Midgut Transcriptome of the Cockroach Periplaneta americana and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response
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{"title"=>"Midgut transcriptome of the cockroach Periplaneta americana and its microbiota: Digestion, detoxification and oxidative stress response", "type"=>"journal", "authors"=>[{"first_name"=>"Jianhua", "last_name"=>"Zhang", "scopus_author_id"=>"57015142800"}, {"first_name"=>"Yixi", "last_name"=>"Zhang", "scopus_author_id"=>"24377138300"}, {"first_name"=>"Jingjing", "last_name"=>"Li", "scopus_author_id"=>"57189262731"}, {"first_name"=>"Meiling", "last_name"=>"Liu", "scopus_author_id"=>"57189269174"}, {"first_name"=>"Zewen", "last_name"=>"Liu", "scopus_author_id"=>"8530929800"}], "year"=>2016, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"27153200", "doi"=>"10.1371/journal.pone.0155254", "sgr"=>"84966785444", "isbn"=>"1932-6203", "scopus"=>"2-s2.0-84966785444", "issn"=>"19326203", "pui"=>"610342601"}, "id"=>"c1b1ede8-6d20-3e5b-8213-228fa27e97f8", "abstract"=>"The cockroach, Periplaneta americana, is an obnoxious and notorious pest of the world, with a strong ability to adapt to a variety of complex environments. However, the molecular mechanism of this adaptability is mostly unknown. In this study, the genes and microbiota composition associated with the adaptation mechanism were studied by analyzing the transcriptome and 16S rDNA pyrosequencing of the P. americana midgut, respectively. Midgut transcriptome analysis identified 82,905 unigenes, among which 64 genes putatively involved in digestion (11 genes), detoxification (37 genes) and oxidative stress response (16 genes) were found. Evaluation of gene expression following treatment with cycloxaprid further revealed that the selected genes (CYP6J1, CYP4C1, CYP6K1, Delta GST, alpha-amylase, beta-glucosidase and aminopeptidase) were upregulated at least 2.0-fold at the transcriptional level, and four genes were upregulated more than 10.0-fold. An interesting finding was that three digestive enzymes positively responded to cycloxaprid application. Tissue expression profiles further showed that most of the selected genes were midgut-biased, with the exception of CYP6K1. The midgut microbiota composition was obtained via 16S rDNA pyrosequencing and was found to be mainly dominated by organisms from the Firmicutes phylum, among which Clostridiales, Lactobacillales and Burkholderiales were the main orders which might assist the host in the food digestion or detoxification of noxious compounds. The preponderant species, Clostridium cellulovorans, was previously reported to degrade lignocellulose efficiently in insects. The abundance of genes involved in digestion, detoxification and response to oxidative stress, and the diversity of microbiota in the midgut might provide P. americana high capacity to adapt to complex environments.", "link"=>"http://www.mendeley.com/research/midgut-transcriptome-cockroach-periplaneta-americana-microbiota-digestion-detoxification-oxidative-s", "reader_count"=>26, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>2, "Researcher"=>4, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>10, "Student > Postgraduate"=>1, "Other"=>3, "Student > Master"=>3, "Student > Bachelor"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>2, "Researcher"=>4, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>10, "Student > Postgraduate"=>1, "Other"=>3, "Student > Master"=>3, "Student > Bachelor"=>1}, "reader_count_by_subject_area"=>{"Biochemistry, Genetics and Molecular Biology"=>3, "Agricultural and Biological Sciences"=>23}, "reader_count_by_subdiscipline"=>{"Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>23}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>3}}, "reader_count_by_country"=>{"United States"=>1}, "group_count"=>4}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/5210056"], "description"=>"<p>Putative enzymes involved in digestion that were identified in <i>P</i>. <i>americana</i> midgut transcriptome.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368032, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.t002", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Putative_enzymes_involved_in_digestion_that_were_identified_in_i_P_i_i_americana_i_midgut_transcriptome_/3368032", "title"=>"Putative enzymes involved in digestion that were identified in <i>P</i>. <i>americana</i> midgut transcriptome.", "pos_in_sequence"=>8, "defined_type"=>3, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5208616"], "description"=>"<p>Unigenes are classified into three main categories: biological process (A), cellular component (B) and molecular function (C).</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3366946, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.g001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Gene_ontology_GO_classification_of_the_i_P_i_i_americana_i_midgut_transcriptome_/3366946", "title"=>"Gene ontology (GO) classification of the <i>P</i>. <i>americana</i> midgut transcriptome.", "pos_in_sequence"=>2, "defined_type"=>1, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5210059"], "description"=>"<p>Putative enzymes involved in oxidative stress response that were identified in <i>P</i>. <i>americana</i> midgut transcriptome.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368035, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.t003", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Putative_enzymes_involved_in_oxidative_stress_response_that_were_identified_in_i_P_i_i_americana_i_midgut_transcriptome_/3368035", "title"=>"Putative enzymes involved in oxidative stress response that were identified in <i>P</i>. <i>americana</i> midgut transcriptome.", "pos_in_sequence"=>9, "defined_type"=>3, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5210041"], "description"=>"<p>Transcriptomic abundances of sixty-four genes putatively involved in detoxification (A), digestion (B) and oxidative stress response (C). Expression abundance of each genes is indicated by RPKM (Reads Per Kilobase per Million mapped reads) values.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368017, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.g002", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Midgut_Transcriptome_of_the_Cockroach_i_Periplaneta_americana_i_and_Its_Microbiota_Digestion_Detoxification_and_Oxidative_Stress_Response_-_Fig_2/3368017", "title"=>"Midgut Transcriptome of the Cockroach <i>Periplaneta americana</i> and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response - Fig 2", "pos_in_sequence"=>3, "defined_type"=>1, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5210044"], "description"=>"<p>Relative expression levels of seven selected genes (A) and fold changes in the expression of these genes after cycloxaprid treatment (B) in the <i>P</i>. <i>americana</i> midgut. In (A), different letters indicate significant differences at <i>p</i>< 0.05 level among genes. In (B), stars (**) indicate significant differences between the control and cycloxaprid treatment at <i>p <</i> 0.01 level.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368020, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.g003", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Midgut_Transcriptome_of_the_Cockroach_i_Periplaneta_americana_i_and_Its_Microbiota_Digestion_Detoxification_and_Oxidative_Stress_Response_-_Fig_3/3368020", "title"=>"Midgut Transcriptome of the Cockroach <i>Periplaneta americana</i> and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response - Fig 3", "pos_in_sequence"=>4, "defined_type"=>1, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5210047"], "description"=>"<p>Different letters show significant differences among tissues for each gene at <i>p <</i> 0.05 level.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368023, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.g004", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Relative_expression_levels_of_seven_selected_genes_in_various_i_P_i_i_Americana_i_tissues_/3368023", "title"=>"Relative expression levels of seven selected genes in various <i>P</i>. <i>Americana</i> tissues.", "pos_in_sequence"=>5, "defined_type"=>1, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5208586", "https://ndownloader.figshare.com/files/5208589", "https://ndownloader.figshare.com/files/5208592", "https://ndownloader.figshare.com/files/5208595", "https://ndownloader.figshare.com/files/5208601", "https://ndownloader.figshare.com/files/5208604", "https://ndownloader.figshare.com/files/5208607", "https://ndownloader.figshare.com/files/5208610"], "description"=>"<div><p>The cockroach, <i>Periplaneta americana</i>, is an obnoxious and notorious pest of the world, with a strong ability to adapt to a variety of complex environments. However, the molecular mechanism of this adaptability is mostly unknown. In this study, the genes and microbiota composition associated with the adaptation mechanism were studied by analyzing the transcriptome and 16S rDNA pyrosequencing of the <i>P</i>. <i>americana</i> midgut, respectively. Midgut transcriptome analysis identified 82,905 unigenes, among which 64 genes putatively involved in digestion (11 genes), detoxification (37 genes) and oxidative stress response (16 genes) were found. Evaluation of gene expression following treatment with cycloxaprid further revealed that the selected genes (CYP6J1, CYP4C1, CYP6K1, Delta GST, alpha-amylase, beta-glucosidase and aminopeptidase) were upregulated at least 2.0-fold at the transcriptional level, and four genes were upregulated more than 10.0-fold. An interesting finding was that three digestive enzymes positively responded to cycloxaprid application. Tissue expression profiles further showed that most of the selected genes were midgut-biased, with the exception of CYP6K1. The midgut microbiota composition was obtained via 16S rDNA pyrosequencing and was found to be mainly dominated by organisms from the Firmicutes phylum, among which Clostridiales, Lactobacillales and Burkholderiales were the main orders which might assist the host in the food digestion or detoxification of noxious compounds. The preponderant species, <i>Clostridium cellulovorans</i>, was previously reported to degrade lignocellulose efficiently in insects. The abundance of genes involved in digestion, detoxification and response to oxidative stress, and the diversity of microbiota in the midgut might provide <i>P</i>. <i>americana</i> high capacity to adapt to complex environments.</p></div>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3366937, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0155254.s001", "https://dx.doi.org/10.1371/journal.pone.0155254.s002", "https://dx.doi.org/10.1371/journal.pone.0155254.s003", "https://dx.doi.org/10.1371/journal.pone.0155254.s004", "https://dx.doi.org/10.1371/journal.pone.0155254.s005", "https://dx.doi.org/10.1371/journal.pone.0155254.s006", "https://dx.doi.org/10.1371/journal.pone.0155254.s007", "https://dx.doi.org/10.1371/journal.pone.0155254.s008"], "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Midgut_Transcriptome_of_the_Cockroach_i_Periplaneta_americana_i_and_Its_Microbiota_Digestion_Detoxification_and_Oxidative_Stress_Response/3366937", "title"=>"Midgut Transcriptome of the Cockroach <i>Periplaneta americana</i> and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response", "pos_in_sequence"=>1, "defined_type"=>4, "published_date"=>"2016-05-06 05:39:45"}
  • {"files"=>["https://ndownloader.figshare.com/files/5210050"], "description"=>"<p>Microbial composition in <i>P</i>. <i>americana</i> midgut at the phylum level (A), at the order level (B), and at the species level (C). Detected taxa which have more than 1.0% relative abundance in each level are shown.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368026, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.g005", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Midgut_Transcriptome_of_the_Cockroach_i_Periplaneta_americana_i_and_Its_Microbiota_Digestion_Detoxification_and_Oxidative_Stress_Response_-_Fig_5/3368026", "title"=>"Midgut Transcriptome of the Cockroach <i>Periplaneta americana</i> and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response - Fig 5", "pos_in_sequence"=>6, "defined_type"=>1, "published_date"=>"2016-05-06 05:57:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/5210053"], "description"=>"<p>Putative enzymes involved in detoxification that were identified in <i>P</i>. <i>americana</i> midgut transcriptome.</p>", "links"=>[], "tags"=>["CYP 6K", "CYP 6J CYP 4C CYP 6K Delta GST", "Clostridium cellulovorans", "microbiota composition", "food digestion", "cycloxaprid application", "16 S rDNA pyrosequencing", "gene expression", "Midgut transcriptome analysis", "preponderant species", "Midgut Transcriptome", "Tissue expression profiles", "Firmicutes phylum", "64 genes putatively", "Oxidative Stress Response", "americana midgut", "oxidative stress", "adaptation mechanism", "midgut microbiota composition", "transcriptional level", "Cockroach Periplaneta americana", "Periplaneta americana"], "article_id"=>3368029, "categories"=>["Microbiology", "Cell Biology", "Genetics", "Molecular Biology", "Environmental Sciences not elsewhere classified", "Chemical Sciences not elsewhere classified", "Ecology", "Biological Sciences not elsewhere classified", "Inorganic Chemistry"], "users"=>["Jianhua Zhang", "Yixi Zhang", "Jingjing Li", "Meiling Liu", "Zewen Liu"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0155254.t001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Putative_enzymes_involved_in_detoxification_that_were_identified_in_i_P_i_i_americana_i_midgut_transcriptome_/3368029", "title"=>"Putative enzymes involved in detoxification that were identified in <i>P</i>. <i>americana</i> midgut transcriptome.", "pos_in_sequence"=>7, "defined_type"=>3, "published_date"=>"2016-05-06 05:57:21"}

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Relative Metric

{"start_date"=>"2016-01-01T00:00:00Z", "end_date"=>"2016-12-31T00:00:00Z", "subject_areas"=>[]}
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