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i5k Workspace@NAL
U.S. Department of Agriculture

Halyomorpha halys annotations OGSv1.0

Summary
Summary
Resource Type
Genome Annotation
Name
Halyomorpha halys annotations OGSv1.0
Program, Pipeline, Workflow or Method Name
MAKER2, manual annotation, GFF3toolkit
Program Version
NA
Data Source
Source Name
: Whole genome assembly of Halyomorpha halys
Source URI
: https://i5k.nal.usda.gov/data/Arthropoda/halhal-%28Halyomorpha_halys%29/Hhal_1.0/2.Official%20or%20Primary%20Gene%20Set/halhal_OGSv1.0/
Organism
H. halys (Brown marmorated stink bug)
Publication
Sparks ME, Bansal R, Benoit JB, Blackburn MB, Chao H, Chen M, Cheng S, Childers C, Dinh H, Doddapaneni HV, Dugan S, Elpidina EN, Farrow DW, Friedrich M, Gibbs RA, Hall B, Han Y, Hardy RW, Holmes CJ, Hughes DST, Ioannidis P, Cheatle Jarvela AM, Johnston JS, Jones JW, Kronmiller BA, Kung F, Lee SL, Martynov AG, Masterson P, Maumus F, Munoz-Torres M, Murali SC, Murphy TD, Muzny DM, Nelson DR, Oppert B, Panfilio KA, Paula DP, Pick L, Poelchau MF, Qu J, Reding K, Rhoades JH, Rhodes A, Richards S, Richter R, Robertson HM, Rosendale AJ, Tu ZJ, Velamuri AS, Waterhouse RM, Weirauch MT, Wells JT, Werren JH, Worley KC, Zdobnov EM, Gundersen-Rindal DE. Brown marmorated stink bug, Halyomorpha halys (Stål), genome: putative underpinnings of polyphagy, insecticide resistance potential and biology of a top worldwide pest.. BMC genomics. 2020 Mar 14; 21(1):227.
Description

The Baylor College of Medicine sequenced and annotated the Halyomorpha halys genome as part of the i5k pilot project. The H. halys research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.0.

This dataset presents the Halyomorpha halys Official Gene Set (OGS) v1.0. The OGS is an integration of automatic gene predictions from NCBI's eukaryotic annotation pipeline, NCBI Halyomorpha halys Annotation Release 100 (https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Halyomorpha_halys/100/; ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/696/795/GCF_000696795.1_H...), with manual annotations by the research community (performed via the Apollo manual curation software, http://genomearchitect.org/).

Manual annotations performed by the community were downloaded from Apollo, QC'd, and merged with NCBI Halyomorpha halys Annotation Release 100 using the GFF3toolkit software (https://github.com/NAL-i5K/GFF3toolkit/releases/tag/v1.4.4). The resulting merged dataset was formatted for ingest into the i5k Workspace and GenBank databases, resulting in Halyomorpha halys Official Gene Set (OGS) v1.0.

See also https://data.nal.usda.gov/dataset/halyomorpha-halys-official-gene-set-v10.