Updated Pinus lambertiana high-density linkage maps
Data files
Sep 29, 2023 version files 274.35 KB
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README.md
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SP_mapping_results_BC1_3656SNPs.xlsx
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SP_mapping_results_BC2_4111SNPs.xlsx
Abstract
Sugar pine (Pinus lambertiana) is a five-needle pine of great economical and ecological importance in western North America. Genome-wide analyses in the species have been limited by the absence of a chromosome-scale reference genome. The genome of the species is one of the largest in any plant diploid species, with a size of 31 Gb, making assembly and annotation very challenging.
Here we present high-density linkage maps that were used to help scaffolding a new chromosome-scale genome of sugar pine (assembly version 2.0, unpublished).
README: Updated Pinus lambertiana high-density linkage maps
https://doi.org/10.5061/dryad.573n5tbdz
Give a brief summary of dataset contents, contextualized in experimental procedures and results.
This dataset contains 2 excel files containing linkage maps for sugar pine (Pinus lambertiana). Distance is given in centimorgans (cM). Linkage groups are given as "L1, L2, ..L12". Linkage group IDs are randomly assigned and do not match in BC1 and BC2.
Description of the data and file structure
Sugar pine (Pinus lambertiana) is a five-needle pine of great economical and ecological importance in western North America. Genome-wide analyses in the species have been limited by the absence of a chromosome-scale reference genome. The genome of the species is one of the largest in any plant diploid species, with a size of 31 Gb, making assembly and annotation very challenging.
Here we present high-density linkage maps that were used to help scaffolding a new chromosome-scale genome of sugar pine (assembly version 2.0, unpublished).
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Describe relationships between data files, missing data codes, other abbreviations used. Be as descriptive as possible.
Sharing/Access information
This is a section for linking to other ways to access the data, and for linking to sources the data is derived from, if any.
Links to other publicly accessible locations of the data:
- Weiss et al. 2020. The Plant Journal. http://doi.org/10.1111/tpj.14928 <br>
Data was derived from the following sources:
Code/Software
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Methods
Single nucleotide markers (SNPs) were used to create two pseudo-backcrosses (BC1 and BC2) following the methods previously described in Weiss et al. 2020. The Plant Journal.
BC1 linkage map placed 4,111 SNP markers and BC2 placed 3,656 SNPs in 12 linkage groups.