Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats

Dealtry S, Ding G-C, Weichelt V, Dunon V, Schlüter A, Carla Martini M, Florencia Del Papa M, Lagares A, Amos GCA, Wellington EMH, Gaze WH, et al. (2014)
PLoS ONE 9(2): e89922.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Autor*in
Dealtry, Simone; Ding, Guo-Chun; Weichelt, Viola; Dunon, Vincent; Schlüter, AndreasUniBi ; Carla Martini, Maria; Florencia Del Papa, Maria; Lagares, Antonio; Amos, Gregory Charles Auton; Wellington, Elizabeth Margaret Helen; Gaze, William Hugo; Sipkema, Detmer
Alle
Abstract / Bemerkung
IncP-1, IncP-7 and IncP-9 plasmids often carry genes encoding enzymes involved in the degradation of man-made and natural contaminants, thus contributing to bacterial survival in polluted environments. However, the lack of suitable molecular tools often limits the detection of these plasmids in the environment. In this study, PCR followed by Southern blot hybridization detected the presence of plasmid-specific sequences in total community (TC-) DNA or fosmid DNA from samples originating from different environments and geographic regions. A novel primer system targeting IncP-9 plasmids was developed and applied along with established primers for IncP-1 and IncP-7. Screening TC- DNA from biopurification systems (BPS) which are used on farms for the purification of pesticide-contaminated water revealed high abundances of IncP-1 plasmids belonging to different subgroups as well as IncP-7 and IncP-9. The novel IncP-9 primer-system targeting the rep gene of nine IncP-9 subgroups allowed the detection of a high diversity of IncP-9 plasmid specific sequences in environments with different sources of pollution. Thus polluted sites are "hot spots'' of plasmids potentially carrying catabolic genes.
Erscheinungsjahr
2014
Zeitschriftentitel
PLoS ONE
Band
9
Ausgabe
2
Art.-Nr.
e89922
ISSN
1932-6203
eISSN
1932-6203
Page URI
https://pub.uni-bielefeld.de/record/2669237

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Dealtry S, Ding G-C, Weichelt V, et al. Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats. PLoS ONE. 2014;9(2): e89922.
Dealtry, S., Ding, G. - C., Weichelt, V., Dunon, V., Schlüter, A., Carla Martini, M., Florencia Del Papa, M., et al. (2014). Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats. PLoS ONE, 9(2), e89922. doi:10.1371/journal.pone.0089922
Dealtry, Simone, Ding, Guo-Chun, Weichelt, Viola, Dunon, Vincent, Schlüter, Andreas, Carla Martini, Maria, Florencia Del Papa, Maria, et al. 2014. “Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats”. PLoS ONE 9 (2): e89922.
Dealtry, S., Ding, G. - C., Weichelt, V., Dunon, V., Schlüter, A., Carla Martini, M., Florencia Del Papa, M., Lagares, A., Amos, G. C. A., Wellington, E. M. H., et al. (2014). Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats. PLoS ONE 9:e89922.
Dealtry, S., et al., 2014. Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats. PLoS ONE, 9(2): e89922.
S. Dealtry, et al., “Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats”, PLoS ONE, vol. 9, 2014, : e89922.
Dealtry, S., Ding, G.-C., Weichelt, V., Dunon, V., Schlüter, A., Carla Martini, M., Florencia Del Papa, M., Lagares, A., Amos, G.C.A., Wellington, E.M.H., Gaze, W.H., Sipkema, D., Sjoling, S., Springael, D., Heuer, H., van Elsas, J.D., Thomas, C., Smalla, K.: Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats. PLoS ONE. 9, : e89922 (2014).
Dealtry, Simone, Ding, Guo-Chun, Weichelt, Viola, Dunon, Vincent, Schlüter, Andreas, Carla Martini, Maria, Florencia Del Papa, Maria, Lagares, Antonio, Amos, Gregory Charles Auton, Wellington, Elizabeth Margaret Helen, Gaze, William Hugo, Sipkema, Detmer, Sjoling, Sara, Springael, Dirk, Heuer, Holger, van Elsas, Jan Dirk, Thomas, Christopher, and Smalla, Kornelia. “Cultivation-Independent Screening Revealed Hot Spots of IncP-1, IncP-7 and IncP-9 Plasmid Occurrence in Different Environmental Habitats”. PLoS ONE 9.2 (2014): e89922.

16 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Novel environmental class 1 integrons and cassette arrays recovered from an on-farm bio-purification plant.
Martini MC, Quiroga MP, Pistorio M, Lagares A, Centrón D, Del Papa MF., FEMS Microbiol Ecol 94(3), 2018
PMID: 29300936
Petroleum contamination and bioaugmentation in bacterial rhizosphere communities from Avicennia schaueriana.
Dealtry S, Ghizelini AM, Mendonça-Hagler LCS, Chaloub RM, Reinert F, Campos TMP, Gomes NCM, Smalla K., Braz J Microbiol 49(4), 2018
PMID: 29866608
Targeted metagenomics demonstrates the ecological role of IS1071 in bacterial community adaptation to pesticide degradation.
Dunon V, Bers K, Lavigne R, Top EM, Springael D., Environ Microbiol 20(11), 2018
PMID: 30207068
The Transferable Resistome of Produce.
Blau K, Bettermann A, Jechalke S, Fornefeld E, Vanrobaeys Y, Stalder T, Top EM, Smalla K., MBio 9(6), 2018
PMID: 30401772
Identification of novel toluene monooxygenase genes in a hydrocarbon-polluted sediment using sequence- and function-based screening of metagenomic libraries.
Bouhajja E, McGuire M, Liles MR, Bataille G, Agathos SN, George IF., Appl Microbiol Biotechnol 101(2), 2017
PMID: 27785541
Plasmid Classification in an Era of Whole-Genome Sequencing: Application in Studies of Antibiotic Resistance Epidemiology.
Orlek A, Stoesser N, Anjum MF, Doumith M, Ellington MJ, Peto T, Crook D, Woodford N, Walker AS, Phan H, Sheppard AE., Front Microbiol 8(), 2017
PMID: 28232822
Groundwater contamination with 2,6-dichlorobenzamide (BAM) and perspectives for its microbial removal.
Ellegaard-Jensen L, Horemans B, Raes B, Aamand J, Hansen LH., Appl Microbiol Biotechnol 101(13), 2017
PMID: 28616645
Exploring the complex response to linuron of bacterial communities from biopurification systems by means of cultivation-independent methods.
Dealtry S, Nour EH, Holmsgaard PN, Ding GC, Weichelt V, Dunon V, Heuer H, Hansen LH, Sørensen SJ, Springael D, Smalla K., FEMS Microbiol Ecol 92(2), 2016
PMID: 26705572
Genomics of high molecular weight plasmids isolated from an on-farm biopurification system.
Martini MC, Wibberg D, Lozano M, Torres Tejerizo G, Albicoro FJ, Jaenicke S, van Elsas JD, Petroni A, Garcillán-Barcia MP, de la Cruz F, Schlüter A, Pühler A, Pistorio M, Lagares A, Del Papa MF., Sci Rep 6(), 2016
PMID: 27321040
Using the class 1 integron-integrase gene as a proxy for anthropogenic pollution.
Gillings MR, Gaze WH, Pruden A, Smalla K, Tiedje JM, Zhu YG., ISME J 9(6), 2015
PMID: 25500508
Plasmid Detection, Characterization, and Ecology.
Smalla K, Jechalke S, Top EM., Microbiol Spectr 3(1), 2015
PMID: 26104560
Strategies and approaches in plasmidome studies-uncovering plasmid diversity disregarding of linear elements?
Dib JR, Wagenknecht M, Farías ME, Meinhardt F., Front Microbiol 6(), 2015
PMID: 26074886
Transferable antibiotic resistance plasmids from biogas plant digestates often belong to the IncP-1ε subgroup.
Wolters B, Kyselková M, Krögerrecklenfort E, Kreuzig R, Smalla K., Front Microbiol 5(), 2014
PMID: 25653641
Shifts in abundance and diversity of mobile genetic elements after the introduction of diverse pesticides into an on-farm biopurification system over the course of a year.
Dealtry S, Holmsgaard PN, Dunon V, Jechalke S, Ding GC, Krögerrecklenfort E, Heuer H, Hansen LH, Springael D, Zühlke S, Sørensen SJ, Smalla K., Appl Environ Microbiol 80(13), 2014
PMID: 24771027

28 References

Daten bereitgestellt von Europe PubMed Central.

Plasmids foster diversification and adaptation of bacterial populations in soil.
Heuer H, Smalla K., FEMS Microbiol. Rev. 36(6), 2012
PMID: 22393901
The P-7 incompatibility group plasmids responsible for biodegradation of naphthalene and salicylate in fluorescent pseudomonads
AUTHOR UNKNOWN, 2005
Analysis, fate and effects of the antibiotic sulfadiazine in soil ecosystems
AUTHOR UNKNOWN, 2009
Quantitative analysis of small-subunit rRNA genes in mixed microbial populations via 5'-nuclease assays.
Suzuki MT, Taylor LT, DeLong EF., Appl. Environ. Microbiol. 66(11), 2000
PMID: 11055900
Diversity of IncP-9 plasmids of Pseudomonas
AUTHOR UNKNOWN, 2008
Role of IncP-1β plasmids pWDL7::rfp and pNB8c in chloroaniline catabolism as determined by genomic and functional analyses.
Krol JE, Penrod JT, McCaslin H, Rogers LM, Yano H, Stancik AD, Dejonghe W, Brown CJ, Parales RE, Wuertz S, Top EM., Appl. Environ. Microbiol. 78(3), 2011
PMID: 22101050
Occurrence of plasmids in the aromatic degrading bacterioplankton of the baltic sea.
Jutkina J, Heinaru E, Vedler E, Juhanson J, Heinaru A., Genes (Basel) 2(4), 2011
PMID: 24710296
Biobeds for environmental protection from pesticide use--a review.
Castillo Mdel P, Torstensson L, Stenstrom J., J. Agric. Food Chem. 56(15), 2008
PMID: 18598049
Exploring the potential of biobeds for the depuration of pesticide-contaminated wastewaters from the citrus production chain: laboratory, column and field studies.
Omirou M, Dalias P, Costa C, Papastefanou C, Dados A, Ehaliotis C, Karpouzas DG., Environ. Pollut. 166(), 2012
PMID: 22465978
Genetic organization of the catabolic plasmid pJP4 from Ralstonia eutropha JMP134 (pJP4) reveals mechanisms of adaptation to chloroaromatic pollutants and evolution of specialized chloroaromatic degradation pathways.
Trefault N, De la Iglesia R, Molina AM, Manzano M, Ledger T, Perez-Pantoja D, Sanchez MA, Stuardo M, Gonzalez B., Environ. Microbiol. 6(7), 2004
PMID: 15186344
New molecular variants of epsilon and beta IncP-1 plasmids are present in estuarine waters.
Oliveira CS, Lazaro B, Azevedo JS, Henriques I, Almeida A, Correia A., Plasmid 67(3), 2011
PMID: 22107909
The role of mobile genetic elements in bacterial adaptation to xenobiotic organic compounds.
Top EM, Springael D., Curr. Opin. Biotechnol. 14(3), 2003
PMID: 12849778
Inferring the evolutionary history of IncP-1 plasmids despite incongruence among backbone gene trees.
Sen D, Brown CJ, Top EM, Sullivan J., Mol. Biol. Evol. 30(1), 2012
PMID: 22936717

AUTHOR UNKNOWN, 0
Quantification of IncP-1 plasmid prevalence in environmental samples.
Jechalke S, Dealtry S, Smalla K, Heuer H., Appl. Environ. Microbiol. 79(4), 2012
PMID: 23241977
Mangrove microniches determine the structural and functional diversity of enriched petroleum hydrocarbon-degrading consortia.
Gomes NC, Flocco CG, Costa R, Junca H, Vilchez R, Pieper DH, Krogerrecklenfort E, Paranhos R, Mendonca-Hagler LC, Smalla K., FEMS Microbiol. Ecol. 74(2), 2010
PMID: 20812953
Bacterial dehalogenases: biochemistry, genetics, and biotechnological applications.
Fetzner S, Lingens F., Microbiol. Rev. 58(4), 1994
PMID: 7854251
Complete sequence of the IncP-9 TOL plasmid pWW0 from Pseudomonas putida.
Greated A, Lambertsen L, Williams PA, Thomas CM., Environ. Microbiol. 4(12), 2002
PMID: 12534468
Molecular classification of IncP-9 naphthalene degradation plasmids.
Izmalkova TY, Mavrodi DV, Sokolov SL, Kosheleva IA, Smalla K, Thomas CM, Boronin AM., Plasmid 56(1), 2006
PMID: 16472859
Two-phase anaerobic digestion of water hyacinth pretreated with dilute sulphuric acid
AUTHOR UNKNOWN, 1996
Active bacterial community structure along vertical redox gradients in Baltic Sea sediment.
Edlund A, Hardeman F, Jansson JK, Sjoling S., Environ. Microbiol. 10(8), 2008
PMID: 18452546
Impacts of anthropogenic activity on the ecology of class 1 integrons and integron-associated genes in the environment
AUTHOR UNKNOWN, 2011
Prevalence of sulfonamide resistance genes in bacterial isolates from manured agricultural soils and pig slurry in the United Kingdom.
Byrne-Bailey KG, Gaze WH, Kay P, Boxall AB, Hawkey PM, Wellington EM., Antimicrob. Agents Chemother. 53(2), 2008
PMID: 19064898
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