Complete Nucleotide Sequence of CTX-M-15-Plasmids from Clinical Escherichia coli Isolates: Insertional Events of Transposons and Insertion Sequences
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{"title"=>"Complete nucleotide sequence of CTX-M-15-plasmids from clinical Escherichia coli isolates: Insertional events of transposons and insertion sequences", "type"=>"journal", "authors"=>[{"first_name"=>"Annemieke", "last_name"=>"Smet", "scopus_author_id"=>"24069640600"}, {"first_name"=>"Filip", "last_name"=>"van Nieuwerburgh", "scopus_author_id"=>"12345200700"}, {"first_name"=>"Tom T.M.", "last_name"=>"Vandekerckhove", "scopus_author_id"=>"57193817862"}, {"first_name"=>"An", "last_name"=>"Martel", "scopus_author_id"=>"7102242164"}, {"first_name"=>"Dieter", "last_name"=>"Deforce", "scopus_author_id"=>"6602167794"}, {"first_name"=>"Patrick", "last_name"=>"Butaye", "scopus_author_id"=>"7003760782"}, {"first_name"=>"Freddy", "last_name"=>"Haesebrouck", "scopus_author_id"=>"7101763889"}], "year"=>2010, "source"=>"PLoS ONE", "identifiers"=>{"pui"=>"359301761", "sgr"=>"77955289397", "issn"=>"19326203", "pmid"=>"20585456", "scopus"=>"2-s2.0-77955289397", "doi"=>"10.1371/journal.pone.0011202", "isbn"=>"1932-6203"}, "id"=>"7f2247b9-4ec8-3d19-81db-d0a6dfffbc1f", "abstract"=>"BACKGROUND CTX-M-producing Escherichia coli strains are regarded as major global pathogens. METHODOLOGY/PRINCIPAL FINDINGS The nucleotide sequence of three plasmids (pEC_B24: 73801-bp; pEC_L8: 118525-bp and pEC_L46: 144871-bp) from Escherichia coli isolates obtained from patients with urinary tract infections and one plasmid (pEC_Bactec: 92970-bp) from an Escherichia coli strain isolated from the joint of a horse with arthritis were determined. Plasmid pEC_Bactec belongs to the IncI1 group and carries two resistance genes: bla(TEM-1) and bla(CTX-M-15). It shares more than 90% homology with a previously published bla(CTX-M)-plasmid from E. coli of human origin. Plasmid pEC_B24 belongs to the IncFII group whereas plasmids pEC_L8 and pEC_L46 represent a fusion of two replicons of type FII and FIA. On the pEC_B24 backbone, two resistance genes, bla(TEM-1) and bla(CTX-M-15), were found. Six resistance genes, bla(TEM-1), bla(CTX-M-15), bla(OXA-1), aac6'-lb-cr, tetA and catB4, were detected on the pEC_L8 backbone. The same antimicrobial drug resistance genes, with the exception of tetA, were also identified on the pEC_L46 backbone. Genome analysis of all 4 plasmids studied provides evidence of a seemingly frequent transposition event of the bla(CTX-M-15)-ISEcp1 element. This element seems to have a preferred insertion site at the tnpA gene of a bla(TEM)-carrying Tn3-like transposon, the latter itself being inserted by a transposition event. The IS26-composite transposon, which contains the bla(OXA-1), aac6'-lb-cr and catB4 genes, was inserted into plasmids pEC_L8 and pEC_L46 by homologous recombination rather than a transposition event. Results obtained for pEC_L46 indicated that IS26 also plays an important role in structural rearrangements of the plasmid backbone and seems to facilitate the mobilisation of fragments from other plasmids. CONCLUSIONS Collectively, these data suggests that IS26 together with ISEcp1 could play a critical role in the evolution of diverse multiresistant plasmids found in clinical Enterobacteriaceae.", "link"=>"http://www.mendeley.com/research/complete-nucleotide-sequence-ctxm15plasmids-clinical-escherichia-coli-isolates-insertional-events-tr", "reader_count"=>89, "reader_count_by_academic_status"=>{"Unspecified"=>6, "Professor > Associate Professor"=>3, "Researcher"=>24, "Student > Doctoral Student"=>5, "Student > Ph. D. Student"=>30, "Student > Postgraduate"=>2, "Student > Master"=>6, "Student > Bachelor"=>6, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>1, "Professor"=>5}, "reader_count_by_user_role"=>{"Unspecified"=>6, "Professor > Associate Professor"=>3, "Researcher"=>24, "Student > Doctoral Student"=>5, "Student > Ph. D. Student"=>30, "Student > Postgraduate"=>2, "Student > Master"=>6, "Student > Bachelor"=>6, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>1, "Professor"=>5}, "reader_count_by_subject_area"=>{"Unspecified"=>11, "Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>11, "Agricultural and Biological Sciences"=>35, "Medicine and Dentistry"=>14, "Veterinary Science and Veterinary Medicine"=>3, "Pharmacology, Toxicology and Pharmaceutical Science"=>2, "Chemistry"=>1, "Social Sciences"=>2, "Immunology and Microbiology"=>9}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>14}, "Chemistry"=>{"Chemistry"=>1}, "Social Sciences"=>{"Social Sciences"=>2}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>9}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>35}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>11}, "Unspecified"=>{"Unspecified"=>11}, "Environmental Science"=>{"Environmental Science"=>1}, "Pharmacology, Toxicology and Pharmaceutical Science"=>{"Pharmacology, Toxicology and Pharmaceutical Science"=>2}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>3}}, "reader_count_by_country"=>{"Canada"=>1, "Netherlands"=>1, "Sweden"=>2, "United States"=>1, "Denmark"=>3, "Brazil"=>1, "United Kingdom"=>1, "Kenya"=>1, "Spain"=>1}, "group_count"=>4}

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  • {"files"=>["https://ndownloader.figshare.com/files/843539"], "description"=>"<p>The 5-bp direct repeats consistent with transposition events of the Tn<i>3</i> transposon and the IS<i>Ecp1</i>- <i>bla</i><sub>CTX-M-15</sub> element are also shown, as are tags for inverted repeats (IR prefix) and basepair numbering corresponding to transposon-seperated segments of the <i>tnpA</i> gene.</p>", "links"=>[], "tags"=>["containing", "orf477"], "article_id"=>513984, "categories"=>["Computational Biology", "Microbiology", "Genetics", "Infectious Diseases", "Virology", "Biotechnology"], "users"=>["Annemieke Smet", "Filip Van Nieuwerburgh", "Tom T. M. Vandekerckhove", "An Martel", "Dieter Deforce", "Patrick Butaye", "Freddy Haesebrouck"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0011202.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Detail_of_the_new_Tn_3_element_containing_tnpA_disrupted_blue_tnpR_green_orf477_purple_bla_CTX_M_15_pink_IS_Ecp1_yellow_and_bla_TEM_1_or_bla_TEM_33_red_genes_/513984", "title"=>"Detail of the new Tn<i>3</i> element, containing <i>tnpA</i> (disrupted, blue), <i>tnpR</i> (green), orf477 (purple), <i>bla</i><sub>CTX-M-15</sub> (pink), IS<i>Ecp1</i> (yellow) and <i>bla</i><sub>TEM-1</sub> or <i>bla</i><sub>TEM-33</sub> (red) genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-06-18 01:06:24"}
  • {"files"=>["https://ndownloader.figshare.com/files/843790"], "description"=>"<p>Both elements are separated by two oxidoreductase (<i>yigB</i> genes) elements. The intact left and right inverted repeats of IS<i>26</i> are also shown</p>", "links"=>[], "tags"=>["transposon", "elements", "carrying", "inserted", "inverted"], "article_id"=>514226, "categories"=>["Computational Biology", "Microbiology", "Genetics", "Infectious Diseases", "Virology", "Biotechnology"], "users"=>["Annemieke Smet", "Filip Van Nieuwerburgh", "Tom T. M. Vandekerckhove", "An Martel", "Dieter Deforce", "Patrick Butaye", "Freddy Haesebrouck"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0011202.g004", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Detail_of_two_IS_26_composite_transposon_elements_carrying_the_bla_OXA_1_aac6_lb_cr_and_catB4_genes_which_are_inserted_in_an_inverted_orientation_/514226", "title"=>"Detail of two IS<i>26</i>-composite transposon elements carrying the <i>bla</i><sub>OXA-1</sub>, <i>aac6'-lb-cr</i> and <i>catB4</i> genes, which are inserted in an inverted orientation.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-06-18 01:10:26"}
  • {"files"=>["https://ndownloader.figshare.com/files/843635"], "description"=>"<p>The hypothetical proteins and predicted ORFs are represented by coloured boxes. The pEC_L8 (inner circle) is compared with pEC_L46 (outer circle). Dashed lines stake out a large common region (right half). The <i>tra</i> locus is indicated by blue boxes and the hypothetical proteins are indicated in pink. The <i>tnpA</i> genes are indicated in red boxes whereas the IS<i>26</i> element is coloured in bright green. The antitoxin/toxin genes are indicated by green-brown (<i>vagC</i>/<i>vagD</i>), purple (<i>pemI</i>/<i>pemK</i>), blue-grey (<i>ccdA</i>/<i>ccdB</i>) and brown-black-red (<i>hok</i>/<i>mok</i>, <i>parB</i>, <i>psiA</i>/<i>psiB</i>), respectively. The FII replicon and FIA replicon is indicated in grey and grey-green, respectively. Other genes that have an important function for these IncF plasmids are indicated by different coloured boxes: dark blue (<i>ugpB</i>, <i>ugpC</i>, <i>araQ</i> and <i>ugpA</i>), dark green (<i>icc</i>, <i>klcA</i>), green (<i>yigB</i>), purple (<i>sopB</i>, <i>kdgT</i>), orange (<i>yihH</i>, <i>tdcF</i>), orange-pink (colicin B/M genes) and purple blue (<i>yfaX</i>). The new Tn<i>3</i> element, containing <i>tnpA</i> (green) and <i>tnpR</i> (grey) genes and encoding CTX-M-15 (green) in addition to TEM-1 (yellow) is also highlighted. The IS<i>Ecp1</i> element linked to <i>bla</i><sub>CTX-M-15</sub> is coloured orange. The IS<i>26</i> (bright-green) composite transposon carrying <i>aac6'-lb-cr</i> (purple-blue), <i>bla</i><sub>OXA-1</sub> (light yellow) and <i>catB4</i> (pink) is also shown as is the pEC_L46 fragment with more than 90% homology to a segment from a <i>Klebsiella</i> plasmid.</p>", "links"=>[], "tags"=>["maps", "pec_b24", "pec_l8", "pec_l46"], "article_id"=>514067, "categories"=>["Computational Biology", "Microbiology", "Genetics", "Infectious Diseases", "Virology", "Biotechnology"], "users"=>["Annemieke Smet", "Filip Van Nieuwerburgh", "Tom T. M. Vandekerckhove", "An Martel", "Dieter Deforce", "Patrick Butaye", "Freddy Haesebrouck"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0011202.g003", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Physical_maps_of_pEC_B24_IncFII_pEC_L8_IncFII_FIA_and_pEC_L46_IncFII_FIA_/514067", "title"=>"Physical maps of pEC_B24 (IncFII), pEC_L8 (IncFII, FIA) and pEC_L46 (IncFII, FIA).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-06-18 01:07:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/843383"], "description"=>"<p>The hypothetical proteins and predicted ORFs are presented by coloured boxes (blue for the <i>tra</i> locus, orange for the type IV prepilin cluster and pink for hypothetical proteins). The I1 replicon is coloured in grey. The <i>tnpA</i> genes are indicated by red boxes whereas the IS<i>26</i> element is bright green. Other genes that have an important function for pEC_Bactec bear different coloured boxes: green-brown, <i>impC</i>/<i>A</i>/<i>B</i> genes; blue-grey, <i>sogL</i>/<i>sogS</i> genes; blue-green, <i>psiA</i>/<i>psiB</i> genes; dark pink, <i>ardA</i> gene: purple, <i>nikA</i>/<i>nikB</i> genes; blue-purple, <i>rci</i> gene; red-brown, <i>klcA</i> gene; and dark-grey, <i>pndA</i>/<i>pndC</i>. The new Tn<i>3</i> element, containing <i>tnpA</i> (green) and <i>tnpR</i> (grey) genes and encoding CTX-M-15 (green) in addition to TEM-1 (yellow) is also highlighted. The IS<i>Ecp1</i> element linked to <i>bla</i><sub>CTX-M-15</sub> is coloured in orange.</p>", "links"=>[], "tags"=>["pec_bactec"], "article_id"=>513830, "categories"=>["Computational Biology", "Microbiology", "Genetics", "Infectious Diseases", "Virology", "Biotechnology"], "users"=>["Annemieke Smet", "Filip Van Nieuwerburgh", "Tom T. M. Vandekerckhove", "An Martel", "Dieter Deforce", "Patrick Butaye", "Freddy Haesebrouck"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0011202.g001", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Physical_map_of_pEC_Bactec_IncI1_/513830", "title"=>"Physical map of pEC_Bactec (IncI1).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-06-18 01:03:50"}
  • {"files"=>["https://ndownloader.figshare.com/files/420424", "https://ndownloader.figshare.com/files/420492", "https://ndownloader.figshare.com/files/420558", "https://ndownloader.figshare.com/files/420635"], "description"=>"<div><h3>Background</h3><p>CTX-M-producing <em>Escherichia coli</em> strains are regarded as major global pathogens.</p> <h3>Methodology/Principal Findings</h3><p>The nucleotide sequence of three plasmids (pEC_B24: 73801-bp; pEC_L8: 118525-bp and pEC_L46: 144871-bp) from <em>Escherichia coli</em> isolates obtained from patients with urinary tract infections and one plasmid (pEC_Bactec: 92970-bp) from an <em>Escherichia coli</em> strain isolated from the joint of a horse with arthritis were determined. Plasmid pEC_Bactec belongs to the IncI1 group and carries two resistance genes: <em>bla</em><sub>TEM-1</sub> and <em>bla</em><sub>CTX-M-15</sub>. It shares more than 90% homology with a previously published <em>bla</em><sub>CTX-M</sub>-plasmid from <em>E. coli</em> of human origin. Plasmid pEC_B24 belongs to the IncFII group whereas plasmids pEC_L8 and pEC_L46 represent a fusion of two replicons of type FII and FIA. On the pEC_B24 backbone, two resistance genes, <em>bla</em><sub>TEM-1</sub> and <em>bla</em><sub>CTX-M-15</sub>, were found. Six resistance genes, <em>bla</em><sub>TEM-1</sub>, <em>bla</em><sub>CTX-M-15</sub>, <em>bla</em><sub>OXA-1</sub>, <em>aac6'-lb-cr</em>, <em>tetA</em> and <em>catB4</em>, were detected on the pEC_L8 backbone. The same antimicrobial drug resistance genes, with the exception of <em>tetA</em>, were also identified on the pEC_L46 backbone. Genome analysis of all 4 plasmids studied provides evidence of a seemingly frequent transposition event of the <em>bla</em><sub>CTX-M-15</sub>-IS<em>Ecp1</em> element. This element seems to have a preferred insertion site at the <em>tnpA</em> gene of a <em>bla</em><sub>TEM</sub>-carrying Tn<em>3</em>-like transposon, the latter itself being inserted by a transposition event. The IS<em>26</em>-composite transposon, which contains the <em>bla</em><sub>OXA-1</sub>, <em>aac6'-lb-cr</em> and <em>catB4</em> genes, was inserted into plasmids pEC_L8 and pEC_L46 by homologous recombination rather than a transposition event. Results obtained for pEC_L46 indicated that IS<em>26</em> also plays an important role in structural rearrangements of the plasmid backbone and seems to facilitate the mobilisation of fragments from other plasmids.</p> <h3>Conclusions</h3><p>Collectively, these data suggests that IS<em>26</em> together with IS<em>Ecp1</em> could play a critical role in the evolution of diverse multiresistant plasmids found in clinical <em>Enterobacteriaceae</em>.</p> </div>", "links"=>[], "tags"=>["nucleotide", "ctx-m-15-plasmids", "insertional", "events", "transposons", "insertion", "sequences"], "article_id"=>142991, "categories"=>["Biological Sciences", "Microbiology", "Genetics", "Cancer", "Biotechnology"], "users"=>["Annemieke Smet", "Filip Van Nieuwerburgh", "Tom T. M. Vandekerckhove", "An Martel", "Dieter Deforce", "Patrick Butaye", "Freddy Haesebrouck"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0011202.s001", "https://dx.doi.org/10.1371/journal.pone.0011202.s002", "https://dx.doi.org/10.1371/journal.pone.0011202.s003", "https://dx.doi.org/10.1371/journal.pone.0011202.s004"], "stats"=>{"downloads"=>21, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Complete_Nucleotide_Sequence_of_CTX_M_15_Plasmids_from_Clinical_Escherichia_coli_Isolates_Insertional_Events_of_Transposons_and_Insertion_Sequences/142991", "title"=>"Complete Nucleotide Sequence of CTX-M-15-Plasmids from Clinical <em>Escherichia coli</em> Isolates: Insertional Events of Transposons and Insertion Sequences", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2010-06-18 00:49:51"}

PMC Usage Stats | Further Information

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