Data from: Deer keds and blacklegged ticks infesting ungulates in the United States: molecular detection of Bartonella spp., Rickettsia spp., Anaplasma spp., and Borrelia spp.
Deer keds are blood-feeding flies from which several human and animal pathogens have been detected, including the causative agent of Lyme Disease (Borrelia burgdorferi). Cervids, which are the primary hosts of deer keds, are not natural reservoirs of B. burgdorferi, and it has been suggested that deer keds may acquire bacterial pathogens by co-feeding near ticks that are infected with the bacteria. We tested this hypothesis by using a molecular assay to screen for presence of Anaplasma spp., Bartonella spp., Borrelia spp., and Rickettsia spp. in specimens of European deer keds (n=306) and blacklegged ticks (n=315) collected from 38 individual white-tailed deer in Pennsylvania. There was limited similarity in the bacterial DNA detected between these ectoparasites per host, suggesting that co-feeding may not be a mechanism by which deer keds acquire these bacteria.
- 4x csv
Data from: Response to selection for parasitism of a sub-optimal, low-preference host in an aphid parasitoid
Data are presented on the response to selection and genetic architecture of parasitism of a sub-optimal, low-preference host species by an aphid parasitoid, Aphelinus rhamni, a candidate for introduction against the soybean aphid, *Aphis glycines*.
- 5x csv
Data from: Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation
We describe a method that adds long-read sequencing to a mix of technologies used to assemble a highly complex cattle rumen microbial community, and provide a comparison to short read-based methods. Long-read alignments and Hi-C linkage between contigs support the identification of 188 novel virus-host associations and the determination of phage life cycle states in the rumen microbial community. The long-read assembly also identifies 94 antimicrobial resistance genes, compared to only seven alleles in the short-read assembly.
Data from: Whole Genome Sequences of the Raspberry and Strawberry Pathogens Phytophthora rubi and P. fragariae
Phytophthora rubi and P. fragariae are two closely related soil-borne oomycete plant pathogens that exhibit strong morphological and physiological similarities but are specialized to infect different hosts of economic importance, namely, raspberry and strawberry. Here, we report the draft genome sequences of these two Phytophthora species as a first step toward understanding the genomic processes underlying plant host adaptation in these pathogens.
Data from: The Pacific Biosciences de novo assembled genome dataset from a parthenogenetic New Zealand wild population of the longhorned tick, Haemaphysalis longicornis Neumann, 1901
A New Zealand-USA consortium was established to sequence, assemble, and annotate the genome of Haemaphysalis longicornis, using ticks obtained from New Zealand's North Island.
Data from: Shared and unique microbes between Small hive beetles (Aethina tumida) and their honey bee hosts
The small hive beetle (SHB) *Aethina tumida* is an opportunistic parasite that feeds on bee larvae, honey, and pollen. To identify sets of beetle microbes and the transmission of microbes from bees to beetles, a metagenomic analysis was performed. We identified sets of herbivore‐associated bacteria, as well as typical bee symbiotic bacteria for pollen digestion, in SHB larvae and adults. Microbes found from Illumina DNA reads using Kraken include DNA reads aligned to HoloBee Bar database report, adult beetle microbe qPCR results from DNA extraction, adult beetle de novo assembled contig_names, larvae beetle Pacbio_reads.
AgBase
[AgBase](https://agbase.arizona.edu/index.html) Version 2.0 is a curated, open-source, Web-accessible resource for functional analysis of agricultural plant and animal gene products including gene ontology annotations. Its long-term goal is to serve the needs of the agricultural research communities by facilitating post-genome biology for agriculture researchers and for those researchers primarily using agricultural species as biomedical models. AgBase uses controlled vocabularies developed by the Gene Ontology (GO) Consortium to describe molecular function, biological process, and cellular component for genes and gene products in agricultural species.
SSN & STARS: Tools for Spatial Statistical Modeling on Stream Networks
SSN: An R Package for Spatial Statistical Modeling on Stream Networks
Spatial Tools for the Analysis of River Systems (STARS): ArcGIS toolset
NorWeST Stream Temperature Regional Database and Model
The NorWeST webpage hosts stream temperature data and climate scenarios in a variety of user-friendly digital formats for streams and rivers across the western U.S. Temperature data and model outputs, registered to NHDPlus stream lines, are posted to the website after QA/QC procedures and development of the final temperature model within a river basin.