Timeline / Data.gov — Health Datasets

changed Source changed

A new raw object was archived. Both versions are preserved. 5764 line(s) added, 4064 line(s) removed.

Evidence

What changed derived

This diff is not evidence. It was produced by civic-memory.diff_engine 1.1.0 at 2026-10-09T18:22:19+00:00 by normalizing the two archived objects above. The objects are authoritative; this reading of them can be regenerated or deleted without loss. 5764 line(s) added, 4064 line(s) removed.

--- previous
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However, since full viral genomes are used in HoloBee-Barcode, only redundant viral sequences occur in HoloBee-Mop. All accessions within each of these assemblies were concatenated into a single fasta formatted file to create the HoloBee-Mop database. The intended purpose of HoloBee-Mop is to improve honey bee genome and transcriptome assemblies by “mopping-up” as much viral, bacterial, fungal, protozoan and non-honey bee metazoan sequence data as possible. Therefore, sequence data remaining after processing reads through both HoloBee-Barcode and HoloBee-Mop that do not map to the honey bee genome may contain unique data from taxonomic variants or novel species. Details for each sequence assembly within HoloBee-Mop are tabulated in cross reference tables according to each major taxonomic group. 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We note that <em>A. cerana</em> mtDNA is included because it is considered a potentially invasive honey bee species and monitoring for its occurrence is in practice regionally, including in Australia, New Zealand and the USA. Protozoan barcodes include cytochrome b oxidase (Cytb), SSU, or ITS while entire genomes are used for viral barcoding. </p>\n<p><strong>HoloBee-Mop</strong> is a database comprised mostly of chromosomal, mitochondrial and plasmid genome assemblies in order to aggregate as much honey bee holobiont genomic sequence information as possible. For a few organisms without genome assembly data, transcriptome data are included (e.g. <em>Aethina tumida</em>, small hive beetle). Unlike HoloBee-Barcode, redundancy removal was not performed on the HoloBee-Mop database and thus this resource provides an archive of nucleotide sequence assemblies from honey bee holobionts. However, since full viral genomes are used in HoloBee-Barcode, only redundant viral sequences occur in HoloBee-Mop. All accessions within each of these assemblies were concatenated into a single fasta formatted file to create the HoloBee-Mop database. The intended purpose of HoloBee-Mop is to improve honey bee genome and transcriptome assemblies by “mopping-up” as much viral, bacterial, fungal, protozoan and non-honey bee metazoan sequence data as possible. Therefore, sequence data remaining after processing reads through both HoloBee-Barcode and HoloBee-Mop that do not map to the honey bee genome may contain unique data from taxonomic variants or novel species. Details for each sequence assembly within HoloBee-Mop are tabulated in cross reference tables according to each major taxonomic group. HoloBee-Mop assembly counts are: Viruses = 2; Bacteria = 55; Fungi = 5; Protozoa = 1; Metazoa = 6.</p>\n<p>Follow the HoloBee database on Twitter at: <a href=\"https://twitter.com/HoloBee_db\">https://twitter.com/HoloBee_db</a></p>\n<p>For questions about the HoloBee database, contact:\nHoloBee database team: holobee.db@gmail.com\nJay Evans: Jay.Evans@ars.usda.gov\nAnna Childers: Anna.Childers@ars.usda.gov</p>\n<div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: HoloBee_v2016.1 sequence database.</p> <p>File Name: HB_v2016.1.zip</p><p>Resource Description: This compressed file contains two fasta sequence files: \n\n1. HB_Bar_v2016.1.fasta (HoloBee-Barcode database)\n2. 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+ "description": "<div><span style='color:rgb(51, 51, 51); font-family:Arial, Helvetica, sans-serif; font-size:14px;'>FHAAST provides support for both tactical and strategic forest health risk assessments. In addition, this program coordinates, in collaboration with the USDA Forest Service Forest Health Monitoring program (FHM), the development of a National Insect and Disease Risk Map (NIDRM) and database.</span><br /></div><div><span style='color:rgb(51, 51, 51); font-family:Arial, Helvetica, sans-serif; font-size:14px;'><br /></span></div>FHAAST has completed the <a href='https://www.fs.usda.gov/foresthealth/applied-sciences/mapping-reporting/national-risk-maps.shtml' target='_blank' rel='nofollow ugc noopener noreferrer'>2013 - 2027 National Insect and Disease Risk Map</a> (2012 NIDRM); a nationwide strategic assessment and database of the potential hazard for tree mortality due to major forest insects and diseases. The goal of NIDRM is to summarize landscape-level patterns of potential insect and disease activity, consistent with the philosophy that science-based, transparent methods should be used to allocate pest-management resources across geographic regions and individual pest distributions. In other words: prioritize investment for areas where both hazard is significant and effective treatment can be efficiently implemented.<div><br /></div><div><p style='box-sizing:border-box; margin-top:0px; margin-bottom:10px; font-size:14px; color:rgb(51, 51, 51); font-family:Arial, Helvetica, sans-serif;'>NIDRM data can be used to:</p><ul><li>Identify the potential impacts of pests and pathogens to forest ecosystems throughout the US for the 2013 - 2027 timeframe.</li><li>Generate forest pest and pathogen risk maps at a scale useful for resource planning and management purposes in many of our National Forests, National Parks, and other local units.</li><li>Develop an effective strategic planning tool that can inform assessments of natural ecosystems and ensure resources for forest pest prevention, suppression, and restoration reaches the highest priority areas.</li><li>Detect areas where hazardous fuels treatments coincide with lands at risk for forest pest activity, much of which is density driven. Efficiencies will be gained by prioritizing coincident areas.</li></ul><p style='box-sizing:border-box; margin-top:0px; margin-bottom:10px; font-size:14px; color:rgb(51, 51, 51); font-family:Arial, Helvetica, sans-serif;'>For a quick overview of the 2013 - 2027 assessment and to learn more information on the differences between the 2006 and 2012 NIDRMs download the <a href='https://www.fs.usda.gov/foresthealth/technology/pdfs/2012_RiskMap_Exec_summary.pdf' style='box-sizing:border-box; background-color:transparent; color:rgb(6, 69, 173);' rel='nofollow ugc'>executive summary</a> (2 MB PDF).</p><p style='box-sizing:border-box; margin-top:0px; margin-bottom:10px; font-size:14px; color:rgb(51, 51, 51); font-family:Arial, Helvetica, sans-serif;'>Explore forests vulnerable to attack from major insects and diseases by viewing the <a href='https://arcg.is/0ybmDC0' style='box-sizing:border-box; background-color:transparent; color:rgb(6, 69, 173);' rel='nofollow ugc'>Interactive Story Map of the National Insect and Disease Risk Map</a></p></div>",
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