Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Comparative summary of R. ferrugineus, D. ponderosae and I. typographus antennal transcriptome sequencing assembly and annotation

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques: Sequencing

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: The most abundant mRNA in R. ferrugineus antenna

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques: Sequencing, Binding Assay

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Venn diagram showing comparative analysis of R. ferrugineus antennal transcriptome. Comparative analysis of R. ferrugineus (Rfer) antennal transcriptome with those of D. ponderosae (Dpon) and I. typographus (Ityp) . The diagram shows the blast homology genes in the antenna of R. ferrugineus, D. ponderosae and I. typographus . The comparative analyses antennal unigenes were performed based on the best bidirectional hits results (reciprocal BLASTx, e-value less than 1.0E − 6)

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Maximum likelihood (ML) tree of the odorant binding protein (OBP). Bombyx mori OBPs were used as reference to classify the R. ferrugineus OBPs and the ML analysis was computed using MEGA (v.6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). The coleopteran OBPs; T. castaneum OBPs, D. ponderosae and I. typographus were also used to construct the tree with R. ferrugineus OBPs. R. ferrugineus OBPs transcripts and node are marked with red color. R. ferrugineus OBPs putatively identified are highlighted. GenBank accession numbers are indicated. Scale 0.4 amino acid substitution per site

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques: Binding Assay, Construct

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Alignment of the R. ferrugenieus CSPs contigs with B. mori CSP17. Highly conserved cysteine are shown with dark arrowhead above. Conserved three aromatic residues (54Y (Tyr), 116 W (Trp) or F (Phe) and 129Y or F) shown in hollow arrowheads. Hydrophobic residues at the two mouths of the channels are marked with double arrowheads, as reported with B. mori . Alpha helical domains (1α-6α) in R. ferrugineus is identified based on the B. mori , and the amino acids underlined

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Maximum likelihood (ML) tree of the chemosensory proteins (CSP). Bombyx mori CSPs were used as reference to identify the R. ferrugineus CSPs and the ML analysis was computed using MEGA (v.6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). Insect CSPs: D. melanogaster, H. virescens, T. castaneum , D. ponderosae and I. typographus were also used for the construction tree. R. ferrugineus CSP transcripts and nodes are marked with red color and B. mori CSPs and nodes are with blue color. Coleopteran specific CSP clades are highlighted with yellow color. Dipteran specific CSP clade are highlighted with green. GeneBank accession nos are indicated. Scale 0.6 amino acids substitution per site

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Maximum likelihood tree of candidate odorant receptor (OR) proteins from R. ferrugineus . ML analysis was computed using MEGA (v.6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). Insect ORs: T. castaneum , M. caryae, D. ponderosae and I. typographus were also used for the construction of the tree. R. ferrugineus ORs transcripts and nodes are marked with red color. The branch containing D. melanogaster Orco was used as outgroup to root the tree. The different subfamily (numbered 1–7 according to Engsontia et al., ; Mitchell et al., ; Andersson et al., colored group as indicated. Two new subfamilies (named VIII and IX) proposed as shown in the figure. GenBank accession nos are indicated. Scale 0.6 amino acid substitutions per site. Refer Additional file : Table S3 for the details of GenBank accession nos

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Maximum likelihood tree of candidate odorant receptor (OR) proteins from R. ferrugineus highlighting sex pheromone receptors and aggregation pheromone receptors. ML analysis was computed using MEGA (v.6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). Insect ORs: T. castaneum , M. caryae, D. ponderosae and I. typographus were used for the construction of the tree. Functionally characterized moth pheromone receptors ( B. mori, O. scapulalis, M. sexta, S. exigua, Cydia pomonella, P. xylostella and H. virescens ) were included in the tree construction and PR clade is highlighted. R. ferrugineus ORs transcripts and nodes are marked with red color. M. caryae aggregation pheromone receptors and nodes are marked with blue color. The branch containing D. melanogaster Orco was used as outgroup to root the tree. The M. caryae aggregation PR is highlighted with yellow and moth PR with green color. GenBank accession nos are indicated. Scale 0.5 amino acid substitutions per site

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Unrooted tree of putative R. ferrugineus IRs with those of D. melanogaster, T. castaneum , D. ponderosae and I. typographus IRs. ML analysis was computed using MEGA (v6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). R. ferrugineus candidate IR, iGluRs, kainite and NMDA depicted in blue, green, red and pink font. GenBank accession numbers are indicated. Each color represents a group of orthologous sequences and group name and node are colored. IRs, iGluRs, kainite and NMDA clades are highlighted with yellow, green, pink and grey colors, respectively. Scale bar represents the 0.4 amino acids substitutions per site

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Unrooted tree of putative R. ferrugineus SNMPs with D. melanogaster, D. pseudoobscura, Culex pipiens, A. gambiae, A. aegypti, T. castaneum and D. ponderosae SNMPs. ML analysis was computed using MEGA (v.6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). GenBank accession numbers are indicated. R. ferrugineus SNMPs are shown in red color. Lepidoptera, diptera and coleoptera clades are highlighted in yellow, grey and green color respectively. Scale represent 0.2 amino acid substitution per site

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques:

Journal: BMC Genomics

Article Title: Identification of the genes involved in odorant reception and detection in the palm weevil Rhynchophorus ferrugineus , an important quarantine pest, by antennal transcriptome analysis

doi: 10.1186/s12864-016-2362-6

Figure Lengend Snippet: Unrooted tree of putative R. ferrugineus GRs constructed with those of D. melanogaster , D. ponderosae, I. typographus and T. castaneum . ML analysis was computed using MEGA (v.6.0) (JTT model for ML heuristic searches methods was Nearest-Neighbor-Interchange). R. ferrugineus GR transcripts and node are marked with red color. R. ferrugineus GRs putatively identified as GR92a (contig 3343), 21a (contig 15201 and 29259), 98b (contig 4762), 68a (contig 16597, 29157 and 34189), 43a (contig 12934) and 85a (contig 31924) are highlighted in green, pink, purple, blue, gray and red color. T. castaneum specific GR clade is shown in peach color. Coleopteran specific clade close to Dmel66a is shown in yellow color. GenBank accession numbers are indicated. Scale represent 0.2 amino acid substitution per site. Refer Additional file : Table S3for the details of GenBank accession nos

Article Snippet: Interestingly, R. ferrugineus CSPs (contigs 24217, 21453, 32472, 33990, 20233 and RPW_CSP_unigene 1) are more similar to the CSPs in B. mori and H. virescens than those in coleopterans (Fig. ).

Techniques: Construct