Genetic features of Salmonella enterica subspecies diarizonae serovar 61:k:1,5 isolated from abortion cases in sheep, United States, 2020.

Published on Sep 1, 2021in Research in Veterinary Science1.892
· DOI :10.1016/J.RVSC.2021.06.007
Ji-Yeon Hyeon8
Estimated H-index: 8
(UConn: University of Connecticut)
Source
Abstract
Abstract null null Salmonella enterica subspecies diarizonae serovar 61: (k):1, 5, (7) (sheep associated S. diarizonae, SASd) is the most common Salmonella serotype identified in sheep flocks. Despite the involvement with animal and human infections, there is limited information regarding virulence profiles of SASds and their antibiotic resistance gene complement, particularly for those circulating in the U.S. In this study, we genetically characterized three SASds, 20-265, 20-269, and 20-312, isolated from sheep placental tissues during an abortion storm affecting a flock in Connecticut during 2020. SASds were the only bacteria isolated from analyzed sheep tissues. The isolates were sensitive to all the antibiotics tested, but all these SASd isolates carry the aminoglycoside resistance gene, aac(6′)-Iaa, and a chromosomal substitution in the parC gene. The proportion of pseudogenes (5.3-5.5%) was similar among the isolates, and these SASds carry IncX1 type plasmids. Comparing with the SASds isolates from Enterobase, the three isolates showed an identical genomic virulence profile carrying virulence genes in the conserved set of other SASd isolates except for steC, iagB, iacP, sseI, and slrP genes. In the SNP-based phylogenetic analysis, SASd sequences were grouped into group A-C, and the group C was further subdivided into subgroup C1-C6. The three isolates clustered with other SASd isolates from the U.S. and Canada in subgroup C6. SASd isolates in the identical phylogenetic groups tended to have similar geographical origin. The results of our study did not provide conclusive evidence about which are the genetic traits that trigger SASds to become virulent in sheep, but our data will provide a point for comparative studies of this Salmonella serovar.
References45
Newest
#1Chuan-Zhen Zhang (SCAU: South China Agricultural University)H-Index: 5
#2Yan Zhang (SCAU: South China Agricultural University)H-Index: 1
Last. Hong-Xia Jiang (SCAU: South China Agricultural University)H-Index: 17
view all 10 authors...
Background Bacterial heteroresistance has been increasingly identified as an important phenomenon for many antibiotic/bacterium combinations. Objectives To investigate ciprofloxacin heteroresistance in Salmonella and characterize mechanisms contributing to ciprofloxacin heteroresistance. Methods Ciprofloxacin-heteroresistant Salmonella were identified by population analysis profiling (PAP). Target mutations and the presence of PMQR genes were detected using PCR and sequencing. Expression of acrB...
3 CitationsSource
#1Laura Uelze (BfR: Federal Institute for Risk Assessment)H-Index: 3
#2Maria Borowiak (BfR: Federal Institute for Risk Assessment)H-Index: 9
Last. Burkhard Malorny (BfR: Federal Institute for Risk Assessment)H-Index: 39
view all 6 authors...
ABSTRACT Salmonella enterica subsp. diarizonae serovar 61:k:1,5,(7) is commonly associated with sheep. Occasionally, the serovar has been found to also infect humans. Here, we report the complete genome sequence of strain 14-SA00836-0, isolated from human urine. To our knowledge, this is the first reported complete genome sequence of this serovar isolated from a human clinical sample.
3 CitationsSource
#1James J. Davis (U of C: University of Chicago)H-Index: 22
#2Alice R. Wattam (UVA: University of Virginia)H-Index: 21
Last. Rick Stevens (U of C: University of Chicago)H-Index: 55
view all 34 authors...
The PathoSystems Resource Integration Center (PATRIC) is the bacterial Bioinformatics Resource Center funded by the National Institute of Allergy and Infectious Diseases (https://www.patricbrc.org). PATRIC supports bioinformatic analyses of all bacteria with a special emphasis on pathogens, offering a rich comparative analysis environment that provides users with access to over 250 000 uniformly annotated and publicly available genomes with curated metadata. PATRIC offers web-based visualization...
126 CitationsSource
#1Michael Alonge (Johns Hopkins University)H-Index: 9
#2Sebastian Soyk (CSHL: Cold Spring Harbor Laboratory)H-Index: 12
Last. Michael C. Schatz (Johns Hopkins University)H-Index: 71
view all 8 authors...
We present RaGOO, a reference-guided contig ordering and orienting tool that leverages the speed and sensitivity of Minimap2 to accurately achieve chromosome-scale assemblies in minutes. After the pseudomolecules are constructed, RaGOO identifies structural variants, including those spanning sequencing gaps. We show that RaGOO accurately orders and orients 3 de novo tomato genome assemblies, including the widely used M82 reference cultivar. We then demonstrate the scalability and utility of RaGO...
154 CitationsSource
#1Laura UelzeH-Index: 3
#2Maria BorowiakH-Index: 9
Last. Burkhard MalornyH-Index: 39
view all 7 authors...
Background The Salmonella enterica subsp. diarizonae serovar 61:k:1,5,(7) (SASd) has been found to be host-adapted to sheep, with a high prevalence in sheep herds worldwide. Infections are usually sub-clinical, however the serovar has the potential to cause diarrhea, abortions and chronic proliferative rhinitis. Although occurrence and significance of SASd infections in sheep have been extensively studied, the genetic mechanism underlying this unusual host-adaptation have remained unknown, due t...
5 CitationsSource
#1Shaokang Zhang (CFS: Center for Food Safety)H-Index: 7
#2Hendrik C. den Bakker (CFS: Center for Food Safety)H-Index: 1
Last. Xiangyu Deng (CFS: Center for Food Safety)H-Index: 17
view all 9 authors...
SeqSero, launched in 2015, is a software tool for Salmonella serotype determination from whole genome sequencing (WGS) data. Despite its routine use in public health and food safety laboratories in the United States and other countries, the original SeqSero pipeline is relatively slow (minutes per genome using sequencing reads), is not optimized for draft genome assemblies, and may assign multiple serotypes for a strain. Here we present SeqSero2 (github.com/denglab/SeqSero2; denglab.info/SeqSero...
51 CitationsSource
#1Anne BuschH-Index: 6
#2Herbert TomasoH-Index: 41
Last. Ulrich MethnerH-Index: 20
view all 3 authors...
ABSTRACT Here, we report the draft genome sequence of Salmonella enterica subsp. diarizonae serovar 61:k:1,5,(7) strain 1569, alternatively named 14PM0011, which is a common serovar in German sheep that is unrepresented in the databases and considered and described as being host adapted with low virulence.
3 CitationsSource
#1Sanjay S. Gautam (UTAS: University of Tasmania)H-Index: 7
#2Rajendra Kc (UTAS: University of Tasmania)H-Index: 4
Last. Ronan F. O’Toole (UTAS: University of Tasmania)H-Index: 21
view all 5 authors...
Bacterial whole genome sequencing (WGS) is becoming a widely-used technique in research, clinical diagnostic, and public health laboratories. It enables high resolution characterization of bacterial pathogens in terms of properties that include antibiotic resistance, molecular epidemiology, and virulence. The introduction of next-generation sequencing instrumentation has made WGS attainable in terms of costs. However, the lack of a beginner’s protocol for WGS still represents a barrier to its ad...
10 CitationsSource
#1Joaquín Giner-Lamia (UPM: Technical University of Madrid)H-Index: 9
#2Pablo Vinuesa (UNAM: National Autonomous University of Mexico)H-Index: 30
Last. Francisco García-del Portillo (CSIC: Spanish National Research Council)H-Index: 41
view all 9 authors...
Background Salmonella enterica subsp. diarizonae (IIIb) is frequently isolated from the environment, cold-blooded reptiles, sheep and humans; however only a few studies describe the isolation of this subspecies from invasive human infections. The factors contributing to this unusual behavior are currently unknown.
13 CitationsSource
#1Ulrich Methner (Friedrich Loeffler Institute)H-Index: 20
#2Udo MoogH-Index: 4
Background The occurrence of Salmonella enterica subspecies diarizonae serovar 61: k: 1, 5, (7) (SASd) and other Salmonella organisms in sheep in the German federal state of Thuringia was examined for the first time. Pooled faecal samples from 90 flocks located in this state were monitored.
9 CitationsSource
Cited By0
Newest