Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment

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Fältnamn	Indikatorer	Metadata
000		07494naa a2201621 4500
001		oai:DiVA.org:su-183662
003		SwePub
008		200726s2020 \| \|\|\|\|\|\|\|\|\|\|\|000 \|\|eng\|
024	7	a https://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-1836622 URI
024	7	a https://doi.org/10.1038/s41591-020-0894-42 DOI
040		a (SwePub)su
041		a engb eng
042		9 SwePub
072	7	a ref2 swepub-contenttype
072	7	a art2 swepub-publicationtype
100	1	a Chng, Kern Rei4 aut
245	1 0	a Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment
264		c 2020-06-08
264	1	b Springer Science and Business Media LLC,c 2020
338		a print2 rdacarrier
520		a Although disinfection is key to infection control, the colonization patterns and resistomes of hospital-environment microbes remain underexplored. We report the first extensive genomic characterization of microbiomes, pathogens and antibiotic resistance cassettes in a tertiary-care hospital, from repeated sampling (up to 1.5 years apart) of 179 sites associated with 45 beds. Deep shotgun metagenomics unveiled distinct ecological niches of microbes and antibiotic resistance genes characterized by biofilm-forming and human-microbiome-influenced environments with corresponding patterns of spatiotemporal divergence. Quasi-metagenomics with nanopore sequencing provided thousands of high-contiguity genomes, phage and plasmid sequences (>60% novel), enabling characterization of resistome and mobilome diversity and dynamic architectures in hospital environments. Phylogenetics identified multidrug-resistant strains as being widely distributed and stably colonizing across sites. Comparisons with clinical isolates indicated that such microbes can persist in hospitals for extended periods (>8 years), to opportunistically infect patients. These findings highlight the importance of characterizing antibiotic resistance reservoirs in hospitals and establish the feasibility of systematic surveys to target resources for preventing infections. Spatiotemporal characterization of microbial diversity and antibiotic resistance in a tertiary-care hospital reveals broad distribution and persistence of antibiotic-resistant organisms that could cause opportunistic infections in a healthcare setting.
650	7	a NATURVETENSKAPx Biologi0 (SwePub)1062 hsv//swe
650	7	a NATURAL SCIENCESx Biological Sciences0 (SwePub)1062 hsv//eng
650	7	a MEDICIN OCH HÄLSOVETENSKAPx Klinisk medicinx Infektionsmedicin0 (SwePub)302092 hsv//swe
650	7	a MEDICAL AND HEALTH SCIENCESx Clinical Medicinex Infectious Medicine0 (SwePub)302092 hsv//eng
700	1	a Li, Chenhao4 aut
700	1	a Bertrand, Denis4 aut
700	1	a Ng, Amanda Hui Qi4 aut
700	1	a Kwah, Junmei Samantha4 aut
700	1	a Low, Hwee Meng4 aut
700	1	a Tong, Chengxuan4 aut
700	1	a Natrajan, Maanasa4 aut
700	1	a Zhang, Michael Hongjie4 aut
700	1	a Xu, Licheng4 aut
700	1	a Ko, Karrie Kwan Ki4 aut
700	1	a Ho, Eliza Xin Pei4 aut
700	1	a Av-Shalom, Tamar4 aut
700	1	a Teo, Jeanette Woon Pei4 aut
700	1	a Khor, Chiea Chuen4 aut
700	1	a Chen, Swaine L.4 aut
700	1	a Mason, Christopher E.4 aut
700	1	a Ng, Oon Tek4 aut
700	1	a Marimuthu, Kalisvar4 aut
700	1	a Ang, Brenda4 aut
700	1	a Nagarajan, Niranjan4 aut
700	1	a Danko, David4 aut
700	1	a Bezdan, Daniela4 aut
700	1	a Afshinnekoo, Ebrahim4 aut
700	1	a Ahsanuddin, Sofia4 aut
700	1	a Bhattacharya, Chandrima4 aut
700	1	a Butler, Daniel J.4 aut
700	1	a De Filippis, Francesca4 aut
700	1	a Hecht, Jochen4 aut
700	1	a Kahles, Andre4 aut
700	1	a Karasikov, Mikhail4 aut
700	1	a Kyrpides, Nikos C.4 aut
700	1	a Leung, Marcus H. Y.4 aut
700	1	a Meleshko, Dmitry4 aut
700	1	a Mustafa, Harun4 aut
700	1	a Mutai, Beth4 aut
700	1	a Neches, Russell Y.4 aut
700	1	a Ng, Amanda4 aut
700	1	a Nieto-Caballero, Marina4 aut
700	1	a Nikolayeva, Olga4 aut
700	1	a Nikolayeva, Tatyana4 aut
700	1	a Png, Eileen4 aut
700	1	a Sanchez, Jorge L.4 aut
700	1	a Shaaban, Heba4 aut
700	1	a Sierra, Maria A.4 aut
700	1	a Tong, Xinzhao4 aut
700	1	a Young, Ben4 aut
700	1	a Alicea, Josue4 aut
700	1	a Bhattacharyya, Malay4 aut
700	1	a Blekhman, Ran4 aut
700	1	a Castro-Nallar, Eduardo4 aut
700	1	a Canas, Ana M.4 aut
700	1	a Chatziefthimiou, Aspassia D.4 aut
700	1	a Crawford, Robert W.4 aut
700	1	a Deng, Youping4 aut
700	1	a Desnues, Christelle4 aut
700	1	a Dias-Neto, Emmanuel4 aut
700	1	a Donnellan, Daisy4 aut
700	1	a Dybwad, Marius4 aut
700	1	a Elhaik, Eran4 aut
700	1	a Ercolini, Danilo4 aut
700	1	a Frolova, Alina4 aut
700	1	a Graf, Alexandra B.4 aut
700	1	a Green, David C.4 aut
700	1	a Hajirasouliha, Iman4 aut
700	1	a Hernandez, Mark4 aut
700	1	a Iraola, Gregorio4 aut
700	1	a Jang, Soojin4 aut
700	1	a Jones, Angela4 aut
700	1	a Kelly, Frank J.4 aut
700	1	a Knights, Kaymisha4 aut
700	1	a Labaj, Pawel P.4 aut
700	1	a Lee, Patrick K. H.4 aut
700	1	a Shawn, Levy4 aut
700	1	a Ljungdahl, Peru Stockholms universitet,Institutionen för molekylär biovetenskap, Wenner-Grens institut4 aut0 (Swepub:su)pelju
700	1	a Lyons, Abigail4 aut
700	1	a Mason-Buck, Gabriella4 aut
700	1	a McGrath, Ken4 aut
700	1	a Mongodin, Emmanuel F.4 aut
700	1	a Moraes, Milton Ozorio4 aut
700	1	a Noushmehr, Houtan4 aut
700	1	a Oliveira, Manuela4 aut
700	1	a Ossowski, Stephan4 aut
700	1	a Osuolale, Olayinka O.4 aut
700	1	a Ozcan, Orhan4 aut
700	1	a Paez-Espino, David4 aut
700	1	a Rascovan, Nicolas4 aut
700	1	a Richard, Hugues4 aut
700	1	a Raetsch, Gunnar4 aut
700	1	a Schriml, Lynn M.4 aut
700	1	a Semmler, Torsten4 aut
700	1	a Sezerman, Osman U.4 aut
700	1	a Shi, Leming4 aut
700	1	a Song, Le Huu4 aut
700	1	a Suzuki, Haruo4 aut
700	1	a Court, Denise Syndercombe4 aut
700	1	a Thomas, Dominique4 aut
700	1	a Tighe, Scott W.4 aut
700	1	a Udekwu, Klasu Stockholms universitet,Institutionen för molekylär biovetenskap, Wenner-Grens institut4 aut0 (Swepub:su)kudek
700	1	a Ugalde, Juan A.4 aut
700	1	a Valentine, Brandon4 aut
700	1	a Vassilev, Dimitar4 aut
700	1	a Vayndorf, Elena4 aut
700	1	a Velavan, Thirumalaisamy P.4 aut
700	1	a Zambrano, Maria M.4 aut
700	1	a Zhu, Jifeng4 aut
700	1	a Zhu, Sibo4 aut
700	1	a Mason, Christopher E.4 aut
710	2	a Stockholms universitetb Institutionen för molekylär biovetenskap, Wenner-Grens institut4 org
773	0	t Nature Medicined : Springer Science and Business Media LLCg 26, s. 941-951q 26<941-951x 1078-8956x 1546-170X
856	4	u https://doi.org/10.1038/s41591-020-0894-4y Fulltext
856	4	u https://www.nature.com/articles/s41591-020-0894-4.pdf
856	4 8	u https://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-183662
856	4 8	u https://doi.org/10.1038/s41591-020-0894-4

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Av författaren/redakt...: Chng, Kern Rei; Li, Chenhao; Bertrand, Denis; Ng, Amanda Hui Q ...; Kwah, Junmei Sam ...; Low, Hwee Meng; visa fler...; Tong, Chengxuan; Natrajan, Maanas ...; Zhang, Michael H ...; Xu, Licheng; Ko, Karrie Kwan ...; Ho, Eliza Xin Pe ...; Av-Shalom, Tamar; Teo, Jeanette Wo ...; Khor, Chiea Chue ...; Chen, Swaine L.; Mason, Christoph ...; Ng, Oon Tek; Marimuthu, Kalis ...; Ang, Brenda; Nagarajan, Niran ...; Danko, David; Bezdan, Daniela; Afshinnekoo, Ebr ...; Ahsanuddin, Sofi ...; Bhattacharya, Ch ...; Butler, Daniel J ...; De Filippis, Fra ...; Hecht, Jochen; Kahles, Andre; Karasikov, Mikha ...; Kyrpides, Nikos ...; Leung, Marcus H. ...; Meleshko, Dmitry; Mustafa, Harun; Mutai, Beth; Neches, Russell ...; Ng, Amanda; Nieto-Caballero, ...; Nikolayeva, Olga; Nikolayeva, Taty ...; Png, Eileen; Sanchez, Jorge L ...; Shaaban, Heba; Sierra, Maria A.; Tong, Xinzhao; Young, Ben; Alicea, Josue; Bhattacharyya, M ...; Blekhman, Ran; Castro-Nallar, E ...; Canas, Ana M.; Chatziefthimiou, ...; Crawford, Robert ...; Deng, Youping; Desnues, Christe ...; Dias-Neto, Emman ...; Donnellan, Daisy; Dybwad, Marius; Elhaik, Eran; Ercolini, Danilo; Frolova, Alina; Graf, Alexandra ...; Green, David C.; Hajirasouliha, I ...; Hernandez, Mark; Iraola, Gregorio; Jang, Soojin; Jones, Angela; Kelly, Frank J.; Knights, Kaymish ...; Labaj, Pawel P.; Lee, Patrick K. ...; Shawn, Levy; Ljungdahl, Per; Lyons, Abigail; Mason-Buck, Gabr ...; McGrath, Ken; Mongodin, Emmanu ...; Moraes, Milton O ...; Noushmehr, Houta ...; Oliveira, Manuel ...; Ossowski, Stepha ...; Osuolale, Olayin ...; Ozcan, Orhan; Paez-Espino, Dav ...; Rascovan, Nicola ...; Richard, Hugues; Raetsch, Gunnar; Schriml, Lynn M.; Semmler, Torsten; Sezerman, Osman ...; Shi, Leming; Song, Le Huu; Suzuki, Haruo; Court, Denise Sy ...; Thomas, Dominiqu ...; Tighe, Scott W.; Udekwu, Klas; Ugalde, Juan A.; Valentine, Brand ...; Vassilev, Dimita ...; Vayndorf, Elena; Velavan, Thiruma ...; Zambrano, Maria ...; Zhu, Jifeng; Zhu, Sibo; visa färre...

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