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. 2011 Nov;3(11):2339-50.
doi: 10.3390/v3112339. Epub 2011 Nov 21.

The Lymantria dispar IPLB-Ld652Y cell line transcriptome comprises diverse virus-associated transcripts

Michael E Sparks  1 , Dawn E Gundersen-Rindal
Affiliations

The Lymantria dispar IPLB-Ld652Y cell line transcriptome comprises diverse virus-associated transcripts

Michael E Sparks et al. Viruses. 2011 Nov.

Abstract

The enhanced viral susceptibility of the gypsy moth (Lymantria dispar)-derived IPLB-Ld652Y cell line has made it a popular in vitro system for studying virus-related phenomena in the Lepidoptera. Using both single-pass EST sequencing and 454-based pyrosequencing, a transcriptomic library of 14,368 putatively unique transcripts (PUTs) was produced comprising 8,476,050 high-quality, informative bases. The gene content of the IPLB-Ld652Y transcriptome was broadly assessed via comparison with the NCBI non-redundant protein database, and more detailed functional annotation was inferred by comparison to the Swiss-Prot subset of UniProtKB. In addition to L. dispar cellular transcripts, a diverse array of both RNA and DNA virus-associated transcripts was identified within the dataset, suggestive of a high level of viral expression and activity in IPLB-Ld652Y cells. These sequence resources will provide a sound basis for developing testable experimental hypotheses by insect virologists, and suggest a number of avenues for potential research.

Keywords: EST; IPLB-Ld652Y; Lepidoptera; RNA-Seq; transcriptomics.

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Figures

Figure 1.
Figure 1.
(a) Comparison of PUT 1114 to RdRps identified in Eubacterium eligens and Burkholderia multivorans. (b) Comparison of PUT 1605 with an RdRp identified in Dictyostelium discoideum.
Figure 2.
Figure 2.
(a) Absolute frequencies of the 10 most abundant Pfam protein families encountered in the Ld652Y cell line PUT collection. Counts denote the number of distinct PUTs that encoded the eponymous domain. More complete descriptions of Pfam identifiers are available from the Pfam resource [33]. (b) Absolute frequencies of the 10 most abundant KEGG reaction terms encountered by pathway analysis. More complete descriptions of KEGG terms are available from the Kyoto Encyclopedia of Genes and Genomes [34].
Figure 2.
Figure 2.
(a) Absolute frequencies of the 10 most abundant Pfam protein families encountered in the Ld652Y cell line PUT collection. Counts denote the number of distinct PUTs that encoded the eponymous domain. More complete descriptions of Pfam identifiers are available from the Pfam resource [33]. (b) Absolute frequencies of the 10 most abundant KEGG reaction terms encountered by pathway analysis. More complete descriptions of KEGG terms are available from the Kyoto Encyclopedia of Genes and Genomes [34].
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