README: A geopositioned, evidence-graded, pan-species compendium of Mayaro Virus occurrence

https://doi.org/10.5061/dryad.cfxpnvx8n

This dataset accompanies a Data Descriptor manuscript that was submitted to the Scientific Data journal. Data are derived from a systematic review of the literature focused on Mayaro virus (MAYV) occurrence.

Dataset Attribution and Usage

• Dataset Title: Data for the article "A geopositioned and evidence-graded pan-species compendium of Mayaro Virus occurrence"

• Persistent Identifier: https://doi.org/10.5061/dryad.cfxpnvx8n

• Dataset Contributors: Michael Celone, Alex Potter, Barbara A. Han, Sean P. Beeman, Bernard Okech, Brett Forshey, James Dunford, George Rutherford, Neida K. Mita-Mendoza, Elizabet Lilia Estallo, Ricardo Khouri, Isadora Cristina de Siqueira, Kyle Petersen, Ryan C. Maves, Assaf Anyamba, Simon Pollett

Contact Information

• Name: Michael Celone
• Affiliations: Uniformed Services University of the Health Sciences
• ORCID ID: 0000-0002-1963-2353
• Email: michael.celone@usuhs.edu
• Alternate Email: mikecelone1@gmail.com

Description of the Data

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Details for File 1: Georefs_MAYV_compendium

• Description: A database containing georeferenced locations of MAYV occurrence.

• Format(s): .csv

• Variables:

  • Location_ID: Unique identifier assigned to each georeference.
  • Author_Year: First author and publication year for each record.
  • Ref_Number: Reference identification number.
  • Year_MAYV_Start: Earliest year that MAYV infection was detected.
  • Year_MAYV_End: Latest year that MAYV infection was detected.
  • Host_Type: Host type for each occurrence: human, non-human animal, or arthropod.
  • Location_Description: Relevant information/decisions related to the location of the occurrence record.
  • Adm0: Country where MAYV occurrence was detected.
  • Adm1: First level administrative unit where MAYV occurrence was detected (if available).
  • Adm2: Second level administrative unit where MAYV occurrence was detected (if available).
  • GAUL_code: When a MAYV occurrence was georeferenced as an ADM1 or ADM2 administrative polygon, the GAUL code was included.
  • Finer_Res: If finer spatial resolution was documented (e.g., a town, city, or exact coordinates) this was recorded.
  • Location_Type: Point or polygon location type, depending on the spatial resolution that was provided.
  • Admin_Level: Administrative level for each polygon location or -999 was used for point/custom polygon locations.
  • X_Coord: Longitude coordinate was recorded in decimal degrees.
  • Y_Coord: Latitude coordinate was recorded in decimal degrees.
  • Coord_Source: This field describes how the coordinates were determined.
  • Uncertainty_km: The amount of uncertainty associated with the record, measured in km.
  • Uncertainty_Description: The method used to calculate uncertainty for each georeference.
  • Diagnostic_Type: The diagnostic test reported (e.g., polymerase chain reaction [PCR], neutralization test [NT]).
  • Positive_n: The number of positive MAYV cases that were reported.
  • Denominator: The total number of humans, non-human animals, or arthropod pools in the study.
  • Language: The language of the article, either English, Portuguese, or Spanish.

Details for File 2: Quality_scores_MAYV_compendium

• Description: A table containing quality scores and references for each included article. We evaluated and graded each study on four quality criteria. For each quality criterion, eligible studies were assigned a quality score of 3 (strong evidence), 2 (moderate evidence), 1 (weak evidence), or unable to judge.

• Format(s): .docx

• Variables:

  • Clarity of research question/objective.
  • Description of study methods.
  • Description of sampling methods.
  • Validity of diagnostic tests.

File 3: Duplicate_entries_MAYV_compendium

• Description: A database containing duplicate MAYV georeferences that were excluded from the primary database

• Format(s): .csv

• Variables:

  • Location_ID: Unique identifier assigned to each georeference.
  • Author_Year: First author and publication year for each record.
  • Ref_Number: Reference identification number.
  • Year_MAYV_Start: Earliest year that MAYV infection was detected.
  • Year_MAYV_End: Latest year that MAYV infection was detected.
  • Host_Type: Host type for each occurrence: human, non-human animal, or arthropod.
  • Adm0: Country where MAYV occurrence was detected.
  • Adm1: First level administrative unit where MAYV occurrence was detected (if available).
  • Adm2: Second level administrative unit where MAYV occurrence was detected (if available).
  • Finer_Res: If finer spatial resolution was documented (e.g., a town, city, or exact coordinates) this was recorded.
  • Location_Type: Point or polygon location type, depending on the spatial resolution that was provided.
  • Admin_Level: Administrative level for each polygon location or -999 was for point locations.
  • X_Coord: Longitude coordinate was recorded in decimal degrees.
  • Y_Coord: Latitude coordinate was recorded in decimal degrees.

File 4: Custom_polys_MAYV_compendium

• Description: A zip folder with custom polygon locations. The folder contains shapefiles that can be opened in GIS software or statistical packages that handle spatial data. Each polygon is associated with an entry in the Georefs_MAYV_compendium dataset.