Data from: Genome sequence of M6, a diploid inbred clone of the high glycoalkaloid-producing tuber-bearing potato species Solanum chacoense, reveals residual heterozygosity

Leisner CP, Hamilton JP, Crisovan E, Manrique-Carpintero NC, Marand AP, Newton L, Pham GM, Jiang J, Douches DS, Jansky SH, Buell CR

Date Published: April 19, 2019

DOI: https://doi.org/10.5061/dryad.kc835.7

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Title Readme.txt
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Title 523_3_assembly_ALLPATHS_v4.1.fasta
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Description Genome assembly of S. chacoense M6, containing 8,260 scaffold sequences
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Title M6_v4.1_PM.fa
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Description Pseudomolecules of S. chacoense M6, containing 12 chromosomes
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Title M6_v4.1_masked_PM.fa
Description Masked pseudomolecules of S. chacoense M6, containing 12 chromosomes
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Title M6_v4.1_scaffold.agp
Description AGP file describing the assembly of S. chacoense M6 scaffolds within the pseudomolecules
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Title M6_v4.1_PM_plus_chrUn.fa
Description Pseudomolecules of S. chacoense M6, containing 12 chromosomes and chrUn (unanchored scaffolds)
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Title short_summary_BUSCO_output.txt
Description Output file from running BUSCO on the genome assembly
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Title full_table_BUSCO_output.tsv
Description Output file from running BUSCO on the genome assembly
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Title m6.hc.gene_models.chr_corrected.gff3
Description Generic feature format file (gff3) of high-confidence genes in S. chacoense M6 (Corrected version as of 06/2018)
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Title m6.hc.gene_models.all_chrs_corrected.gff3
Description Generic feature format file (gff3) of high-confidence genes in S. chacoense M6, including ChrUn
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Title pasa_m6.hc.gene_models.cdna.fa
Description Transcript sequences (cDNA) of high-confidence genes in S. chacoense M6
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Title pasa_m6.hc.gene_models.cds.fa
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Description Coding sequences (CDS) of high-confidence genes in S. chacoense M6
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Title pasa_m6.hc.gene_models.pep.fa
Description Protein sequences of high-confidence genes in S. chacoense M6
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Title m6_gene_models.func_anno.txt
Description Functional annotation of working gene model set in S. chacoense M6
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Title pasa_m6.hc.gene_models.repr.pep.fa
Description Protein sequences of representative models of high-confidence genes in S. chacoense M6
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Title M6_gene_expression_matrix.xlsx
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Description Expression abundance of representative gene models
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Title 523_3_assembly_ALLPATHS_v4.1.fasta.repeatmasker.gff
Description GFF file of the repeat-masked genome
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When using this data, please cite the original publication:

Leisner CP, Hamilton JP, Crisovan E, Manrique-Carpintero NC, Marand AP, Newton L, Pham GM, Jiang J, Douches DS, Jansky SH, Buell CR (2018) Genome sequence of M6, a diploid inbred clone of the high glycoalkaloid-producing tuber-bearing potato species Solanum chacoense, reveals residual heterozygosity. The Plant Journal 94(3): 562-570. https://doi.org/10.1111/tpj.13857

Additionally, please cite the Dryad data package:

Leisner CP, Hamilton JP, Crisovan E, Manrique-Carpintero NC, Marand AP, Newton L, Pham GM, Jiang J, Douches DS, Jansky SH, Buell CR (2018) Data from: Genome sequence of M6, a diploid inbred clone of the high glycoalkaloid-producing tuber-bearing potato species Solanum chacoense, reveals residual heterozygosity. Dryad Digital Repository. https://doi.org/10.5061/dryad.kc835.7
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