Data from: Genome sequence of dwarf birch (Betula nana) and cross-species RAD markers ...
New sequencing technologies allow development of genome-wide markers for any genus of ecological interest, including plant genera such as Betula (birch) that have previously proved difficult to study due to widespread polyploidy and hybridisation. We present a de novo reference genome sequence assem...
| Main Authors: | , , , , , , , |
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| Format: | Dataset |
| Language: | English |
| Published: |
Dryad
2012
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| Subjects: | |
| Online Access: | https://dx.doi.org/10.5061/dryad.v5gd2 https://datadryad.org/stash/dataset/doi:10.5061/dryad.v5gd2 |
| Summary: | New sequencing technologies allow development of genome-wide markers for any genus of ecological interest, including plant genera such as Betula (birch) that have previously proved difficult to study due to widespread polyploidy and hybridisation. We present a de novo reference genome sequence assembly, from 67X short read coverage, of Betula nana (dwarf birch) – a diploid that is the keystone woody species of sub-arctic scrub communities but of conservation concern in Britain. We also present 100bp PstI RAD markers for B. nana and closely related Betula tree species. Assembly of RAD markers in 15 individuals by alignment to the reference B. nana genome yielded 44k-86k RAD loci per individual, whereas de novo RAD assembly yielded 64k-121k loci per individual. Of the loci assembled by the de novo method, 3k homologous loci were found in all 15 individuals studied, and 35k in 10 or more individuals. Matching of RAD loci to RAD locus catalogs from the B. nana individual used for the reference genome, showed ... : Diagram-of-bioinformatic-pipelinesbowtie-sstacks-MatchesTo097Catalogbowtie-cstacks-IndividualCatalogsdenovo-sstacks-MatchesToUniversalCatalogsdenovo-sstacks-MatchesTo097Catalogsdenovo-ustacks-cstacks-IndividualAndUniversalCatalogsBetulaNana1.0Betula nana genome assembly 1.0 ... |
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