genome

KW - Genomic island

KW - Non-toxigenic

KW - Prophage

KW - RTX

KW - Vibrio parahaemolyticus

KW - Virulence

KW - Zot

UR - http://www.scopus.com/inward/record.url?scp=85041797633&partnerID=8YFLogxK

U2 - 10.3389/fmicb.2018.00161

DO - 10.3389/fmicb.2018.00161

M3 - Article

AN - SCOPUS:85041797633

VL - 9

JO - Frontiers in Microbiology

JF - Frontiers in Microbiology

SN - 1664-302X

IS - FEB

M1 - 161

ER -