Genomic confirmation of vancomycin-resistant Enterococcus transmission from deceased donor to liver transplant recipient

被引：12

作者：

Bashir, Ali ^{[1
]}

Attie, Oliver ^{[1
]}

Sullivan, Mitchell ^{[1
]}

Sebra, Robert ^{[1
]}

Singh, Kavindra V. ^{[2
]}

Altman, Deena ^{[3
]}

Pak, Theodore ^{[1
]}

Dutta, Jayeeta ^{[1
]}

Chacko, Kieran ^{[1
]}

Webster, Elizabeth ^{[1
]}

Lewis, Martha ^{[1
]}

Hamula, Camille ^{[4
]}

Delli Carpini, Kristin W. ^{[5
]}

Murray, Barbara E. ^{[2
]}

Kasarskis, Andrew ^{[1
]}

van Bakel, Harm ^{[1
]}

Huprikar, Shirish ^{[3
]}

机构：

[1] Icahn Sch Med Mt Sinai, Inst & Dept Genet & Genom Sci, New York, NY 10029 USA

[2] Univ Texas Med Sch, Div Infect Dis, Dept Med, Houston, TX USA

[3] Icahn Sch Med Mt Sinai, Dept Med, Div Infect Dis, New York, NY 10029 USA

[4] Icahn Sch Med, Dept Pathol, New York, NY USA

[5] LiveOnNY, New York, NY USA

来源：

PLOS ONE | 2017年 / 12卷 / 03期

关键词：

MOLECULAR EPIDEMIOLOGY; ALIGNMENT; INFECTIONS; ASSEMBLIES; SEQUENCE;

D O I：

10.1371/journal.pone.0170449

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

In a liver transplant recipient with vancomycin-resistant Enterococcus (VRE) surgical site and bloodstream infection, a combination of pulsed-field gel electrophoresis, multilocus sequence typing, and whole genome sequencing identified that donor and recipient VRE isolates were highly similar when compared to time-matched hospital isolates. Comparison of de novo assembled isolate genomes was highly suggestive of transplant transmission rather than hospital-acquired transmission and also identified subtle internal rearrangements between donor and recipient missed by other genomic approaches. Given the improved resolution, whole-genome assembly of pathogen genomes is likely to become an essential tool for investigation of potential organ transplant transmissions.

引用

页数：10

共 35 条

[1]

[Anonymous], CURR PROTOC BIOINFOR

[2]

[Anonymous], AM J TRANSPLANT

[3] SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing [J].

Bankevich, Anton ;

Nurk, Sergey ;

Antipov, Dmitry ;

Gurevich, Alexey A. ;

Dvorkin, Mikhail ;

Kulikov, Alexander S. ;

Lesin, Valery M. ;

Nikolenko, Sergey I. ;

Son Pham ;

Prjibelski, Andrey D. ;

Pyshkin, Alexey V. ;

Sirotkin, Alexander V. ;

Vyahhi, Nikolay ;

Tesler, Glenn ;

Alekseyev, Max A. ;

Pevzner, Pavel A. .

JOURNAL OF COMPUTATIONAL BIOLOGY, 2012, 19 (05) :455-477

[4] A hybrid approach for the automated finishing of bacterial genomes [J].

Bashir, Ali ;

Klammer, Aaron A. ;

Robins, William P. ;

Chin, Chen-Shan ;

Webster, Dale ;

Paxinos, Ellen ;

Hsu, David ;

Ashby, Meredith ;

Wang, Susana ;

Peluso, Paul ;

Sebra, Robert ;

Sorenson, Jon ;

Bullard, James ;

Yen, Jackie ;

Valdovino, Marie ;

Mollova, Emilia ;

Luong, Khai ;

Lin, Steven ;

Lamay, Brianna ;

Joshi, Amruta ;

Rowe, Lori ;

Frace, Michael ;

Tarr, Cheryl L. ;

Turnsek, Maryann ;

Davis, Brigid M. ;

Kasarskis, Andrew ;

Mekalanos, John J. ;

Waldor, Matthew K. ;

Schadt, Eric E. .

NATURE BIOTECHNOLOGY, 2012, 30 (07) :701-+

[5] A simple and robust statistical test for detecting the presence of recombination [J].

Bruen, TC ;

Philippe, H ;

Bryant, D .

GENETICS, 2006, 172 (04) :2665-2681

[6] BLAST plus : architecture and applications [J].

Camacho, Christiam ;

Coulouris, George ;

Avagyan, Vahram ;

Ma, Ning ;

Papadopoulos, Jason ;

Bealer, Kevin ;

Madden, Thomas L. .

BMC BIOINFORMATICS, 2009, 10

[7]

Chin CS, 2013, NAT METHODS, V10, P563, DOI [10.1038/nmeth.2474, 10.1038/NMETH.2474]

[8] A newly described vancomycin-resistant ST412 Enterococcus faecium predominant in Greek hospitals [J].

Damani, A. ;

Klapsa, D. ;

Panopoulou, M. ;

Spiliopoulou, I. ;

Pantelidi, K. ;

Malli, E. ;

Kolonitsiou, F. ;

Grapsa, S. ;

Alepopoulou, E. ;

Frantzidou, F. ;

Vlahaki, E. ;

Koutsia-Carouzou, C. ;

Malamou-Lada, H. ;

Zerva, L. ;

Kartali-Ktenidou, S. ;

Anastassiou, E. D. ;

Maniatis, A. N. ;

Petinaki, E. .

EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES, 2010, 29 (03) :329-331

[9] Mauve: Multiple alignment of conserved genomic sequence with rearrangements [J].

Darling, ACE ;

Mau, B ;

Blattner, FR ;

Perna, NT .

GENOME RESEARCH, 2004, 14 (07) :1394-1403

[10] Microevolutionary analysis of Clostridium difficile genomes to investigate transmission [J].

Didelot, Xavier ;

Eyre, David W. ;

Cule, Madeleine ;

Ip, Camilla L. C. ;

Ansari, M. Azim ;

Griffiths, David ;

Vaughan, Alison ;

O'Connor, Lily ;

Golubchik, Tanya ;

Batty, Elizabeth M. ;

Piazza, Paolo ;

Wilson, Daniel J. ;

Bowden, Rory ;

Donnelly, Peter J. ;

Dingle, Kate E. ;

Wilcox, Mark ;

Walker, A. Sarah ;

Crook, Derrick W. ;

Peto, Tim E. A. ;

Harding, Rosalind M. .

GENOME BIOLOGY, 2012, 13 (12) :R118

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