Species Publications

Publication details

The De Novo Transcriptome and Its Functional Annotation in the Seed Beetle Callosobruchus maculatus. (2016) PLoS One 11, e0158565.
Sayadi A, Immonen E, Bayram H, Arnqvist G
Abstract: Despite their unparalleled biodiversity, the genomic resources available for beetles (Coleoptera) remain relatively scarce. We present an integrative and high quality annotated transcriptome of the beetle Callosobruchus maculatus, an important and cosmopolitan agricultural pest as well as an emerging model species in ecology and evolutionary biology. Using Illumina sequencing technology, we sequenced 492 million read pairs generated from 51 samples of different developmental stages (larvae, pupae and adults) of C. maculatus. Reads were de novo assembled using the Trinity software, into a single combined assembly as well as into three separate assemblies based on data from the different developmental stages. The combined assembly generated 218,192 transcripts and 145,883 putative genes. Putative genes were annotated with the Blast2GO software and the Trinotate pipeline. In total, 33,216 putative genes were successfully annotated using Blastx against the Nr (non-redundant) database and 13,382 were assigned to 34,100 Gene Ontology (GO) terms. We classified 5,475 putative genes into Clusters of Orthologous Groups (COG) and 116 metabolic pathways maps were predicted based on the annotation. Our analyses suggested that the transcriptional specificity increases with ontogeny. For example, out of 33,216 annotated putative genes, 51 were only expressed in larvae, 63 only in pupae and 171 only in adults. Our study illustrates the importance of including samples from several developmental stages when the aim is to provide an integrative and high quality annotated transcriptome. Our results will represent an invaluable resource for those working with the ecology, evolution and pest control of C. maculatus, as well for comparative studies of the transcriptomics and genomics of beetles more generally.

Callosobruchus maculatus

[ Opisthokonta | Metazoa | Eumetazoa | . . .
. . . | Bruchinae | Bruchini | Callosobruchus ]

Callosobruchus_maculatus Picture Source
Taxonomy:Eukaryota | Opisthokonta | Metazoa | Eumetazoa | Bilateria | Protostomia | Ecdysozoa | Panarthropoda | Arthropoda | Mandibulata | Pancrustacea | Hexapoda | Insecta | Dicondylia | Pterygota | Neoptera | Endopterygota | Coleoptera | Polyphaga | Cucujiformia | Chrysomeloidea | Chrysomelidae | Bruchinae | Bruchini | Callosobruchus
Common:cowpea weevil, cowpea seed beetle
Ncbi Go to NCBI Taxonomy (64391)
Eol Encyclopedia of life
Wiki Wikipedia
Projects:
Rna_part International TSA Sequencing Consortium International TSA Sequencing Consortium: Callosobruchus maculatus TSA Sequencing Consortium
Rna_part National Center for Biotechnology Information

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Species:4870
References:153
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gen DNA Projects:3734
EST/cDNA Projects:849
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