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Commun., 448, 349, 10.1016\u002Fj.bbrc.2014.04.158",{"doi":1752},"10.1016\u002Fj.bbrc.2014.04.158",{"id":22,"text":1754,"url":22,"identifiers":1755},"Vandeputte, 2012, Antifungal resistance and new strategies to control fungal infections., Int. J. Microbiol., 2012, 10.1155\u002F2012\u002F713687",{"doi":1756},"10.1155\u002F2012\u002F713687",{"id":22,"text":1758,"url":22,"identifiers":1759},"Wang, 2015, Antimicrobial peptide protonectin disturbs the membrane integrity and induces ROS production in yeast cells., Biochim. Biophys. Acta, 1848, 2365, 10.1016\u002Fj.bbamem.2015.07.008",{"doi":1760},"10.1016\u002Fj.bbamem.2015.07.008",{"id":22,"text":1762,"url":22,"identifiers":1763},"Wang, 2012, A novel chitinase isolated from Vicia faba and its antifungal activity., Food Res. Int., 45, 116, 10.1016\u002Fj.foodres.2011.10.010",{"doi":1764},"10.1016\u002Fj.foodres.2011.10.010",{"id":22,"text":1766,"url":22,"identifiers":1767},"Wong, 2010, Proteins with antifungal properties and other medicinal applications from plants and mushrooms., Appl. Microbiol. Biotechnol., 87, 1221, 10.1007\u002Fs00253-010-2690-4",{"doi":1768},"10.1007\u002Fs00253-010-2690-4",{"id":22,"text":1770,"url":22,"identifiers":1771},"2015, World Antibiotic Awareness Week.",{},{"id":22,"text":1773,"url":22,"identifiers":1774},"Youle, 1981, Occurrence of low molecular weight and high cysteine containing albumin storage protein in oilseeds of diverse species., Am. J. Bot., 68, 44, 10.2307\u002F2442990",{"doi":1775},"10.2307\u002F2442990",{"id":22,"text":1777,"url":22,"identifiers":1778},"Zacharius, 1969, Glycoprotein staining following electrophoresis on acrylamide gels., Anal. Biochem., 30, 148, 10.1016\u002F0003-2697(69)90383-2",{"doi":1779},"10.1016\u002F0003-2697(69)90383-2",{"id":22,"text":1781,"url":22,"identifiers":1782},"Zhang, 2014, Fluconazole resistance patterns in Candida species that colonize women with HIV infection., Curr. Ther. Res., 76, 84, 10.1016\u002Fj.curtheres.2014.07.002",{"doi":1783},"10.1016\u002Fj.curtheres.2014.07.002",{"id":1785,"createTime":1786,"updateTime":1786,"relativeEntities":1787,"slug":1788,"properties":1789,"entityType":131,"verifyStatus":132,"verifyTime":1786,"verifyNote":133,"syncStatus":21,"languages":1801,"translateLanguages":22,"viewCount":23,"primaryUrl":1802,"fullTextUrl":22,"authors":1803,"publicationType":208,"publisherRelationship":1864,"citationCount":1214,"citationInfo":1897,"publishDate":22,"publishYear":22,"citationAnalyzeStatus":21,"lastCitationAnalyze":22,"indexDatabases":22,"openAccess":22,"references":1899,"isForceReanalyzing":909},"e8239ef4-636f-4251-9015-30f98504eaa6","2024-10-13T23:29:54.546+00:00",[],"Plants-Dictate-Root-Microbial-Composition-in-Hydroponics-and-Aquaponics",{"keywords":1790,"openalex":1791,"abstract":1793,"title":1795,"pm":1797,"doi":1799},{},{"VOID":1792},"W4223906037",{"EN":1794},"\u003Cjats:p>The role of the microbial community in mediating fish and plant co-culture is often considered the black box of aquaponics. Despite widespread recognition regarding the dependency of plants on their rhizosphere, the extent to which upstream aquaculture influences downstream hydroponic root communities has been poorly described in the literature. In this study we performed a taxonomic survey (16S rRNA metabarcoding) of microbial communities originating in the facility water source, hydroponic nutrient solution (HNS) sump, nutrient supplemented biofilter effluent (BF) sump, and recirculating aquaculture system tanks stocked with Nile tilapia (\u003Cjats:italic>Oreochromis niloticus\u003C\u002Fjats:italic>). Lettuce (\u003Cjats:italic>Lactuca sativa\u003C\u002Fjats:italic>) was then grown using the HNS and BF effluent under sterilized or mature (prior aquaponics\u002Fhydroponics lettuce culture water) conditions, likewise, the influence of probiotic addition or inoculation with soil-grown lettuce rhizosphere was assessed. Compositional similarities across treatments suggest that under soil-less conditions, plants are able to exert a stronger discriminatory influence on their rhizosphere composition than is done by colonization from upstream sources. Furthermore, cluster dendrograms grouped the sterilized and unsterilized treatments more consistently together than hydroponics and aquaponics treatments. These findings contradict conventional beliefs that microbial communities in the water column colonize roots based on their presence alone, ignoring the role that plants play in rhizosphere community selection.\u003C\u002Fjats:p>",{"EN":1796},"Plants Dictate Root Microbial Composition in Hydroponics and Aquaponics",{"VOID":1798},"35509321",{"VOID":1800},"10.3389\u002Ffmicb.2022.848057",[135],"https:\u002F\u002Fwww.frontiersin.org\u002Farticles\u002F10.3389\u002Ffmicb.2022.848057\u002Ffull",[1804,1826,1843],{"id":1805,"sortIndex":97,"researcher":22,"roles":1806,"affiliations":1807,"properties":1819},"26062060-7df1-438c-95b4-67414885ab5e",[],[1808],{"id":1809,"sortIndex":23,"affiliation":1810,"properties":22},"7d142125-1346-487e-9416-629a609017b3",{"id":1811,"createTime":1812,"updateTime":1813,"relativeEntities":1814,"slug":1815,"properties":1816,"entityType":51,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23},"b67a6bc4-27f2-4682-8711-6cfbb7941e58","2024-01-11T13:51:24.643+00:00","2024-10-13T23:29:54.569+00:00",[],"Department-of-Marine-Sciences-University-of-Gothenburg-Sweden",{"title":1817},{"VI":1818},"Department of Marine Sciences, University of Gothenburg, Sweden",{"openalex":1820,"orcid":1822,"title":1824},{"VOID":1821},"A5014959926",{"VOID":1823},"https:\u002F\u002Forcid.org\u002F0000-0001-5663-3286",{"EN":1825},"Alyssa Joyce",{"id":1827,"sortIndex":23,"researcher":22,"roles":1828,"affiliations":1829,"properties":1836},"089c9c69-5bb1-4021-9b2a-622b8da201ec",[],[1830],{"id":1831,"sortIndex":23,"affiliation":1832,"properties":22},"d086b054-7df7-479b-83f1-f481264455f8",{"id":1811,"createTime":1812,"updateTime":1813,"relativeEntities":1833,"slug":1815,"properties":1834,"entityType":51,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23},[],{"title":1835},{"VI":1818},{"openalex":1837,"orcid":1839,"title":1841},{"VOID":1838},"A5085698939",{"VOID":1840},"https:\u002F\u002Forcid.org\u002F0000-0002-8448-4465",{"EN":1842},"Victor Lobanov",{"id":1844,"sortIndex":99,"researcher":22,"roles":1845,"affiliations":1846,"properties":1857},"d88ea141-81d7-4b44-8415-e6ec4bc0ee6b",[],[1847],{"id":1848,"sortIndex":23,"affiliation":1849,"properties":22},"e0552144-04b0-4488-8c91-53304d9d4346",{"id":1850,"createTime":1851,"updateTime":1851,"relativeEntities":1852,"slug":1853,"properties":1854,"entityType":51,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23},"6328b2e6-f55e-40fb-9ce3-425aa33b7659","2024-10-13T23:29:54.581+00:00",[],"Mathematical-and-Statistical-Methods-Group-Biometris-Wageningen-University-Research-Netherlands",{"title":1855},{"EN":1856},"Mathematical and Statistical Methods Group – Biometris, Wageningen University & Research, Netherlands",{"openalex":1858,"orcid":1860,"title":1862},{"VOID":1859},"A5016277575",{"VOID":1861},"https:\u002F\u002Forcid.org\u002F0000-0003-4505-8663",{"EN":1863},"Karel J. Keesman",{"url":22,"publisher":1865,"properties":1894},{"id":6,"createTime":7,"updateTime":8,"relativeEntities":1866,"slug":10,"properties":1867,"entityType":20,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23,"subjectFields":1872,"manageAffiliations":1873,"indexDatabases":1874,"url":94,"thumbnailPath":22,"statistic":1889,"gsStatistic":22,"type":22,"analyzePriority":22},[],{"country":1868,"issn":1869,"introduce":1870,"title":1871},{"VOID":13},{"VOID":15},{"EN":17},{"EN":19},[],[],[1875,1882],{"id":75,"indexDatabase":1876,"url":88,"indexYears":89,"academicFieldIds":1881,"indexDatabaseRanking":93},{"id":77,"createTime":78,"updateTime":79,"relativeEntities":1877,"label":1878,"description":1879,"key":85,"publicationTags":1880,"standard":22},[],{"EN":82,"VI":82},{"EN":82,"VI":84},[87],[91,92],{"id":56,"indexDatabase":1883,"url":71,"indexYears":22,"academicFieldIds":1888,"indexDatabaseRanking":22},{"id":58,"createTime":59,"updateTime":60,"relativeEntities":1884,"label":1885,"description":1886,"key":67,"publicationTags":1887,"standard":22},[],{"EN":63,"VI":63},{"VI":65,"EN":66},[69,70],[73],{"impactFactor":23,"impactFactorByYear":1890,"i10Index":99,"i10IndexLast5Year":23,"totalPublication":98,"totalPublicationByYear":1891,"totalCitation":101,"totalCitationByYear":1892,"totalCitationPerPublication":105,"totalCitationPerPublicationByYear":1893,"hindexLast5Year":98,"hindex":98},{"2021":97,"2022":98,"2023":98},{"2017":99,"2019":99,"2021":99},{"2017":103,"2019":98,"2021":104},{"2017":103,"2019":98,"2021":104},{"volume":1895},{"VOID":1896},"13",{"total":1214,"publishYear":22,"statisticByYear":1898},{"2022":97,"2023":97,"2024":98},[1900,1904,1908,1912,1916,1920,1924,1928,1932,1936,1940,1944,1948,1952,1956,1960,1964,1968,1972,1976,1980,1984,1987,1990,1993,1996,2000,2004,2008,2012,2016,2020,2024,2028,2032,2035,2039,2043,2047,2051,2055,2058,2062,2066,2070,2074,2077,2081,2085,2089,2093,2097,2101,2104,2108,2112,2116,2120,2124,2127,2131,2135,2139,2143,2147,2151,2155,2159,2163,2167,2171,2175,2179,2183,2187,2191,2195,2199,2203,2207],{"id":22,"text":1901,"url":22,"identifiers":1902},"Ayipio, 2019, Comparisons between aquaponic and conventional hydroponic crop yields: a meta-analysis., Sustainability, 11, 10.3390\u002Fsu11226511",{"doi":1903},"10.3390\u002Fsu11226511",{"id":22,"text":1905,"url":22,"identifiers":1906},"Badri, 2009, Regulation and function of root exudates., Plant Cell Environ., 32, 666, 10.1111\u002Fj.1365-3040.2008.01926.x",{"doi":1907},"10.1111\u002Fj.1365-3040.2008.01926.x",{"id":22,"text":1909,"url":22,"identifiers":1910},"Bartelme, 2017, Freshwater recirculating aquaculture system operations drive biofilter bacterial community shifts around a stable nitrifying consortium of ammonia-oxidizing archaea and comammox nitrospira., Front. 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Aquaponics Food Production Systems., 201",{},{"id":22,"text":1997,"url":22,"identifiers":1998},"Goddek, 2018, The necessity of desalination technology for designing and sizing multi-loop aquaponics systems., Desalination, 428, 76, 10.1016\u002Fj.desal.2017.11.024",{"doi":1999},"10.1016\u002Fj.desal.2017.11.024",{"id":22,"text":2001,"url":22,"identifiers":2002},"Goddek, 2019, A fully integrated simulation model of multi-loop aquaponics: a case study for system sizing in different environments., Agr. Syst., 171, 143, 10.1016\u002Fj.agsy.2019.01.010",{"doi":2003},"10.1016\u002Fj.agsy.2019.01.010",{"id":22,"text":2005,"url":22,"identifiers":2006},"Goddek, 2018, Comparison of Lactuca sativa growth performance in conventional and RAS-based hydroponic systems., Aquac. 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Eng., 42, 371, 10.1080\u002F01919512.2019.1695580",{"doi":2206},"10.1080\u002F01919512.2019.1695580",{"id":22,"text":2208,"url":22,"identifiers":2209},"Zielińska, 2018, Start-up of a one-stage biofilm reactor for the removal of nitrogen from digester supernatant in the partial nitrification-anammox process., Rocznik Ochrona środowiska, 20, 241",{},{"id":2211,"createTime":2212,"updateTime":2212,"relativeEntities":2213,"slug":2214,"properties":2215,"entityType":131,"verifyStatus":132,"verifyTime":2227,"verifyNote":133,"syncStatus":21,"languages":2228,"translateLanguages":22,"viewCount":23,"primaryUrl":2229,"fullTextUrl":22,"authors":2230,"publicationType":208,"publisherRelationship":2273,"citationCount":1214,"citationInfo":2305,"publishDate":22,"publishYear":22,"citationAnalyzeStatus":21,"lastCitationAnalyze":22,"indexDatabases":22,"openAccess":22,"references":2307,"isForceReanalyzing":909},"d0e619cc-2445-4d1f-ae80-f7497d9fb073","2024-10-13T23:29:51.420+00:00",[],"Microbial-Community-Analysis-and-Food-Safety-Practice-Survey-Based-Hazard-Identification-and-Risk-Assessment-for-Controlled-Environment-Hydroponic-Aquaponic-Farming-Systems",{"keywords":2216,"openalex":2217,"abstract":2219,"title":2221,"pm":2223,"doi":2225},{},{"VOID":2218},"W4280573918",{"EN":2220},"\u003Cjats:p>Hydroponic and aquaponic farming is becoming increasingly popular as a solution to address global food security. Plants in hydroponic systems are grown hydroponically under controlled environments and are considered to have fewer food safety concerns than traditional field farming. However, hydroponics and aquaponics might have very different sources of microbial food safety risks that remain under-examined. In this study, we investigated the microbiomes, microbial hazards, and potential bacterial transmission routes inside two commercial hydroponic and aquaponic farming systems using 16S-ITS-23S rRNA sequencing and a hydroponic food safety practice survey. The hydroponic farming system microbiome was analyzed from the fresh produce, nutrient solution, tools, and farmworkers. Proteobacteria, Actinobacteria, Cyanobacteria, Bacteroidetes, and Firmicutes were the main components of hydroponic\u002Faquaponic farming systems, with \u003Cjats:italic>Pseudomonas\u003C\u002Fjats:italic> being the most abundant genus in fresh produce samples. We further identified the presence of multiple spoilage bacteria and potential human, plant, and fish pathogens at the subspecies level. Spoilage \u003Cjats:italic>Pseudomonas\u003C\u002Fjats:italic> spp. and spoilage \u003Cjats:italic>Clostridium\u003C\u002Fjats:italic> spp. were abundant in the hydroponic microgreen farm and aquaponic lettuce farm, respectively. Moreover, we demonstrated the mapping of \u003Cjats:italic>Escherichia coli\u003C\u002Fjats:italic> 16s-ITS-23s rRNA sequence reads (∼2,500 bp) to small or large subunit rRNA databases and whole-genome databases to confirm pathogenicity and showed the potential of using 16s-ITS-23s rRNA sequencing for pathogen identification. With the SourceTracker and overlapping amplicon sequence variants, we predicted the bidirectional transmission route between plants and the surrounding environment and constructed the bacteria transmission map, which can be implemented in future food safety risk control plans.\u003C\u002Fjats:p>",{"EN":2222},"Microbial Community Analysis and Food Safety Practice Survey-Based Hazard Identification and Risk Assessment for Controlled Environment Hydroponic\u002FAquaponic Farming Systems",{"VOID":2224},"35663856",{"VOID":2226},"10.3389\u002Ffmicb.2022.879260","2024-10-13T23:29:51.419+00:00",[135],"https:\u002F\u002Fwww.frontiersin.org\u002Farticles\u002F10.3389\u002Ffmicb.2022.879260\u002Ffull",[2231,2256],{"id":2232,"sortIndex":99,"researcher":22,"roles":2233,"affiliations":2234,"properties":2249},"58b85482-1b49-4953-9540-37cc57cfdf59",[],[2235],{"id":2236,"sortIndex":23,"affiliation":2237,"properties":2246},"346bdcdc-3251-4ca9-a8ab-ec0b5091d4ec",{"id":2238,"createTime":2239,"updateTime":2240,"relativeEntities":2241,"slug":2242,"properties":2243,"entityType":51,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23},"95e8cbc2-fd20-477e-a1b7-2a134ea4dd9a","2024-01-09T10:34:25.681+00:00","2024-12-25T19:40:17.103+00:00",[],"Department-of-Food-Science-and-Human-Nutrition-University-of-Illinois-at-Urbana-Champaign-Urbana-IL-USA",{"title":2244},{"VI":2245},"Department of Food Science and Human Nutrition, University of Illinois at Urbana-Champaign, Urbana, IL, USA",{"title":2247},{"EN":2248},"Department of Food Science and Human Nutrition, University of Illinois at Urbana-Champaign, Urbana, IL, United States",{"openalex":2250,"orcid":2252,"title":2254},{"VOID":2251},"A5100740862",{"VOID":2253},"https:\u002F\u002Forcid.org\u002F0000-0002-1703-2194",{"EN":2255},"Hao Feng",{"id":2257,"sortIndex":23,"researcher":22,"roles":2258,"affiliations":2259,"properties":2268},"98f5ff19-7ca4-405e-b407-36c00e7be9d4",[],[2260],{"id":2261,"sortIndex":23,"affiliation":2262,"properties":2266},"8d7a3ebf-ee3d-4c1d-9aa6-7cc9ec0c1aeb",{"id":2238,"createTime":2239,"updateTime":2240,"relativeEntities":2263,"slug":2242,"properties":2264,"entityType":51,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23},[],{"title":2265},{"VI":2245},{"title":2267},{"EN":2248},{"openalex":2269,"title":2271},{"VOID":2270},"A5000122749",{"EN":2272},"Mei Dong",{"url":22,"publisher":2274,"properties":2303},{"id":6,"createTime":7,"updateTime":8,"relativeEntities":2275,"slug":10,"properties":2276,"entityType":20,"verifyStatus":21,"verifyTime":22,"verifyNote":22,"syncStatus":21,"languages":22,"translateLanguages":22,"viewCount":23,"subjectFields":2281,"manageAffiliations":2282,"indexDatabases":2283,"url":94,"thumbnailPath":22,"statistic":2298,"gsStatistic":22,"type":22,"analyzePriority":22},[],{"country":2277,"issn":2278,"introduce":2279,"title":2280},{"VOID":13},{"VOID":15},{"EN":17},{"EN":19},[],[],[2284,2291],{"id":75,"indexDatabase":2285,"url":88,"indexYears":89,"academicFieldIds":2290,"indexDatabaseRanking":93},{"id":77,"createTime":78,"updateTime":79,"relativeEntities":2286,"label":2287,"description":2288,"key":85,"publicationTags":2289,"standard":22},[],{"EN":82,"VI":82},{"EN":82,"VI":84},[87],[91,92],{"id":56,"indexDatabase":2292,"url":71,"indexYears":22,"academicFieldIds":2297,"indexDatabaseRanking":22},{"id":58,"createTime":59,"updateTime":60,"relativeEntities":2293,"label":2294,"description":2295,"key":67,"publicationTags":2296,"standard":22},[],{"EN":63,"VI":63},{"VI":65,"EN":66},[69,70],[73],{"impactFactor":23,"impactFactorByYear":2299,"i10Index":99,"i10IndexLast5Year":23,"totalPublication":98,"totalPublicationByYear":2300,"totalCitation":101,"totalCitationByYear":2301,"totalCitationPerPublication":105,"totalCitationPerPublicationByYear":2302,"hindexLast5Year":98,"hindex":98},{"2021":97,"2022":98,"2023":98},{"2017":99,"2019":99,"2021":99},{"2017":103,"2019":98,"2021":104},{"2017":103,"2019":98,"2021":104},{"volume":2304},{"VOID":1896},{"total":1214,"publishYear":22,"statisticByYear":2306},{"2023":52,"2024":98},[2308,2312,2316,2320,2324,2328,2332,2336,2340,2344,2347,2350,2353,2356,2360,2364,2368,2372,2375,2379,2383,2387,2391,2394,2398,2402,2405,2409,2413,2416,2420,2424,2428,2432,2436,2440,2444,2448,2452,2456,2460,2464,2468,2471,2475,2478,2482,2486,2490,2494,2498,2502,2506,2510,2513,2517,2520,2524,2527,2531,2534,2537,2541,2545,2549,2553,2557,2561,2565,2568,2572,2576,2580,2584,2587,2591,2594,2598,2602,2605,2609,2613,2617],{"id":22,"text":2309,"url":22,"identifiers":2310},"Allende, 2017, Quantitative contamination assessment of Escherichia coli in baby spinach primary production in Spain: effects of weather conditions and agricultural practices., Int. 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Microbiol., 303, 305, 10.1016\u002Fj.ijmm.2013.02.008",{"doi":3727},"10.1016\u002Fj.ijmm.2013.02.008",{"id":22,"text":3729,"url":22,"identifiers":3730},"Darch, 2015, Recombination is a key driver of genomic and phenotypic diversity in a Pseudomonas aeruginosa population during cystic fibrosis infection, Sci. Rep., 5, 7649, 10.1038\u002Fsrep07649",{"doi":3731},"10.1038\u002Fsrep07649",{"id":22,"text":3733,"url":22,"identifiers":3734},"Darling, 2010, ProgressiveMauve: multiple genome alignment with gene gain, loss and rearrangement, PLoS ONE, 5, e11147, 10.1371\u002Fjournal.pone.0011147",{"doi":3735},"10.1371\u002Fjournal.pone.0011147",{"id":22,"text":3737,"url":22,"identifiers":3738},"Dolejska, 2013, Plasmid content of a clinically relevant Klebsiella pneumoniae clone from the Czech Republic producing CTX-M-15 and QnrB1, Antimicrob. Agents Chemother., 57, 1073, 10.1128\u002FAAC.01886-12",{"doi":3739},"10.1128\u002FAAC.01886-12",{"id":22,"text":3741,"url":22,"identifiers":3742},"Filippa, 2013, Outbreak of multidrug-resistant Klebsiella pneumoniae carrying qnrB1 and blaCTX−M15 in a French intensive care unit, Ann. Intensive Care, 3, 18, 10.1186\u002F2110-5820-3-18",{"doi":3743},"10.1186\u002F2110-5820-3-18",{"id":22,"text":3745,"url":22,"identifiers":3746},"Hirai, 2013, Detection of chromosomal blaCTX−M−15 in Escherichia coli O25b-B2-ST131 isolates from the Kinki region of Japan, Int. J. Antimicrob. Agents, 42, 500, 10.1016\u002Fj.ijantimicag.2013.08.005",{"doi":3747},"10.1016\u002Fj.ijantimicag.2013.08.005",{"id":22,"text":3749,"url":22,"identifiers":3750},"Huang, 2013, Copy number change of the NDM-1 sequence in a multidrug-resistant Klebsiella pneumoniae clinical isolate, PLoS ONE, 8, e62774, 10.1371\u002Fjournal.pone.0062774",{"doi":3751},"10.1371\u002Fjournal.pone.0062774",{"id":22,"text":3753,"url":22,"identifiers":3754},"Lawley, 2003, F factor conjugation is a true type IV secretion system, FEMS Microbiol. Lett., 224, 1, 10.1016\u002FS0378-1097(03)00430-0",{"doi":3755},"10.1016\u002FS0378-1097(03)00430-0",{"id":22,"text":3757,"url":22,"identifiers":3758},"Lee, 2011, High prevalence of CTX-M-15-producing Klebsiella pneumoniae isolates in Asian countries: diverse clones and clonal dissemination, Int. J. Antimicrob. Agents, 38, 160, 10.1016\u002Fj.ijantimicag.2011.03.020",{"doi":3759},"10.1016\u002Fj.ijantimicag.2011.03.020",{"id":22,"text":3761,"url":22,"identifiers":3762},"Li, 2014, Molecular pathogenesis of Klebsiella pneumoniae, Future Microbiol., 9, 1071, 10.2217\u002Ffmb.14.48",{"doi":3763},"10.2217\u002Ffmb.14.48",{"id":22,"text":3765,"url":22,"identifiers":3766},"Livermore, 2007, CTX-M: changing the face of ESBLs in Europe, J. Antimicrob. Chemother., 59, 165, 10.1093\u002Fjac\u002Fdkl483",{"doi":3767},"10.1093\u002Fjac\u002Fdkl483",{"id":22,"text":3769,"url":22,"identifiers":3770},"Machado, 2006, Dissemination in Portugal of CTX-M-15-, OXA-1-, and TEM-1-producing Enterobacteriaceae strains containing the aac(6′)-Ib-cr gene, which encodes an aminoglycoside- and fluoroquinolone-modifying enzyme, Antimicrob. Agents Chemother., 50, 3220, 10.1128\u002FAAC.00473-06",{"doi":3771},"10.1128\u002FAAC.00473-06",{"id":22,"text":3773,"url":22,"identifiers":3774},"Mathers, 2015, The role of epidemic resistance plasmids and international high-risk clones in the spread of multidrug-resistant Enterobacteriaceae, Clin. Microbiol. Rev., 28, 565, 10.1128\u002FCMR.00116-14",{"doi":3775},"10.1128\u002FCMR.00116-14",{"id":22,"text":3777,"url":22,"identifiers":3778},"Ogawa, 2012, Functional study of the novel multidrug efflux pump KexD from Klebsiella pneumoniae, Gene, 498, 177, 10.1016\u002Fj.gene.2012.02.008",{"doi":3779},"10.1016\u002Fj.gene.2012.02.008",{"id":22,"text":3781,"url":22,"identifiers":3782},"Paterson, 2005, Extended-spectrum β-lactamases: a clinical update, Clin. Microbiol. Rev., 18, 657, 10.1128\u002FCMR.18.4.657-686.2005",{"doi":3783},"10.1128\u002FCMR.18.4.657-686.2005",{"id":22,"text":3785,"url":22,"identifiers":3786},"Peirano, 2010, Molecular epidemiology of Escherichia coli producing CTX-M β-lactamases: the worldwide emergence of clone ST131 O25:H4, Int. J. Antimicrob. Agents, 35, 316, 10.1016\u002Fj.ijantimicag.2009.11.003",{"doi":3787},"10.1016\u002Fj.ijantimicag.2009.11.003",{"id":22,"text":3789,"url":22,"identifiers":3790},"Pitout, 2008, Extended-spectrum beta-lactamase-producing Enterobacteriaceae: an emerging public-health concern, Lancet Infect. Dis., 8, 159, 10.1016\u002FS1473-3099(08)70041-0",{"doi":3791},"10.1016\u002FS1473-3099(08)70041-0",{"id":22,"text":3793,"url":22,"identifiers":3794},"Rodrigues, 2014, Expansion of ESBL-producing Klebsiella pneumoniae in hospitalized patients: a successful story of international clones (ST15, ST147, ST336) and epidemic plasmids (IncR, IncFIIK), Int. J. Med. Microbiol., 304, 1100, 10.1016\u002Fj.ijmm.2014.08.003",{"doi":3795},"10.1016\u002Fj.ijmm.2014.08.003",{"id":22,"text":3797,"url":22,"identifiers":3798},"Russell, 2014, Type VI secretion system effectors: poisons with a purpose, Nat. Rev. Microbiol., 12, 137, 10.1038\u002Fnrmicro3185",{"doi":3799},"10.1038\u002Fnrmicro3185",{"id":22,"text":3801,"url":22,"identifiers":3802},"Shon, 2013, Hypervirulent (hypermucoviscous) Klebsiella pneumoniae: a new and dangerous breed, Virulence, 4, 107, 10.4161\u002Fviru.22718",{"doi":3803},"10.4161\u002Fviru.22718",{"id":22,"text":3805,"url":22,"identifiers":3806},"Shu, 2009, Genetic diversity of capsular polysaccharide biosynthesis in Klebsiella pneumoniae clinical isolates, Microbiology, 155, 4170, 10.1099\u002Fmic.0.029017-0",{"doi":3807},"10.1099\u002Fmic.0.029017-0",{"id":22,"text":3809,"url":22,"identifiers":3810},"Snitkin, 2012, Tracking a hospital outbreak of carbapenem-resistant Klebsiella pneumoniae with whole-genome sequencing, Sci. Transl. Med., 4, 148ra116, 10.1126\u002Fscitranslmed.3004129",{"doi":3811},"10.1126\u002Fscitranslmed.3004129",{"id":22,"text":3813,"url":22,"identifiers":3814},"Stamatakis, 2006, RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models, Bioinformatics, 22, 2688, 10.1093\u002Fbioinformatics\u002Fbtl446",{"doi":3815},"10.1093\u002Fbioinformatics\u002Fbtl446",{"id":22,"text":3817,"url":22,"identifiers":3818},"Tal Jasper, 2015, The complex epidemiology of extended-spectrum β-lactamase-producing Enterobacteriaceae, Future Microbiol., 10, 819, 10.2217\u002Ffmb.15.16",{"doi":3819},"10.2217\u002Ffmb.15.16",{"id":22,"text":3821,"url":22,"identifiers":3822},"Tielen, 2013, Regulatory and metabolic networks for the adaptation of Pseudomonas aeruginosa biofilms to urinary tract-like conditions, PLoS ONE, 8, e71845, 10.1371\u002Fjournal.pone.0071845",{"doi":3823},"10.1371\u002Fjournal.pone.0071845",{"id":22,"text":3825,"url":22,"identifiers":3826},"Weigel, 1998, gyrA Mutations associated with fluoroquinolone resistance in eight species of Enterobacteriaceae, Antimicrob. Agents Chemother., 42, 2661, 10.1128\u002FAAC.42.10.2661",{"doi":3827},"10.1128\u002FAAC.42.10.2661",{"id":22,"text":3829,"url":22,"identifiers":3830},"Wyres, 2015, Extensive capsule locus variation and large-scale genomic recombination within the Klebsiella pneumoniae clonal group 258, Genome Biol. Evol., 7, 1267, 10.1093\u002Fgbe\u002Fevv062",{"doi":3831},"10.1093\u002Fgbe\u002Fevv062",{"id":22,"text":3833,"url":22,"identifiers":3834},"Yang, 2011, Evolutionary dynamics of bacteria in a human host environment, Proc. Natl. Acad. Sci. U.S.A., 108, 7481, 10.1073\u002Fpnas.1018249108",{"doi":3835},"10.1073\u002Fpnas.1018249108",{"id":22,"text":3837,"url":22,"identifiers":3838},"Zhou, 2015, The mosaic genome structure and phylogeny of Shiga toxin-producing Escherichia coli O104:H4 is driven by short-term adaptation, Clin. Microbiol. Infect., 21, 468, 10.1016\u002Fj.cmi.2014.12.009",{"doi":3839},"10.1016\u002Fj.cmi.2014.12.009",{"id":3841,"createTime":3507,"updateTime":3507,"relativeEntities":3842,"slug":3843,"properties":3844,"entityType":131,"verifyStatus":132,"verifyTime":3507,"verifyNote":133,"syncStatus":21,"languages":3860,"translateLanguages":22,"viewCount":23,"primaryUrl":3861,"fullTextUrl":22,"authors":3862,"publicationType":208,"publisherRelationship":3939,"citationCount":249,"citationInfo":3972,"publishDate":22,"publishYear":22,"citationAnalyzeStatus":21,"lastCitationAnalyze":22,"indexDatabases":22,"openAccess":22,"references":3974,"isForceReanalyzing":909},"6e1c1e7a-2bd2-4efa-bff9-e285c62edd6b",[],"Rhizodegradation-of-Pyrene-by-a-Non-pathogenic-Klebsiella-pneumoniae-Isolate-Applied-With-Tagetes-erecta-L-and-Changes-in-the-Rhizobacterial-Community",{"mag":3845,"keywords":3847,"pmc":3848,"openalex":3850,"abstract":3852,"title":3854,"pm":3856,"doi":3858},{"VOID":3846},"3132985718",{},{"VOID":3849},"7940843",{"VOID":3851},"W3132985718",{"EN":3853},"\u003Cjats:p>The non-clinical \u003Cjats:italic>Klebsiella pneumoniae\u003C\u002Fjats:italic> variants, isolated from different environments, are now well acknowledged for their role in plant-growth promotion and biodegradation of pollutants. In the present study, a non-clinical environmental isolate \u003Cjats:italic>K. pneumoniae\u003C\u002Fjats:italic> AWD5 is being described for rhizoremediation of pyrene, applied through the rhizosphere of an ornamental plant, \u003Cjats:italic>Tagetes erecta\u003C\u002Fjats:italic> L (marigold). The non-pathogenic nature of AWD5 was established using an \u003Cjats:italic>in vivo\u003C\u002Fjats:italic> mouse model experiment, where AWD5 was unable to cause lung infection in tested mice. Degradation of pyrene, in the presence of succinate as co-substrate, was observed to be 87.5% by AWD5, after 21 days of incubation in minimal (Bushnell–Hass) medium \u003Cjats:italic>in vitro\u003C\u002Fjats:italic> conditions. Consequently, the bacterial inoculation through the rhizosphere of \u003Cjats:italic>T. erecta\u003C\u002Fjats:italic> L. plants resulted in 68.61% degradation of pyrene, which was significantly higher than control soil. Inoculation of AWD5 also improved plant growth and exhibited an increase in root length (14.64%), dry root weight (80.56%), shoot length (3.26%), and dry shoot weight (45.35%) after 60 days of incubation. \u003Cjats:italic>T. erecta\u003C\u002Fjats:italic> L., an ornamental plant, was also found to be suitable for bioremediation of pyrene. The effect of AWD5 application, and rhizoremediation process, on rhizosphere bacterial diversity and community structure has been studied using the metagenomic analysis of the 16S (V3–V4) region of rRNA. 37 bacterial phyla constituted the core microbiome, which was dominated by Proteobacteria followed by Actinobacteria, Actinobacteria, and Planctomycetes for all the treatments. AWD5 inoculation enhanced the relative abundance of Firmicutes and Acidobacteria as compared with other treatments. Genus \u003Cjats:italic>Kaistobacter\u003C\u002Fjats:italic> and \u003Cjats:italic>Verrucomicrobia\u003C\u002Fjats:italic> were found to be an abundant indigenous population in pyrene-spiked soils. Bacterial richness and diversity were analyzed using the Shannon–Wiener (H) index. A lower diversity index was observed in pyrene-spiked soils. Canonical correspondence analysis (CCA) showed a possible linkage with plant growth attributes and available nitrogen content that influences diversity and abundance of the bacterial community.\u003C\u002Fjats:p>",{"EN":3855},"Rhizodegradation of Pyrene by a Non-pathogenic Klebsiella pneumoniae Isolate Applied With Tagetes erecta L. and Changes in the Rhizobacterial 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