Data from: Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement
Wu, Shan, Cornell University
Lau, Kin H., Department of Plant Biology
Cao, Qinghe, Cornell University
Hamilton, John P., Department of Plant Biology
Sun, Honghe, Cornell University
Zhou, Chenxi, University of Queensland
Eserman, Lauren, University of Georgia
Gemenet, Dorcus, International Potato Center
Olukolu, Bode, North Carolina State University
Wang, Haiyan, Department of Plant Biology
Crisovan, Emily, Department of Plant Biology
Godden, Grant T., Department of Plant Biology
Jiao, Chen, Cornell University
Wang, Xin, Cornell University
Kitavi, Mercy, International Potato Center, Nairobi, Kenya
Manrique-Carpintero, Norma, Department of Plant Biology
Vaillancourt, Brieanne, Department of Plant Biology
Wiegert-Rininger, Krystle, Department of Plant Biology
Yang, Xinsun, Hubei Academy of Agricultural Sciences
Bao, Kan, Cornell University
Zheng, Yi
Schaff, Jennifer, North Carolina State University
Kreuze, Jan, International Potato Center
Gruneberg, Wolfgang, International Potato Center
Khan, Awais, International Potato Center
Ghislain, Marc, International Potato Center, Nairobi, Kenya
Ma, Daifu, Jiangsu Xuzhou Sweetpotato Research Center, Xuzhou, China
Jiang, Jiming, Department of Plant Biology
Mwanga, Robert O.M., International Potato Center, Kampala, Uganda
Leebens-Mack, Jim, University of Georgia
Coin, Lachlan J.M., University of Queensland
Yencho, G. Craig, North Carolina State University
Buell, C. Robin, Department of Plant Biology
Fei, Zhangjun, Cornell University
Publication date: November 2, 2018
Publisher: Dryad
https://doi.org/10.5061/dryad.b9m61cg
Citation
Wu, Shan et al. (2018), Data from: Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement, Dryad, Dataset, https://doi.org/10.5061/dryad.b9m61cg
Abstract
Abstract missing
Usage notes
I_triloba_NSP323_stress_FPKM_expression_matrix_v3_anno.xlsx
FPKM values of v3 high confidence gene models for 15 I. triloba abiotic and biotic stress RNA-seq libraries. The libraries are described in the 'Library Key' worksheet.
I_triloba_NSP323_FPKM_expression_matrix_v3_anno.xlsx
FPKM values of v3 high confidence gene models for 6 I. triloba RNA-seq libraries (flower, flowerbud, leaf, root1, root2, stem).
NSP323_triloba_v3.hc.func_anno.txt
Putative functional annotation of high confidence gene models.
NSP323_triloba_v3.hc.gene_models.cdna.fa
Nucleotide sequences of the high confidence gene model transcript sequences (cDNA).
NSP323_triloba_v3.hc.gene_models.cds.fa
Nucleotide sequences of the high confidence gene model coding sequences (CDS).
NSP323_triloba_v3.hc.gene_models.gff3
High confidence gene model annotation in GFF3 format.
NSP323_triloba_v3.hc.gene_models.pep.fa
Amino acid sequences corresponding to the high confidence gene model coding sequences.
NSP323_triloba_v3.hc.repr.gene_models.txt
List of representative high confidence gene models (longest CDS).
NSP323_triloba_v3.working.gene_models.cdna.fa
Nucleotide sequences of the working gene model transcript sequences (cDNA).
NSP323_triloba_v3.working.gene_models.cds.fa
Nucleotide sequences of the working gene model coding sequences (CDS).
NSP323_triloba_v3.working.gene_models.gff3
Working gene model annotation in GFF3 format.
NSP323_triloba_v3.working.gene_models.pep.fa
Amino acid sequences corresponding to the working gene model coding sequences.
NSP323_triloba_chr_v3.fa
Ipomoea triloba (NSP323) Genome Assembly (v3) - FASTA format
NSP323_triloba_chr_v3.hm.fa
Ipomoea triloba (NSP323) Hard Masked Genome Assembly (v3) - FASTA format
trilo_aln_8x8_parents_freebayes_mRNA_regions.vcf.gz
Quality-filtered variant calls for the MDP clones based on alignment of genomic reads to I. triloba.
I_trifida_NSP306_stress_FPKM_expression_matrix_v3_anno.xlsx
FPKM values of v3 high confidence gene models for 15 I. trifida abiotic and biotic stress RNA-seq libraries. The libraries are described in the 'Library Key' worksheet.
I_trifida_NSP306_FPKM_expression_matrix_v3_anno.xlsx
FPKM values of v3 high confidence gene models for 8 I. trifida RNA-seq libraries (callus_flower, callus_stem, flower, flowerbud, leaf, root1, root2, stem).
NSP306_trifida_v3.hc.func_anno.txt
Putative functional annotation of high confidence gene models.
NSP306_trifida_v3.hc.gene_models.cdna.fa
Nucleotide sequences of the high confidence gene model transcript sequences (cDNA).
NSP306_trifida_v3.hc.gene_models.cds.fa
Nucleotide sequences of the high confidence gene model coding sequences (CDS).
NSP306_trifida_v3.hc.gene_models.gff3
High confidence gene model annotation in GFF3 format.
NSP306_trifida_v3.hc.gene_models.pep.fa
Amino acid sequences corresponding to the high confidence gene model coding sequences.
NSP306_trifida_v3.hc.repr.gene_models.txt
List of representative high confidence gene models (longest CDS).
NSP306_trifida_v3.working.gene_models.cdna.fa
Nucleotide sequences of the working gene model transcript sequences (cDNA).
NSP306_trifida_v3.working.gene_models.cds.fa
Nucleotide sequences of the working gene model coding sequences (CDS).
NSP306_trifida_v3.working.gene_models.gff3
Working gene model annotation in GFF3 format.
NSP306_trifida_v3.working.gene_models.pep.fa
Amino acid sequences corresponding to the working gene model coding sequences.
NSP306_trifida_chr_v3.fa
Ipomoea trifida (NSP306) Genome Assembly (v3) - FASTA format
NSP306_trifida_chr_v3.hm.fa
Ipomoea trifida (NSP306) Hard Masked Genome Assembly (v3) - FASTA format
trifi_aln_8x8_parents_freebayes_mRNA_regions.vcf.gz
Quality-filtered variant calls for the MDP clones based on alignment of genomic reads to I. trifida.
gt4sp_v3_asm_anno_readme.txt
Description of files included in Dryad submission.