E xpressed S equence T ags ( ESTs ) analysis of T enebrio molitor larvae
T enebrio molitor has been seriously investigated as a model insect in elucidating Toll signaling pathway and related regulators of innate immunity. However, little is known with regards to the genomic information in T . molitor . In an attempt towards exploiting the rich transcriptomics data that w...
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Veröffentlicht in: | Entomological research 2013-05, Vol.43 (3), p.168-176 |
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Hauptverfasser: | , , , , , , , , , , |
Format: | Artikel |
Sprache: | eng |
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Zusammenfassung: | T
enebrio molitor
has been seriously investigated as a model insect in elucidating Toll signaling pathway and related regulators of innate immunity. However, little is known with regards to the genomic information in
T
. molitor
. In an attempt towards exploiting the rich transcriptomics data that would offer further insights into the study on insect immunity through potential screening of immune‐related genes in the model insect, we constructed a
cDNA
library (library titer = 5.0 × 10
5
pfu/ml) of
T
. molitor
larvae and analyzed expressed sequence tag (
EST
) sequences from 1056 clones. The base calling and quality check of obtained chromatogram files were performed by using the
P
hred program (trim_alt 0.05 (
P
‐score > 20). After removal of vector and 100 bp and less sequences, 1023 sequences were generated having an average insert size of 792 bp, including 160 clusters, 164 contigs and 387 singletons through clustering and assembling process using the
TGI
Clustering Tools (
TGICL
) package. The unique
EST
sequences were searched against the
NCBI
nr database by local
BLAST
(blastx,
E
< e
−5
) with 940 sequences showing significant hits. Subsequently,
KOG
(clusters of orthologous groups for eukaryotic complete genomes) analysis was conducted (blastx,
E
< e
−10
) towards prediction of transcriptomal functions, leading to the categorization of 638 genes. The majority of genes belonged to
Z
category (cytoskeleton‐related genes),
R
category (general function prediction), and
C
category (energy production and conversion related genes). These basic
EST
datasets and their bioinformatics analysis will be helpful in investigating the biological mechanism and molecular pathway related genes involved in innate immunity mechanisms of
T
. molitor
. |
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ISSN: | 1738-2297 1748-5967 |
DOI: | 10.1111/1748-5967.12019 |