An Insertion Sequence-Dependent Plasmid Rearrangement in Aeromonas salmonicida Causes the Loss of the Type Three Secretion System
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{"title"=>"An insertion sequence-dependent plasmid rearrangement in aeromonas salmonicida causes the loss of the type three secretion system", "type"=>"journal", "authors"=>[{"first_name"=>"Katherine H.", "last_name"=>"Tanaka", "scopus_author_id"=>"35247274800"}, {"first_name"=>"Stéphanie", "last_name"=>"Dallaire-Dufresne", "scopus_author_id"=>"49961251100"}, {"first_name"=>"Rana K.", "last_name"=>"Daher", "scopus_author_id"=>"49961153600"}, {"first_name"=>"Michel", "last_name"=>"Frenette", "scopus_author_id"=>"7005999118"}, {"first_name"=>"Steve J.", "last_name"=>"Charette", "scopus_author_id"=>"6602131037"}], "year"=>2012, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"22432045", "scopus"=>"2-s2.0-84863262539", "sgr"=>"84863262539", "issn"=>"19326203", "pui"=>"364433922", "doi"=>"10.1371/journal.pone.0033725"}, "id"=>"8134a756-1d96-347c-ba62-1b50a0c73647", "abstract"=>"Aeromonas salmonicida, a bacterial fish pathogen, possesses a functional Type Three Secretion System (TTSS), which is essential for its virulence. The genes for this system are mainly located in a single region of the large pAsa5 plasmid. Bacteria lose the TTSS region from this plasmid through rearrangements when grown in stressful growth conditions. The A. salmonicida genome is rich in insertion sequences (ISs), which are mobile DNA elements that can cause DNA rearrangements in other bacterial species. pAsa5 possesses numerous ISs. Three IS11s from the IS256 family encircle the rearranged regions. To confirm that these IS11s are involved in pAsa5 rearrangements, 26 strains derived from strain A449 and two Canadian isolates (01-B526 and 01-B516) with a pAsa5 rearrangement were tested using a PCR approach to determine whether the rearrangements were the result of an IS11-dependent process. Nine out of the 26 strains had a positive PCR result, suggesting that the rearrangement in these strains were IS-dependent. The PCR analysis showed that all the rearrangements in the A449-derived strains were IS11-dependent process while the rearrangements in 01-B526 and 01-B516 could only be partially coupled to the action of IS11. Unidentified elements that affect IS-dependent rearrangements may be present in 01-B526 and 01-B516. Our results suggested that pAsa5 rearrangements involve IS11. This is the first study showing that ISs are involved in plasmid instability in A. salmonicida.", "link"=>"http://www.mendeley.com/research/insertion-sequencedependent-plasmid-rearrangement-aeromonas-salmonicida-causes-loss-type-three-secre", "reader_count"=>18, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>3, "Student > Ph. D. Student"=>5, "Other"=>1, "Student > Master"=>4, "Student > Bachelor"=>3}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>3, "Student > Ph. D. Student"=>5, "Other"=>1, "Student > Master"=>4, "Student > Bachelor"=>3}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Biochemistry, Genetics and Molecular Biology"=>3, "Agricultural and Biological Sciences"=>12, "Immunology and Microbiology"=>1, "Earth and Planetary Sciences"=>1}, "reader_count_by_subdiscipline"=>{"Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>12}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>3}, "Unspecified"=>{"Unspecified"=>1}}, "reader_count_by_country"=>{"Chile"=>1, "Germany"=>1}, "group_count"=>0}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/667572"], "description"=>"<p><b>A.</b> Two ISs can lead to the excision of a region of a plasmid by homologous recombination. <b>B.</b> This event, which can generate type 1 loss profile (TTSS) and type 2 loss profile (TTSS and upstream locus) in pAsa5, can be assessed by PCR. On this map, the primers (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-t002\" target=\"_blank\">Table 2</a>), shown as arrows, flank one side of their respective IS. In an intact pAsa5 plasmid, these primers are too far apart to generate an amplicon. However, both homologous recombination events involving ISs could place the primers in a suitable position to generate an amplicon. B–C rearrangements can be detected by the 11B1F and 11CR primers, and A–C rearrangements can be detected by the 11AF and 11CR primers. The position of <i>traC</i>, <i>resD</i> and <i>exsD</i> genes are also shown.</p>", "links"=>[], "tags"=>["rearrangement", "profiles", "assessed"], "article_id"=>338061, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.g002", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_IS_dependent_rearrangement_may_explain_loss_profiles_1_and_2_and_can_be_assessed_by_PCR_/338061", "title"=>"IS-dependent rearrangement may explain loss profiles 1 and 2, and can be assessed by PCR.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 07:43:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/667784"], "description"=>"<p><b>A and C.</b> Small plasmids (pAsa1, pAsa2, pAsa3 and pAsal1) from 01-B526 and 01-B516 derived strains were purified and digested using EcoRI leading to the linearization of the plasmids <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone.0033725-Boyd1\" target=\"_blank\">[12]</a>. An agarose gel electrophoresis of the digested plasmids is shown. <b>B and D.</b> DNA lysates of the same strains were tested by PCR with pAsal1 primers (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-t002\" target=\"_blank\">Table 2</a>) to confirm by a second approach the presence or the absence of pAsal1 in these strains. The presence (+) or the absence (−) of a PCR product is indicated.</p>", "links"=>[], "tags"=>["stressful", "conditions"], "article_id"=>338270, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.g005", "stats"=>{"downloads"=>3, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Growing_A_salmonicida_in_stressful_conditions_can_lead_to_the_loss_of_pAsal1_/338270", "title"=>"Growing <i>A. salmonicida</i> in stressful conditions can lead to the loss of pAsal1.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 07:44:48"}
  • {"files"=>["https://ndownloader.figshare.com/files/667503"], "description"=>"<p>The pAsa5 linear plasmid map shows the TTSS region and loss profiles of the various <i>A. salmonicida</i> strains from <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-t001\" target=\"_blank\">Table 1</a> and obtained in a previous study by growing strains at 25°C for two weeks <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone.0033725-Daher1\" target=\"_blank\">[10]</a>. Black rectangles indicate positive PCR signals for the corresponding genes while white rectangles indicate negative signals. Type 1 loss profile is the most common of the three <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone.0033725-Daher1\" target=\"_blank\">[10]</a>. Arrows below the map indicate ISs on pAsa5.</p>", "links"=>[], "tags"=>["sequences", "flanking", "regions", "pasa5", "plasmid"], "article_id"=>337979, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.g001", "stats"=>{"downloads"=>1, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Insertion_sequences_IS_11_s_are_flanking_the_regions_of_the_pAsa5_plasmid_in_A_salmonicida_that_are_lost_/337979", "title"=>"Insertion sequences (IS<i>11</i>s) are flanking the regions of the pAsa5 plasmid in <i>A. salmonicida</i> that are lost.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 07:43:15"}
  • {"files"=>["https://ndownloader.figshare.com/files/667888"], "description"=>"a<p>with 11AF and 11CR primers (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-t002\" target=\"_blank\">Table 2</a>).</p>b<p>with 11B1F and 11CR primers (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-t002\" target=\"_blank\">Table 2</a>).</p>c<p>see <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-g005\" target=\"_blank\">Figure 5</a>.</p>d<p>Parental strain.</p>e<p>Not applicable.</p>f<p>01-B526-R4 had lost the genes corresponding to a type 1 loss profile as well as <i>P5G011</i>, another gene 40 kb upstream from the TTSS region (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-g001\" target=\"_blank\">Figure 1</a>).</p>", "links"=>[], "tags"=>["strains", "compilation", "analyses", "done"], "article_id"=>338374, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.t001", "stats"=>{"downloads"=>4, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_salmonicida_strains_used_in_this_study_and_compilation_of_the_various_analyses_done_on_these_strains_/338374", "title"=>"<i>A. salmonicida</i> strains used in this study and compilation of the various analyses done on these strains.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-20 07:45:22"}
  • {"files"=>["https://ndownloader.figshare.com/files/667641"], "description"=>"<p>A449-R1 derivative strain harboring a loss profile 1 (<b>A</b>) and A449-R2 derivative strain harboring a loss profile 2 (<b>B</b>) were assessed by PCR, using <i>exsD</i>, <i>traC</i> and <i>resD</i> primers as control (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0033725#pone-0033725-g002\" target=\"_blank\">Figure 2B</a>). Primers 11B1F and 11CR were used to assess B–C rearrangement while primers 11AF and 11CR were used to assess A–C rearrangement.</p>", "links"=>[], "tags"=>["rearrangements", "profiles"], "article_id"=>338132, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.g003", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_IS_11_dependent_A_C_and_B_C_rearrangements_are_involved_in_loss_profiles_2_and_1_respectively_/338132", "title"=>"IS<i>11</i>-dependent A–C and B–C rearrangements are involved in loss profiles 2 and 1, respectively.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 07:44:04"}
  • {"files"=>["https://ndownloader.figshare.com/files/667705"], "description"=>"<p>Unexplained rearrangements in derivative strains were assessed by PCR using the 11D1F2 and 11D2R2 primers for the regions flanking IS<i>11</i>D. <b>A.</b> The positions of these primers are illustrated in both scenarios (intact IS<i>11</i>D or following homologous recombination in a B–C rearranged pAsa5 plasmid). <b>B.</b> An agarose gel electrophoresis of the PCR products, showing a positive result for all tested strains.</p>", "links"=>[], "tags"=>["chromosome", "pasa5", "insertion"], "article_id"=>338193, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.g004", "stats"=>{"downloads"=>2, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_IS_11_D_on_the_chromosome_is_not_involved_in_pAsa5_insertion_sequence_rearrangements_/338193", "title"=>"IS<i>11</i>D on the chromosome is not involved in pAsa5 insertion sequence rearrangements.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 07:44:22"}
  • {"files"=>["https://ndownloader.figshare.com/files/667864"], "description"=>"<p>Primers used in this study.</p>", "links"=>[], "tags"=>["genetics and genomics", "Infectious diseases", "microbiology", "molecular biology", "marine and aquatic sciences", "Computational biology"], "article_id"=>338341, "categories"=>["Molecular Biology", "Microbiology", "Inorganic Chemistry", "Infectious Diseases", "Biological Sciences", "Genetics"], "users"=>["Katherine H. Tanaka", "Stéphanie Dallaire-Dufresne", "Rana K. Daher", "Michel Frenette", "Steve J. Charette"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0033725.t002", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Primers_used_in_this_study_/338341", "title"=>"Primers used in this study.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-20 07:45:09"}

PMC Usage Stats | Further Information

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Relative Metric

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