Open Access Highly Accessed Research article

A de novo transcriptome of the Asian tiger mosquito, Aedes albopictus, to identify candidate transcripts for diapause preparation

Monica F Poelchau1*, Julie A Reynolds2, David L Denlinger2, Christine G Elsik1 and Peter A Armbruster1

Author Affiliations

1 Department of Biology, Georgetown University, 37th and O Streets NW, Washington, DC, USA

2 Department of Entomology, Ohio State University, 318 W 12th Ave., Columbus, Ohio, USA

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BMC Genomics 2011, 12:619  doi:10.1186/1471-2164-12-619

Published: 20 December 2011

Additional files

Additional file 1:

Distribution of the number of ESTs assigned to a reference gene. The x-axis is truncated at 100 EST matches per gene; 29 genes with 100-5,613 ESTs assigned to them are not included on the graph.

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Additional file 2:

Box plot of the percent length of each putative homolog matched by its Ae. albopictus EST. Only ESTs from the "final" EST set are included. Reference length coverage values, which are calculated as the alignment length from the BLAST match, divided by the transcript length of the putative homolog. are displayed for each reference organism. Ae. aegypti genomic matches are not shown, as they encompass large stretches of non-coding sequence, and therefore the percent of the reference matched is unclear. Box plot symbols as in Figure 3.

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Additional file 3:

Box-plot of percent identities from BLAST alignments of final ESTs to each reference organism. Box plot symbols as in Figure 3.

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Additional file 4:

Gene accumulation curve of Ae. albopictus ESTs. The average cumulative number of recovered Ae. aegypti transcripts, plotted against the number of reads needed to obtain that number. All reads were searched against Ae. aegypti transcripts via blastn. The BLAST output order was randomized 1,000 times, and the average number of transcripts discovered with each additional read was calculated.

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Additional file 5:

Characteristics of all differentially expressed genes from the 454 dataset. Gene ontology assignment, BLAST alignment, and expression statistics for the putative homolog of each differentially expressed EST.

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Additional file 6:

Results of qPCR validation. Experimental details and results of qPCR for genes chosen for qPCR validation based on 454 differential expression or a priori expectation from previous diapause studies. Both putative functional information from the gene's homolog, as well as reaction conditions from the qPCR experiments, are shown. Fold-change values for qPCR experiments are given as log2(DI-NDI), where positive values indicate higher expression under DI conditions, and negative values indicate higher expression under NDI conditions.

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Additional file 7:

Gene IDs of Ae. albopictus rRNA and Wolbachia spp. used to pre-screen reads.

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Additional file 8:

MIRA command line used for transcriptome assembly. MIRA commands used to perform de novo transcriptome assembly on Ae. albopictus oocyte cDNA libraries generated under diapause-inducing and non-diapause-inducing photoperiods.

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