,Deep sequencing technologies were used to construct the first adult female Culicoides sonorensis reference transcriptome.,Genetic and genomic tools for Culicoides biting midges are lacking, despite the fact that they vector a large number of arboviruses and other pathogens impacting humans and domestic animals world-wide. Libraries of tissue-specific transcripts expressed in response to feeding and oral virus challenge in C. sonorensis have previously been reported, but extensive genome-wide expression profiling in the midge has not. Here, we successfully used deep sequencing technologies to construct the first adult female C. sonorensis reference transcriptome, and utilized genome-wide expression profiling to elucidate the genetic response to blood and sucrose feeding over time. The adult female midge unigene consists of 19,041 genes, of which less than 7% are differentially expressed during the course of a sucrose meal, while up to 52% of the genes respond significantly in blood-fed midges, indicating hematophagy induces complex physiological processes. Many genes that were differentially expressed during blood feeding were associated with digestion (e.g. proteases, lipases), hematophagy (e.g., salivary proteins), and vitellogenesis, revealing many major metabolic and biological factors underlying these critical processes. Additionally, key genes in the vitellogenesis pathway were identified, which provides the first glimpse into the molecular basis of anautogeny for C. sonorensis. This is the first extensive transcriptome for this genus, which will serve as a framework for future expression studies and in informing a reference genome assembly and annotation. Moreover, this study will serve as a foundation for subsequent studies of genome-wide expression analyses during early virus infection and dissecting the molecular mechanisms behind vector competence in midges.,

,The pecan weevil, Curculio caryae (Horn), is an obligate feeder of pecan and native hickory throughout North America. Subsequently it is a significant agricultural pest in commercial pecan orchards. In this study, we present a reference quality genome using deep-coverage, ~50x PacBio HiFi genome sequence reads, and chromatic confirmation, Hi-C, scaffolding. The final genome assembly is approximately 2.1 Gb, which was confirmed with flow cytometry. The primary genome scaffolds have an N50 of 132 Mb and a BUSCO completeness of 99.1% [S:97.5%, D:1.6%]. Furthermore, we employed PacBio long-read RNA, Iso-seq, for de novo annotation, followed by InterProscan to identify approximately 16,000 protein coding genes. Repeat content is extensive, contributing to >75% of the total genome. This data set provides a valuable resource for use in comparative genomics and evolutionary studies for an economically impactful group of insect pests that currently lack genomic resources.,

Lake Sinai Viruses (LSV) are common ribonucleic acid (RNA) viruses of honey bees (Apis mellifera) that frequently reach high abundance but are not linked to overt disease. LSVs are genetically heterogeneous and collectively widespread, but despite frequent detection in surveys, the ecological and geographic factors structuring their distribution in A. mellifera are not understood. Even less is known about their distribution in other species. Better understanding of LSV prevalence and ecology have been hampered by high sequence diversity within the LSV clade. We developed a new genetic assay that detects all currently known lineages. We also performed pilot metagenetic sequencing to quantify the diversity of LSV sequences. The resulting data are summarized herein.

Lake Sinai Viruses (LSV) are common ribonucleic acid (RNA) viruses of honey bees (Apis mellifera) that frequently reach high abundance but are not linked to overt disease. LSVs are genetically heterogeneous and collectively widespread, but despite frequent detection in surveys, the ecological and geographic factors structuring their distribution in A. mellifera are not understood. Even less is known about their distribution in other species. Better understanding of LSV prevalence and ecology have been hampered by high sequence diversity within the LSV clade. We developed a new genetic assay that detects all currently known lineages. We also performed pilot metagenetic sequencing to quantify the diversity of LSV sequences. The resulting data are summarized herein.

,The Leptinotarsa decemlineata genome was recently sequenced and annotated as part of the i5k pilot project by the Baylor College of Medicine. This dataset presents the Leptinotarsa decemlineata gene set BCM_v_0.5.3, which was generated computationally. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Leptinotarsa decemlineata genome assembly 1.0. Further annotation method details will be available in a forthcoming publication.,NOTE: This gene set is an unstable pre-release (v0.5.3), and was provided to facilitate manual curation and analyses before the official gene set is released. Gene identifiers from this gene set will likely not be maintained.,If you wish to use this dataset, please follow the Baylor College of Medicine's conditions for data use: https://www.hgsc.bcm.edu/bcm-hgsc-conditions-use,

,The Homalodisca vitripennis genome was recently sequenced and annotated as part of the i5k pilot project by the Baylor College of Medicine.,The Glassy-winged sharpshooter, GWSS, (Homalodisca vitripennis) [Hemiptera: Cicadellidae], occurs naturally within the southern United States. Once restricted to the southeastern states, it was accidentally spread across the south into California. The GWSS is a voracious feeder, and can fly long distances, preferring to feed upon cultivated crops, ie. Grapevine, fruit trees, and in the nymphal stages many weeds and grasses. The GWSS is a serious threat to the viticulture industry as the primary vector of the plant-infecting bacterium, Xylella fastidiosa, Xf. The GWSS feeds on a diverse number of plants, during which the bacteria can infect many tree fruit, nut, vine, and woody ornamental crops. Glassy-winged Sharpshooter adults are ½ inch (13mm) long being fairly large for the Sharpshooter leafhopper family of insects. Sharpshooters use an ovipositor to lay eggs inside of the underside of leaves. The Sharpshooter will lay its eggs on almost any plant including cactus. The egg masses are usually composed of 10-20 eggs, but can lay more or as few as 1. Most of the egg masses have a waxy coating of brocosomes around the eggs for protection. The nymphs (5 instars) do not have wings, but develop wing pads in the 5th instar and are generally smaller than the adults, ranging in size from .07 inches (2 mm) to nearly ½ inch (13mm) long. The nymphs have very distinct red eyes. The Sharpshooter can consume about 300 times its own weight in fluids from the xylem vessels of the plants upon which it feeds, thus producing copious amounts of excreta fluid.,This dataset presents the Homalodisca vitripennis genome v1.0. This assembly version is the pre-release version, prior to filtering and quality control by the National Center for Biotechnology Information's GenBank resource (https://www.ncbi.nlm.nih.gov/assembly/GCA_000696855.1). Assembly method details will be available in a forthcoming publication.,NOTE: This gene set is an unstable pre-release (v0.5.3), and was provided to facilitate manual curation and analyses before the official gene set is released. Gene identifiers from this gene set will likely not be maintained.,If you wish to use this dataset, please follow the Baylor College of Medicine's conditions for data use: https://www.hgsc.bcm.edu/bcm-hgsc-conditions-use,

,The stable fly, Stomoxys calcitrans L. (Diptera: Muscidae), is one of the most significant pests of livestock in the United States. The identification of targets for the development of novel control for this pest species, focusing on those molecules that play a role in successful feeding and reproduction, is critical to mitigating its impact on confined and rangeland livestock. This data set was obtained from pyrosequencing of stable fly immature and adult specimens, comprising genes expressed at these stages. Stable fly specimens were obtained from an in vitro colony that is maintained at the Knipling-Bushland U.S. Livestock Insects Research Laboratory (Kerrville, TX) at 27°C, 60% RH, and a photoperiod of 12:12 [L:D] h. The stages included 1 g each of newly laid (t0) and 24 h post-oviposition (t24) embryos, 5 g of pooled 2nd–3rd instar larvae (late larvae), 2.5 g newly pupariated pupae (early pupae), 5 g pharate adults (pupae 2 d prior to eclosion; late pupae), and 1.5 g each of heads from unfed adult females and males (adult). Total RNA was isolated from various stages using the ToTALLY RNA Isolation Kit (Ambion, Foster City, CA) following the manufacturer’s protocol. Five micrograms of normalized cDNA was prepared for sequencing on the 454/ Roche GS-FLX. Double-stranded cDNA was nebulized to generate nominal 500-kb fragments and a shotgun library prepared for GS-FLX sequencing as per the manufacturer’s instructions (Roche, Indianapolis, IN). The sequencing library was run on a full picotitre plate and resulting data submitted to NCBI Short Read Archive (SRX018014). The resulting sequence data was assembled using newbler (RocheN) and the assembly optimized using a beta version of NGEN (DNAstar, Madison, WI) and Seqman (DNAstar, Oxford, UK). BLASTx was utilized based upon W.ND-BLAST (Dowd et al., 2005) against an embl-derived database for Drosophila (2008). Functional annotations were derived using DAVID (Dennis et al., 2003).,Raw reads were submitted to the Sequence Read Archive (SRA) Database at NCBI.,

These data contain the results of ʻōhiʻa seedlings challenged with different ambrosia beetle (Coleoptera: Curculionidae) species that were exposed to either Ceratocystis lukuohia or Ceratocystis huliohia in culture. Disease development, viability, and DNA confirmation data were recorded.