B73 RefGen_v4cen - Manual Reassembly of the 106Mb of centromeric and pericentromeric sequence RefGen_v4 genome assembly.
Data and Resources
Additional Info
| Field | Value |
|---|---|
| Author | Daniel Laspisa, Kevin Schneider, Gernot Presting |
| Last Updated | June 25, 2024, 19:56 (UTC) |
| Created | June 23, 2024, 17:05 (UTC) |
| Citation | Daniel Laspisa, Kevin Schneider, Gernot Presting 2019. B73 RefGen_v4cen - Manual Reassembly of the 106Mb of centromeric and pericentromeric sequence RefGen_v4 genome assembly.. CyVerse Data Commons. DOI 10.25739/7y1p-5169 |
| Contributor | Presting Laboratory, University of Hawaii |
| Date | 2019 |
| Date created in discovery environment | 2019-01-30 19:40:32 |
| Date last modified in discovery environment | 2020-02-20 22:05:33 |
| Description | Reassemblies of the centromeric regions of Zea mays B73 constructed from existing, and publicly available PacBio read data generated for the B73 RefGen_v4 sequencing project, presented in Jiao et al. 2017 (Bioproject PRJNA10769, Pac Bio SRA Accession SRX1472849). Gaps in the centromeres and pericentromeres of the RefGen_v4 assembly were filled with previously unincorporated RefGen_v4 contigs or reads using unique junctions and the RefGen_v2 BAC by BAC assembly (NCBI Assembly Accession GCA_000005005.4) to walk across gaps. Assembly was assisted by Junction Viewer annotation software (Wolfgruber et al. 2010) and final sequence assembly using Geneious 6.0 software. |
| New Attribute | New Value |
| Publisher | CyVerse Data Commons |
| Rights | No restrictions for the use of these data following publication. |
| Source | Jiao et al. 2017 (Bioproject PRJNA10769, Pac Bio SRA Accession SRX1472849) |
| assembly_method | Manual |
| assembly_name | B73_RefGen_v4CEN |
| contact_email | gernot@hawaii.edu, dlaspisa@hawaii.edu |
| contact_first_name | Gernot, Daniel |
| contact_last_name | Presting, Laspisa |
| final_version | Yes |
| genome_full | Yes |
| genome_subset | Centromeres and Pericentromeres |
| identifierType | DOI |
| organization_address_city | Honolulu |
| organization_address_country | United States |
| organization_address_department | Molecular Bioscience and Bioengineering |
| organization_address_institution | University of Hawaii |
| organization_address_postal_code | 96822 |
| organization_address_street | 1955 East West Rd. Agricultural Sciences 218 |
| publisher | CyVerse Data Commons |
| resourceType | Centromere and pericentromere sequence assemblies |
| sequencing_technology | PacBio |
| wgs_submission_type | the wgs contigs and any other components of the AGP file are already in GenBank |