Transcriptome Sequencing and Developmental Regulation of Gene Expression in Anopheles aquasalis
Publication Date
July 17, 2014
Journal
PLOS Neglected Tropical Diseases
Authors
André L. Costa Da Silva, Osvaldo Marinotti, José M. C. Ribeiro, Maria C. P. Silva, et al
Volume
8
Issue
7
Pages
e3005
DOI
https://dx.plos.org/10.1371/journal.pntd.0003005
Publisher URL
http://journals.plos.org/plosntds/article?id=10.1371%2Fjournal.pntd.0003005
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/25033462
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4102416
Europe PMC
http://europepmc.org/abstract/MED/25033462
Web of Science
000340551500051
Scopus
84905459819
Mendeley
http://www.mendeley.com/research/transcriptome-sequencing-developmental-regulation-gene-expression-anopheles-aquasalis
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Mendeley | Further Information

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Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1598936", "https://ndownloader.figshare.com/files/1598937", "https://ndownloader.figshare.com/files/1598938", "https://ndownloader.figshare.com/files/1598939", "https://ndownloader.figshare.com/files/1598940", "https://ndownloader.figshare.com/files/1598941", "https://ndownloader.figshare.com/files/1598942", "https://ndownloader.figshare.com/files/1598943"], "description"=>"<div><p>Background</p><p><i>Anopheles aquasalis</i> is a major malaria vector in coastal areas of South and Central America where it breeds preferentially in brackish water. This species is very susceptible to <i>Plasmodium vivax</i> and it has been already incriminated as responsible vector in malaria outbreaks. There has been no high-throughput investigation into the sequencing of <i>An. aquasalis</i> genes, transcripts and proteins despite its epidemiological relevance. Here we describe the sequencing, assembly and annotation of the <i>An. aquasalis</i> transcriptome.</p><p>Methodology/Principal Findings</p><p>A total of 419 thousand cDNA sequence reads, encompassing 164 million nucleotides, were assembled in 7544 contigs of ≥2 sequences, and 1999 singletons. The majority of the <i>An. aquasalis</i> transcripts encode proteins with their closest counterparts in another neotropical malaria vector, <i>An. darlingi</i>. Several analyses in different protein databases were used to annotate and predict the putative functions of the deduced <i>An. aquasalis</i> proteins. Larval and adult-specific transcripts were represented by 121 and 424 contig sequences, respectively. Fifty-one transcripts were only detected in blood-fed females. The data also reveal a list of transcripts up- or down-regulated in adult females after a blood meal. Transcripts associated with immunity, signaling networks and blood feeding and digestion are discussed.</p><p>Conclusions/Significance</p><p>This study represents the first large-scale effort to sequence the transcriptome of <i>An. aquasalis</i>. It provides valuable information that will facilitate studies on the biology of this species and may lead to novel strategies to reduce malaria transmission on the South American continent. The <i>An. aquasalis</i> transcriptome is accessible at <a href=\"http://exon.niaid.nih.gov/transcriptome/An_aquasalis/Anaquexcel.xlsx\" target=\"_blank\">http://exon.niaid.nih.gov/transcriptome/An_aquasalis/Anaquexcel.xlsx</a>.</p></div>", "links"=>[], "tags"=>["epidemiology", "disease vectors", "Infectious diseases", "Parasitic diseases", "malaria", "Computational biology", "genome analysis", "Transcriptome analysis", "Genome expression analysis", "genetics", "genomics", "Functional genomics", "organisms", "animals", "invertebrates", "arthropoda", "insects", "mosquitoes", "transcriptome", "sequencing"], "article_id"=>1108992, "categories"=>["Biological Sciences"], "users"=>["André L. Costa-da-Silva", "Osvaldo Marinotti", "José M. C. Ribeiro", "Maria C. P. Silva", "Adriana R. Lopes", "Michele S. Barros", "Anderson Sá-Nunes", "Bianca B. Kojin", "Eneas Carvalho", "Lincoln Suesdek", "Mário Alberto C. Silva-Neto", "Anthony A. James", "Margareth L. Capurro"], "doi"=>["https://dx.doi.org/10.1371/journal.pntd.0003005.s001", "https://dx.doi.org/10.1371/journal.pntd.0003005.s002", "https://dx.doi.org/10.1371/journal.pntd.0003005.s003", "https://dx.doi.org/10.1371/journal.pntd.0003005.s004", "https://dx.doi.org/10.1371/journal.pntd.0003005.s005", "https://dx.doi.org/10.1371/journal.pntd.0003005.s006", "https://dx.doi.org/10.1371/journal.pntd.0003005.s007", "https://dx.doi.org/10.1371/journal.pntd.0003005.s008"], "stats"=>{"downloads"=>8, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Transcriptome_Sequencing_and_Developmental_Regulation_of_Gene_Expression_in_Anopheles_aquasalis_/1108992", "title"=>"Transcriptome Sequencing and Developmental Regulation of Gene Expression in <i>Anopheles aquasalis</i>", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-07-17 03:37:42"}
  • {"files"=>["https://ndownloader.figshare.com/files/1598932"], "description"=>"1<p>Includes all blood-fed samples.</p>", "links"=>[], "tags"=>["epidemiology", "disease vectors", "Infectious diseases", "Parasitic diseases", "malaria", "Computational biology", "genome analysis", "Transcriptome analysis", "Genome expression analysis", "genetics", "genomics", "Functional genomics", "organisms", "animals", "invertebrates", "arthropoda", "insects", "mosquitoes", "sequencing"], "article_id"=>1108990, "categories"=>["Biological Sciences"], "users"=>["André L. Costa-da-Silva", "Osvaldo Marinotti", "José M. C. Ribeiro", "Maria C. P. Silva", "Adriana R. Lopes", "Michele S. Barros", "Anderson Sá-Nunes", "Bianca B. Kojin", "Eneas Carvalho", "Lincoln Suesdek", "Mário Alberto C. Silva-Neto", "Anthony A. James", "Margareth L. Capurro"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0003005.t001", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Anopheles_aquasalis_sequencing_results_/1108990", "title"=>"<i>Anopheles aquasalis</i> sequencing results.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-07-17 03:37:42"}
  • {"files"=>["https://ndownloader.figshare.com/files/1598928"], "description"=>"<p>Distribution of the best matches of all <i>An. aquasalis</i> predicted proteins by organisms: Andar- <i>An. darlingi</i>; Angam- <i>An. gambiae</i>; Aeaeg, <i>Ae. aegypti</i>; Cuqui, <i>Cu. quinquefasciatus</i>; Drmel, <i>D. melanogaster</i>; Other <i>Anopheles</i> species; Other insects- not of the <i>Anopheles</i> genus; Other- non-insect organisms.</p>", "links"=>[], "tags"=>["epidemiology", "disease vectors", "Infectious diseases", "Parasitic diseases", "malaria", "Computational biology", "genome analysis", "Transcriptome analysis", "Genome expression analysis", "genetics", "genomics", "Functional genomics", "organisms", "animals", "invertebrates", "arthropoda", "insects", "mosquitoes", "matches", "proteins", "andar-", "angam-", "insects-", "other-", "non-insect"], "article_id"=>1108986, "categories"=>["Biological Sciences"], "users"=>["André L. Costa-da-Silva", "Osvaldo Marinotti", "José M. C. Ribeiro", "Maria C. P. Silva", "Adriana R. Lopes", "Michele S. Barros", "Anderson Sá-Nunes", "Bianca B. Kojin", "Eneas Carvalho", "Lincoln Suesdek", "Mário Alberto C. Silva-Neto", "Anthony A. James", "Margareth L. Capurro"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0003005.g002", "stats"=>{"downloads"=>2, "page_views"=>11, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Distribution_of_the_best_matches_of_all_An_aquasalis_predicted_proteins_by_organisms_Andar_An_darlingi_Angam_An_gambiae_Aeaeg_Ae_aegypti_Cuqui_Cu_quinquefasciatus_Drmel_D_melanogaster_Other_Anopheles_species_Other_insects_not_of_the_Anopheles_genus_Other/1108986", "title"=>"Distribution of the best matches of all <i>An. aquasalis</i> predicted proteins by organisms: Andar- <i>An. darlingi</i>; Angam- <i>An. gambiae</i>; Aeaeg, <i>Ae. aegypti</i>; Cuqui, <i>Cu. quinquefasciatus</i>; Drmel, <i>D. melanogaster</i>; Other <i>Anopheles</i> species; Other insects- not of the <i>Anopheles</i> genus; Other- non-insect organisms.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-07-17 03:37:42"}
  • {"files"=>["https://ndownloader.figshare.com/files/1598922"], "description"=>"<p>A total of 7544 contigs were assembled from ≥2 sequences. The number of sequences that compose each contig varies from 2 to 5,207, with an average of 35 sequences per contig. Forty-three percent of the assembled contigs contained 10 or more sequences.</p>", "links"=>[], "tags"=>["epidemiology", "disease vectors", "Infectious diseases", "Parasitic diseases", "malaria", "Computational biology", "genome analysis", "Transcriptome analysis", "Genome expression analysis", "genetics", "genomics", "Functional genomics", "organisms", "animals", "invertebrates", "arthropoda", "insects", "mosquitoes", "sequences", "composing", "assembled"], "article_id"=>1108980, "categories"=>["Biological Sciences"], "users"=>["André L. Costa-da-Silva", "Osvaldo Marinotti", "José M. C. Ribeiro", "Maria C. P. Silva", "Adriana R. Lopes", "Michele S. Barros", "Anderson Sá-Nunes", "Bianca B. Kojin", "Eneas Carvalho", "Lincoln Suesdek", "Mário Alberto C. Silva-Neto", "Anthony A. James", "Margareth L. Capurro"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0003005.g001", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_sequences_composing_the_assembled_An_aquasalis_contigs_/1108980", "title"=>"Number of sequences composing the assembled <i>An. aquasalis</i> contigs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-07-17 03:37:42"}
  • {"files"=>["https://ndownloader.figshare.com/files/1598931"], "description"=>"<p>Developmental gene regulations [up(U) or down(D)-regulation] between larvae and sugar fed females (L-S all) or between sugar fed females and blood fed females (S-B all) of <i>An. aquasalis</i> transcripts that have a homolog <i>An. gambiae</i> (best Blast match) represented in the GeneChip <i>Plasmodium</i>/<i>Anopheles</i> Genome Array <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0003005#pntd.0003005-Marinotti1\" target=\"_blank\">[42]</a>, <a href=\"http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0003005#pntd.0003005-Marinotti4\" target=\"_blank\">[95]</a> were compared. The pairwise comparisons including all <i>An. aquasalis</i>/<i>An. gambiae</i> homologous pairs of genes demonstrated a lack of conservation of developmental changes in transcript abundance between the two mosquito species. Similar analyses restricting the transcript list to putative 1∶1 ortholog pairs, defined by reciprocal blast and only those significantly regulated in <i>An. aquasalis</i>, with at least 3 fold change between two compared samples (L-S 1∶1 ort or S-B 1∶1 ort) showed that 75% the transcripts regulated by blood feeding were consistently up or down regulated in both species. Using the same restricted list of transcripts, only 49% of the transcripts were consistently up- or down-regulated between L-S in both species. Genes up-regulated or down-regulated in both species are indicated by (UU) or (DD), respectively. Transcripts differentially regulated between the two species are indicated by (UD/DU).</p>", "links"=>[], "tags"=>["epidemiology", "disease vectors", "Infectious diseases", "Parasitic diseases", "malaria", "Computational biology", "genome analysis", "Transcriptome analysis", "Genome expression analysis", "genetics", "genomics", "Functional genomics", "organisms", "animals", "invertebrates", "arthropoda", "insects", "mosquitoes"], "article_id"=>1108989, "categories"=>["Biological Sciences"], "users"=>["André L. Costa-da-Silva", "Osvaldo Marinotti", "José M. C. Ribeiro", "Maria C. P. Silva", "Adriana R. Lopes", "Michele S. Barros", "Anderson Sá-Nunes", "Bianca B. Kojin", "Eneas Carvalho", "Lincoln Suesdek", "Mário Alberto C. Silva-Neto", "Anthony A. James", "Margareth L. Capurro"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0003005.g004", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparisons_of_developmental_changes_in_gene_expression_between_An_aquasalis_and_An_gambiae_/1108989", "title"=>"Comparisons of developmental changes in gene expression between <i>An. aquasalis</i> and <i>An. gambiae</i>.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-07-17 03:37:42"}
  • {"files"=>["https://ndownloader.figshare.com/files/1598930"], "description"=>"<p>The numbers in parenthesis indicate the number of proteins in each category. apoptosis (64), cs- Cytoskeletal (278), detox- Detoxification (123), extmat- Extracellular matrix and adhesion (310), imm- Immunity (81), met/aa- Amino acids metabolism (87), met/carb- Carbohydrate metabolism (169), met/energy- Energy metabolism (145), met/int- Intermediary metabolism (48), met/lipd- Lipid metabolism (234), met/nuc- Nucleotide metabolism (54), mucin (82), ne- Nuclear export (19), nr- Nuclear regulation (118), pe- Protein export machinery (278), pm- Protein modification machinery (287), prot- Proteasome machinery (170), protease (94), protinh- Protease inhibitor (20), ps- Protein synthesis (283), st- Signal transduction (752), storage (11), te- Transposable element (29), tf- Transcription factor (97), tm- Transcription machinery (397), tr- Transporters and storage (536), vir- Viral product (4).</p>", "links"=>[], "tags"=>["epidemiology", "disease vectors", "Infectious diseases", "Parasitic diseases", "malaria", "Computational biology", "genome analysis", "Transcriptome analysis", "Genome expression analysis", "genetics", "genomics", "Functional genomics", "organisms", "animals", "invertebrates", "arthropoda", "insects", "mosquitoes", "annotated", "proteins"], "article_id"=>1108988, "categories"=>["Biological Sciences"], "users"=>["André L. Costa-da-Silva", "Osvaldo Marinotti", "José M. C. Ribeiro", "Maria C. P. Silva", "Adriana R. Lopes", "Michele S. Barros", "Anderson Sá-Nunes", "Bianca B. Kojin", "Eneas Carvalho", "Lincoln Suesdek", "Mário Alberto C. Silva-Neto", "Anthony A. James", "Margareth L. Capurro"], "doi"=>"https://dx.doi.org/10.1371/journal.pntd.0003005.g003", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Classification_of_the_annotated_An_aquasalis_proteins_in_functional_categories_/1108988", "title"=>"Classification of the annotated <i>An. aquasalis</i> proteins in functional categories.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-07-17 03:37:42"}

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