scholarly journals Various Sequence Types of Enterobacteriaceae Isolated from Commercial Chicken Farms in China and Carrying the blaNDM-5 Gene

2018 ◽  
Vol 62 (10) ◽  
Author(s):  
Rong Xiang ◽  
An-Yun Zhang ◽  
Xiao-Lan Ye ◽  
Zhuang-Zhuang Kang ◽  
Chang-Wei Lei ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Klebsiella Pneumoniae ◽  
Sequence Type ◽  
Content Type ◽  
Commercial Chicken ◽  
Rectal Swabs ◽  
Sequence Types

ABSTRACT A total of 108 meropenem-resistant Enterobacteriaceae isolates were obtained from 1,658 rectal swabs collected from 15 unrelated commercial chicken farms in China between 2014 and 2016. These samples yielded 16 Escherichia coli and 2 Klebsiella pneumoniae isolates of diverse sequence types carrying a blaNDM-5-bearing IncX3 plasmid. K. pneumoniae strain sequence type 709 (ST709) has two blaNDM-5-carrying plasmids that were transferred together to E.coli.

scholarly journals Comparison of the Superpolymyxin and ChromID Colistin R Screening Media for the Detection of Colistin-Resistant Enterobacteriaceae from Spiked Rectal Swabs

2018 ◽  
Vol 63 (1) ◽  
Author(s):  
Delphine Girlich ◽  
Thierry Naas ◽  
Laurent Dortet
Keyword(s):  
Escherichia Coli ◽  
Klebsiella Pneumoniae ◽  
Confidence Interval ◽  
Enterobacter Cloacae ◽  
Bacterial Isolates ◽  
Colistin Resistance ◽  
Gram Negative ◽  
Content Type ◽  
Rectal Swabs ◽  
Stool Samples

ABSTRACT The dissemination of carbapenemase-producing Enterobacteriaceae (CPE) has led to the increased use of colistin, which has resulted in the emergence of colistin-resistant Enterobacteriaceae worldwide. One of the most threatening scenarios is the dissemination of colistin resistance in CPE, particularly the plasmid-encoded resistance element MCR. Thus, it has now become mandatory to possess reliable media to screen for colistin-resistant Gram-negative bacterial isolates, especially Enterobacteriaceae. In this study, we evaluated the performances of the Superpolymyxin medium (ELITechGroup) and the ChromID Colistin R medium (bioMérieux) to screen for colistin-resistant Enterobacteriaceae from spiked rectal swabs. Stool samples were spiked with a total of 94 enterobacterial isolates (Escherichia coli, Klebsiella pneumoniae, Salmonella enterica, Enterobacter cloacae), including 53 colistin-resistant isolates. ESwabs (Copan Diagnostics) were then inoculated with those spiked fecal suspensions, and culture proceeded as recommended by both manufacturers. The sensitivity of detection of colistin-resistant Enterobacteriaceae was 86.8% (95% confidence interval [95% CI] = 74.0% to 94.0%) using both the Superpolymyxin medium and the ChromID Colistin R plates. Surprisingly, the isolates that were not detected were not the same for both media. The specificities were high for both media, at 97.9% (95% CI = 87.3% to 99.9%) for the Superpolymyxin medium and 100% (95% CI = 90.4% to 100%) for the ChromID Colistin R medium. Both commercially available media, ChromID Colistin R and Superpolymyxin, provide useful tools to screen for colistin-resistant Enterobacteriaceae from patient samples (rectal swabs) regardless of the level and mechanism of colistin resistance.

scholarly journals Draft Genome Sequences of Colistin-Resistant MCR-1-Producing Escherichia coli ST1850 and ST74 Strains Isolated from Commercial Chicken Meat

2017 ◽  
Vol 5 (20) ◽  
Author(s):  
Daniel F. Monte ◽  
Miriam R. Fernandes ◽  
Louise Cerdeira ◽  
Tiago A. de Souza ◽  
Andressa Mem ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Draft Genome ◽  
Chicken Meat ◽  
Sequence Type ◽  
Genome Sequences ◽  
Content Type ◽  
Commercial Chicken

ABSTRACT We present here the draft genome sequences of two colistin-resistant mcr-1-carrying Escherichia coli strains belonging to sequence type 74 (ST74) and ST1850, isolated from commercial chicken meat in Brazil. Assembly of this draft genome resulted in 5,022,083 and 4,950,681 bp, respectively, revealing the presence of the IncX4 plasmid-mediated mcr-1 gene responsible for resistance to colistin.

scholarly journals High-Resolution Melting Analysis for Rapid Detection of Sequence Type 131 Escherichia coli

2017 ◽  
Vol 61 (6) ◽  
Author(s):  
Lucas B. Harrison ◽  
Nancy D. Hanson
Keyword(s):  
Escherichia Coli ◽  
Principal Component Analysis ◽  
High Resolution ◽  
High Resolution Melting ◽  
Principal Component ◽  
Cost Effective ◽  
Sequence Type ◽  
Content Type ◽  
E Coli ◽  
Sequence Types

ABSTRACT Escherichia coli isolates belonging to the sequence type 131 (ST131) clonal complex have been associated with the global distribution of fluoroquinolone and β-lactam resistance. Whole-genome sequencing and multilocus sequence typing identify sequence type but are expensive when evaluating large numbers of samples. This study was designed to develop a cost-effective screening tool using high-resolution melting (HRM) analysis to differentiate ST131 from non-ST131 E. coli in large sample populations in the absence of sequence analysis. The method was optimized using DNA from 12 E. coli isolates. Singleplex PCR was performed using 10 ng of DNA, Type-it HRM buffer, and multilocus sequence typing primers and was followed by multiplex PCR. The amplicon sizes ranged from 630 to 737 bp. Melt temperature peaks were determined by performing HRM analysis at 0.1°C resolution from 50 to 95°C on a Rotor-Gene Q 5-plex HRM system. Derivative melt curves were compared between sequence types and analyzed by principal component analysis. A blinded study of 191 E. coli isolates of ST131 and unknown sequence types validated this methodology. This methodology returned 99.2% specificity (124 true negatives and 1 false positive) and 100% sensitivity (66 true positives and 0 false negatives). This HRM methodology distinguishes ST131 from non-ST131 E. coli without sequence analysis. The analysis can be accomplished in about 3 h in any laboratory with an HRM-capable instrument and principal component analysis software. Therefore, this assay is a fast and cost-effective alternative to sequencing-based ST131 identification.

scholarly journals Outbreak of NDM-1-Producing Klebsiella pneumoniae in a Neonatal Unit in Colombia

2013 ◽  
Vol 57 (4) ◽  
pp. 1957-1960 ◽  
Author(s):  
Javier Antonio Escobar Pérez ◽  
Narda María Olarte Escobar ◽  
Betsy Castro-Cardozo ◽  
Ismael Alberto Valderrama Márquez ◽  
Martha Isabel Garzón Aguilar ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
South America ◽  
Molecular Analysis ◽  
Multilocus Sequence Typing ◽  
Sequence Type ◽  
Neonatal Unit ◽  
Content Type ◽  
First Report ◽  
Sequence Types

ABSTRACTSix multiresistant, NDM-1-producingKlebsiella pneumoniaestrains were recovered from an outbreak that affected six neonatal patients in a Colombian hospital. Molecular analysis showed that all of the isolates harbored theblaNDM-1,qnrA, andintI1genes and were clonally related. Multilocus sequence typing showed that the isolates belonged to a new sequence type (ST1043) that was different from the sequence types that had previously been reported. This is the first report of NDM-1-producing isolates in South America.

scholarly journals Complete Sequence of a Conjugative IncN Plasmid HarboringblaKPC-2,blaSHV-12, andqnrS1from an Escherichia coli Sequence Type 648 Strain

2014 ◽  
Vol 58 (11) ◽  
pp. 6974-6977 ◽  
Author(s):  
Jun-Jie Li ◽  
Chang-Seop Lee ◽  
Ji-Fang Sheng ◽  
Yohei Doi
Keyword(s):  
Escherichia Coli ◽  
Klebsiella Pneumoniae ◽  
Clinical History ◽  
Plasmid Profile ◽  
Complete Sequence ◽  
Sequence Type ◽  
Fluoroquinolone Resistance ◽  
Content Type

ABSTRACTWe sequenced a novel conjugativeblaKPC-2-harboring IncN plasmid, pYD626E, from anEscherichia colisequence type 648 strain previously identified in Pittsburgh, Pennsylvania. pYD626E was 72,800 bp long and carried four β-lactamase genes,blaKPC-2,blaSHV-12,blaLAP-1, andblaTEM-1. In addition, it harboredqnrS1(fluoroquinolone resistance) anddfrA14(trimethoprim resistance). The plasmid profile and clinical history supported thein vivotransfer of this plasmid betweenKlebsiella pneumoniaeandEscherichia coli.

scholarly journals blaCTX-M-1/9/1Hybrid Genes May Have Been Generated fromblaCTX-M-15on an IncI2 Plasmid

2015 ◽  
Vol 59 (8) ◽  
pp. 4464-4470 ◽  
Author(s):  
Lanping Liu ◽  
Dandan He ◽  
Luchao Lv ◽  
Wuling Liu ◽  
Xiaojie Chen ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Sequence Type ◽  
Gene Sequences ◽  
Nucleotide Difference ◽  
Hybrid Gene ◽  
Content Type ◽  
Complete Sequencing ◽  
Sequence Types ◽  
M 14 ◽  
Plasmid Backbone

ABSTRACTThree hybrid CTX-M β-lactamases, CTX-M-64, CTX-M-123, and CTX-M-132, with N and C termini matching CTX-M-1 group enzymes and centers matching CTX-M-9 group enzymes, have been identified. The hybrid gene sequences suggested recombination betweenblaCTX-M-15andblaCTX-M-14, the two most commonblaCTX-Mvariants worldwide. However,blaCTX-M-64andblaCTX-M-123are found in an ISEcp1-blaCTX-Mtransposition unit with a 45-bp “spacer,” rather than the 48 bp usually associated withblaCTX-M-15, and 112 bp of IncA/C plasmid backbone. This is closer to the context ofblaCTX-M-55, which has one nucleotide difference fromblaCTX-M-15, on IncI2 plasmid pHN1122-1. Here, we characterized an IncI2 plasmid carryingblaCTX-M-15with a 45-bp spacer (pHNY2-1) by complete sequencing and also sequenced IncI2 plasmids carryingblaCTX-M-64(pHNAH46-1) orblaCTX-M-132(pHNLDH19) and an IncI1 plasmid carryingblaCTX-M-123(pHNAH4-1). pHNY2-1 has the same ISEcp1-blaCTX-M-IncA/C insertion as pHN1122-1, pHNAH46-1, and pHNLDH19, and all four plasmid backbones are almost identical. pHNAH4-1 (IncI1 sequence type 108 [ST108]) carries a transposition unit that includes a 2,720-bp fragment of the IncI2 backbone, suggesting ISEcp1-mediated transfer ofblaCTX-M-IncA/C-IncI2 to an IncI1 plasmid. All three hybridblaCTX-Mgenes may have resulted from recombination betweenblaCTX-M-14andblaCTX-M-15with a 45-bp spacer on an IncI2 plasmid. Five additionalEscherichia coliisolates of different sequence types from different provinces, farms, and/or animals hadblaCTX-M-64on a pHNAH46-1-like IncI2 plasmid and 9 hadblaCTX-M-123on a pHNAH4-1-like IncI1 ST108 plasmid. Thus, epidemic IncI plasmids may be responsible for the spread ofblaCTX-M-64andblaCTX-M-123between different animals and different locations in China.

scholarly journals Multiplex PCR for Identification of Two Capsular Types in Epidemic KPC-Producing Klebsiella pneumoniae Sequence Type 258 Strains

2014 ◽  
Vol 58 (7) ◽  
pp. 4196-4199 ◽  
Author(s):  
Liang Chen ◽  
Kalyan D. Chavda ◽  
Jacqueline Findlay ◽  
Gisele Peirano ◽  
Katie Hopkins ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
Multiplex Pcr ◽  
Capsular Polysaccharide ◽  
Sequence Type ◽  
Pcr Assay ◽  
Content Type ◽  
Multiplex Pcr Assay ◽  
Polysaccharide Synthesis ◽  
Sequence Types

ABSTRACTWe developed a multiplex PCR assay capable of identifying two capsular polysaccharide synthesis sequence types (sequence type 258 [ST258]cps-1andcps-2) in epidemicKlebsiella pneumoniaeST258 strains. The assay performed with excellent sensitivity (100%) and specificity (100%) for identifyingcpstypes in 60 ST258K. pneumoniaesequenced isolates. The screening of 419 ST258 clonal isolates revealed a significant association betweencpstype andK. pneumoniaecarbapenemase (KPC) variant:cps-1is largely associated with KPC-2, whilecps-2is primarily associated with KPC-3.

Characterization of Extended-Spectrum β-Lactamase–Producing Escherichia coli Isolates from Pigs and Farm Workers

2016 ◽  
Vol 79 (9) ◽  
pp. 1630-1634 ◽  
Author(s):  
HONGNA ZHANG ◽  
ZHENZHEN ZHAI ◽  
QING LI ◽  
LINGHONG LIU ◽  
SHUYUAN GUO ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Sequence Type ◽  
Farm Workers ◽  
Enterobacterial Repetitive Intergenic Consensus ◽  
E Coli ◽  
Extended Spectrum ◽  
Rectal Swabs ◽  
Pig Farm ◽  
Sequence Types

ABSTRACT Food-producing animals can serve as reservoirs for extended-spectrum β-lactamase (ESBL)–producing Escherichia coli. The present study aimed to characterize and compare ESBL-carrying E. coli isolates from both pigs and farm workers. Rectal swabs were obtained from 60 pigs on four pig-fattening farms (15 samples per farm), and rectal swabs were taken from 40 farm workers on these farms (10 samples per farm). ESBL-carrying E. coli isolates from the workers and pigs were characterized by ESBL genotype, antibiotic susceptibility, enterobacterial repetitive intergenic consensus type, and multilocus sequence type. ESBL-producing E. coli was detected in 34 (56.7%) of 60 pigs, and 20.0% (8 of 40) of the farm workers were positive for ESBL-producing E. coli. More importantly, ESBL-producing E. coli isolates with the same β-lactamase genes, antibiotic resistance profiles, enterobacterial repetitive intergenic consensus types, and multilocus sequence types were detected in both pigs and workers on the same pig farm. These findings were suggestive for transfer of ESBL-producing E. coli between animals and humans.

scholarly journals mcr-1.2, a NewmcrVariant Carried on a Transferable Plasmid from a Colistin-Resistant KPC Carbapenemase-Producing Klebsiella pneumoniae Strain of Sequence Type 512

2016 ◽  
Vol 60 (9) ◽  
pp. 5612-5615 ◽  
Author(s):  
Vincenzo Di Pilato ◽  
Fabio Arena ◽  
Carlo Tascini ◽  
Antonio Cannatelli ◽  
Lucia Henrici De Angelis ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
South Africa ◽  
Klebsiella Pneumoniae ◽  
Rectal Swab ◽  
Sequence Type ◽  
Content Type ◽  
Functional Variant ◽  
Leukemic Child

ABSTRACTA novelmcrvariant, namedmcr-1.2, encoding a Gln3-to-Leu functional variant of MCR-1, was detected in a KPC-3-producing ST512Klebsiella pneumoniaeisolate collected in Italy from a surveillance rectal swab from a leukemic child. Themcr-1.2gene was carried on a transferable IncX4 plasmid whose structure was very similar to that ofmcr-1-bearing plasmids previously found inEscherichia coliandK. pneumoniaestrains from geographically distant sites (Estonia, China, and South Africa).

scholarly journals blaNDM-5-Bearing IncFII-Type Plasmids of Klebsiella pneumoniae Sequence Type 147 Transmitted by Cross-Border Transfer of a Patient

2016 ◽  
Vol 60 (3) ◽  
pp. 1932-1934 ◽  
Author(s):  
Juyoun Shin ◽  
Jin Yang Baek ◽  
Sun Young Cho ◽  
Hee Jae Huh ◽  
Nam Yong Lee ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Klebsiella Pneumoniae ◽  
South Korea ◽  
United Arab Emirates ◽  
Sequence Type ◽  
Content Type ◽  
Korean Patient ◽  
Cross Border ◽  
Genetic Structures

The two plasmids extracted fromKlebsiella pneumoniaesequence type 147 (ST147) isolates were analyzed. The first isolate was obtained from a patient transferred from United Arab Emirates to South Korea. The second isolate was obtained from a Korean patient and was suspected to be transmitted from the first patient. Sequences of two plasmids were almost the same, and genetic structures, includingblaNDM-5, of these plasmids were similar to plasmids of NDM-1-producingEscherichia coliST131 isolates found in Europe.

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