identifier: Tifrunner.gnm1.KYV3

provenance: The files in this directory are the initial assembly versions, provided here prior to deposition into GenBank. The GenBank version (GCF_003086295.1) is the primary, authoritative instance. The files here are held as part of the PeanutBase, LegumeInfo, and LegumeFederation projects. 

source: "https://peanutbase.org/data/"

synopsis: Genome assembly 1 for Arachis hypogaea, cultivar Tifrunner

scientific_name: Arachis hypogaea

taxid: 3818

bioproject: PRJNA291488

scientific_name_abbrev: arahy

genotype: 
  - Tifrunner

description: "Genome assembly for Arachis hypogaea cultivar Tifrunner. A total of 48.25x of PACBIO sequence (avg. read length of 11,525) was used to generate the initial MECAT assembly, which was subsequently polished using ARROW. Synteny with the diploid A. duranensis and A. ipaensis, along with 1 genetic map and 2 synthetic maps (provided by David Bertioli) were used to identify misjoins in the raw assembly. A total of 856 breaks were identified. The broken assembly was then scaffolded using HiC data by Rajeev Varshney. Post scaffolding, 6 additional breaks were made to resolve misjoins introduced during the scaffolding procedure. Seven tetrasomic regions were identified and duplicated, as described in the original README file. Additionally, homozygous SNPs and INDELs were corrected in the release sequence using ~40x of illumina reads (2x250, 800bp insert, library ID ICIH and ICID). See the original README file for additional details."

chromosome_prefix: Arahy

supercontig_prefix: scaffold

genbank_accession: PIVG00000000

original_file_creation_date: "2017-11-13"

local_file_creation_date: "2017-10-16"

publication_doi: 10.1038/s41588-019-0405-z

dataset_release_date: "2017-11-29"

publication_title: The genome sequence of segmental allotetraploid peanut Arachis hypogaea

contributors: "The International Peanut Genome Initiative; lead assembly group Jeremy Schmutz, Jerry Jenkins, Jane Grimwood; project leads David Bertioli; Soraya Bertioli; Brian Schleffler; Scott Jackson; Peggy Ozias-Akins"

data_curators: Ethalinda Cannon, Steven Cannon, Jerry Jenkins

public_access_level: public

license: Open

keywords: peanut, Arachis hypogaea, Tifrunner