Fig 1.
cDNA library construction for transcriptome analysis of fat body tissues from Rhynchophorus ferrugineus.
Fig 2.
Diagram of the fat body tissues of Rhynchophorus ferrugineus unigene clusters assembly process.
Table 1.
List of primers used for confirmation of the identified RfVg genes via RT-PCR.
Fig 3.
Length distribution of contig sequences from the transcriptome data of Rhynchophorus ferrugineus fat body tissues.
Nucleotide sequence size (nt) and number of contigs are shown on the X- and Y-axes, respectively.
Fig 4.
Length distribution of unigene sequences from transcriptome data of Rhynchophorus ferrugineus fat body tissues.
Nucleotide sequence size (nt) and number of unigenes are shown on the X- and Y-axes, respectively.
Table 2.
Summary of the Rhynchophorus ferrugineus fat body tissue transcriptome.
Fig 5.
Venn diagram of annotated unigenes from the Rhynchophorus ferrugineus fat body tissues transcriptome sequence using BLASTX (E-value < 0.00001) and protein databases Swiss-Prot, KEGG, NR, and COG.
Table 3.
Summary of unigene annotation of the Rhynchophorus ferrugineus fat body tissues transcriptome.
Fig 6.
E-value, sequence similarity, and species distribution of the Rhynchophorus ferrugineus fat body transcriptome sequences.
(A) E-value distribution of top BLASTX hits against the non-redundant (NR) database for each unigene. (B) Sequence similarity distribution of the NR annotation results. (C) Species distribution of top BLASTX hits against the NR database.
Fig 7.
Functional classification of unigenes from the Rhynchophorus ferrugineus fat body transcriptome according to COG criteria.
Fig 8.
Gene Ontology (GO) classification of identified unigenes from Rhynchophorus ferrugineus fat body tissues transcriptome.
Functional classes “biological process,” “cellular components,” and “molecular function” are indicated by green, yellow, and red colors, respectively.
Fig 9.
Kyoto Encyclopedia of Genes and Genomes pathway annotation of the Rhynchophorus ferrugineus fat body tissues transcriptome.
Genes related to (A) metabolism, (B) cellular processes, (C) organismal systems, (D) genetic information processing, (E) diseases, and (F) environmental information processing were annotated.
Fig 10.
Length distribution of unigenes from CDS of Rhynchophorus ferrugineus fat body tissues transcriptome data.
Nucleotide sequence size (nt) and numbers of unigenes BLASTed are indicated on the X- and Y-axes, respectively.
Fig 11.
Length distribution of EST scanned CDS from transcriptome data of Rhynchophorus ferrugineus fat body tissues.
Nucleotide sequence size (nt) and numbers of unigene EST scans are indicated on the X- and Y-axes, respectively.
Table 4.
Summary of simple sequence repeats (SSRs).
Table 5.
Summary of SNPs (single nucleotide polymorphisms).
Table 6.
Reproduction control genes identified from the fat body tissues transcriptome of Rhynchophorus ferrugineus.
Fig 12.
The RT-PCR based confirmation of RfVg transcripts identified through transcriptome data.
Agarose gel (2%) was used to analyze the amplified PCR products. M indicates the molecular-weight marker (bp). The size of the RfVg amplified products and actin genes are indicated on the right side.
Fig 13.
Neighbor-joining phylogenetic tree of 80 insect Vgs representing 7 orders.
The amino acid sequences were aligned using the ClustalW program and used as input for a neighbor-joining tree construction program (MEGA6) (Tamura et al. 2013). Scale 0.2 indicates distance (number of amino acid substitutions per site). Species belonging to different orders are indicated with bolls of different colors. Gallus gallus (representing galliformes) Vg was used as an out-group.
Table 7.
The highly expressed transcripts in Rhynchophorus ferrugineus fat body tissues transcriptome.