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Transcriptome of the egg parasitoid Fopius arisanus: an important biocontrol tool for Tephritid fruit fly suppression.

Calla B, Sim SB, Hall B, DeRego T, Liang GH, Geib SM - Gigascience (2015)

Bottom Line: We have sequenced and assembled the transcriptome of this wasp using tissue from four different life stages: larvae, pupae, adult males and adult females, with the aim to contribute foundational resources to aid in the understanding of the biology and behavior of this important parasitoid.The distribution of transcript length is comparable to that found in other hymenoptera genomes.Approximately 4,000 core orthologs were found to be shared between F. arisanus and all four of the other parasitoids.

View Article: PubMed Central - PubMed

Affiliation: Tropical Crop and Commodity Protection Research Unit, Daniel K. Inouye United States Pacific Basin Agricultural Research Center, USDA Agricultural Research Services, Hilo, HI USA.

ABSTRACT

Background: The Braconid wasp Fopius arisanus (Sonan) has been utilized for biological control of the Mediterranean fruit fly (Ceratitis capitata), and the oriental fruit fly (Bactrocera dorsalis), both of which are phytophagous fruit fly pests of economic importance in many tropical and subtropical regions of the world. We have sequenced and assembled the transcriptome of this wasp using tissue from four different life stages: larvae, pupae, adult males and adult females, with the aim to contribute foundational resources to aid in the understanding of the biology and behavior of this important parasitoid.

Findings: The transcriptome of the parasitic wasp Fopius arisanus was sequenced and reconstructed using a strategy that identified 15,346 high confidence, non-redundant transcripts derived from 8,307 predicted unigenes. In addition, Pfam domain annotations were detected in 78 % of these transcripts. The distribution of transcript length is comparable to that found in other hymenoptera genomes. Through orthology analysis, 7,154 transcripts were identified as having orthologs in at least one of the four other hymenopteran parasitoid species examined. Approximately 4,000 core orthologs were found to be shared between F. arisanus and all four of the other parasitoids.

Conclusions: Availability of high quality genomic data is fundamental for the improvement and advancement of research in any biological organism. Parasitic wasps are important in the biological control of agricultural pests. The transcriptome data presented here represent the first large-scale molecular resource for this species, or any closely related Opiine species. The assembly is available in NCBI for use by the scientific community, with supporting data available in GigaDB.

No MeSH data available.


Related in: MedlinePlus

Comparison of F. arisanus transcriptome assembly to related hymenopteran parasitoids. Distribution of (a) transcript length and (b) predicted protein length of the F. arisanus transcriptome compared to published transcript and protein sets from related hymenopteran genomes (Copidosoma floridanum, Orussus abietinus [parasitic wood wasp], Trichogramma pretiosum, Nasonia vitripennis, and Apis mellifera) available on NCBI or the i5k web space (i5k.nal.usda.gov, [9])
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Fig1: Comparison of F. arisanus transcriptome assembly to related hymenopteran parasitoids. Distribution of (a) transcript length and (b) predicted protein length of the F. arisanus transcriptome compared to published transcript and protein sets from related hymenopteran genomes (Copidosoma floridanum, Orussus abietinus [parasitic wood wasp], Trichogramma pretiosum, Nasonia vitripennis, and Apis mellifera) available on NCBI or the i5k web space (i5k.nal.usda.gov, [9])

Mentions: Transcriptome data were compared with gene sets of four other parasitic wasps: Copidosoma floridanum (CFLO draft peptide set, i5k workspace [9]), Orussus abietinus (Parasitic Wood Wasp, OABI draft peptide set, i5k workspace), Trichogramma pretiosum (TPRE draft peptide set, i5k workspace), and Nasonia vitripennis Jewel Wasp, Nvit_OGSv1, [10]) (Fig. 1). In addition, data from Apis mellifera (European Honey Bee, amel_OGSv3.2, [10]) was used to provide comparison with a non-wasp hymenopteran species. Orthologous groups between predicted proteins for these species were identified using OrthoMCL [11, 12] with default parameters. Data were summarized to identify orthologs shared between species (Fig. 2). Peptide sequences for each species, and a putative ortholog list between species, is presented in the GigaDB accession associated with this publication [13].Fig. 1


Transcriptome of the egg parasitoid Fopius arisanus: an important biocontrol tool for Tephritid fruit fly suppression.

Calla B, Sim SB, Hall B, DeRego T, Liang GH, Geib SM - Gigascience (2015)

Comparison of F. arisanus transcriptome assembly to related hymenopteran parasitoids. Distribution of (a) transcript length and (b) predicted protein length of the F. arisanus transcriptome compared to published transcript and protein sets from related hymenopteran genomes (Copidosoma floridanum, Orussus abietinus [parasitic wood wasp], Trichogramma pretiosum, Nasonia vitripennis, and Apis mellifera) available on NCBI or the i5k web space (i5k.nal.usda.gov, [9])
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4524434&req=5

Fig1: Comparison of F. arisanus transcriptome assembly to related hymenopteran parasitoids. Distribution of (a) transcript length and (b) predicted protein length of the F. arisanus transcriptome compared to published transcript and protein sets from related hymenopteran genomes (Copidosoma floridanum, Orussus abietinus [parasitic wood wasp], Trichogramma pretiosum, Nasonia vitripennis, and Apis mellifera) available on NCBI or the i5k web space (i5k.nal.usda.gov, [9])
Mentions: Transcriptome data were compared with gene sets of four other parasitic wasps: Copidosoma floridanum (CFLO draft peptide set, i5k workspace [9]), Orussus abietinus (Parasitic Wood Wasp, OABI draft peptide set, i5k workspace), Trichogramma pretiosum (TPRE draft peptide set, i5k workspace), and Nasonia vitripennis Jewel Wasp, Nvit_OGSv1, [10]) (Fig. 1). In addition, data from Apis mellifera (European Honey Bee, amel_OGSv3.2, [10]) was used to provide comparison with a non-wasp hymenopteran species. Orthologous groups between predicted proteins for these species were identified using OrthoMCL [11, 12] with default parameters. Data were summarized to identify orthologs shared between species (Fig. 2). Peptide sequences for each species, and a putative ortholog list between species, is presented in the GigaDB accession associated with this publication [13].Fig. 1

Bottom Line: We have sequenced and assembled the transcriptome of this wasp using tissue from four different life stages: larvae, pupae, adult males and adult females, with the aim to contribute foundational resources to aid in the understanding of the biology and behavior of this important parasitoid.The distribution of transcript length is comparable to that found in other hymenoptera genomes.Approximately 4,000 core orthologs were found to be shared between F. arisanus and all four of the other parasitoids.

View Article: PubMed Central - PubMed

Affiliation: Tropical Crop and Commodity Protection Research Unit, Daniel K. Inouye United States Pacific Basin Agricultural Research Center, USDA Agricultural Research Services, Hilo, HI USA.

ABSTRACT

Background: The Braconid wasp Fopius arisanus (Sonan) has been utilized for biological control of the Mediterranean fruit fly (Ceratitis capitata), and the oriental fruit fly (Bactrocera dorsalis), both of which are phytophagous fruit fly pests of economic importance in many tropical and subtropical regions of the world. We have sequenced and assembled the transcriptome of this wasp using tissue from four different life stages: larvae, pupae, adult males and adult females, with the aim to contribute foundational resources to aid in the understanding of the biology and behavior of this important parasitoid.

Findings: The transcriptome of the parasitic wasp Fopius arisanus was sequenced and reconstructed using a strategy that identified 15,346 high confidence, non-redundant transcripts derived from 8,307 predicted unigenes. In addition, Pfam domain annotations were detected in 78 % of these transcripts. The distribution of transcript length is comparable to that found in other hymenoptera genomes. Through orthology analysis, 7,154 transcripts were identified as having orthologs in at least one of the four other hymenopteran parasitoid species examined. Approximately 4,000 core orthologs were found to be shared between F. arisanus and all four of the other parasitoids.

Conclusions: Availability of high quality genomic data is fundamental for the improvement and advancement of research in any biological organism. Parasitic wasps are important in the biological control of agricultural pests. The transcriptome data presented here represent the first large-scale molecular resource for this species, or any closely related Opiine species. The assembly is available in NCBI for use by the scientific community, with supporting data available in GigaDB.

No MeSH data available.


Related in: MedlinePlus