Data from: Co-linearity and divergence of the A subgenome of Brassica juncea compared with other Brassica species carrying different A subgenomes

Zou J, Hu D, Liu P, Raman H, Liu Z, Liu X, Parkin I, Chalhoub B, Meng J

Date Published: January 7, 2016

DOI: http://dx.doi.org/10.5061/dryad.56986

 

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Title Fig 4A markers
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Description This data set contains 16077 markers which was aligned to unique positions of A, B and C genomes (ABC-markers), respectively, and was used to construct the phylogenetic tree in Figure 4A
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Title Fig4B markers
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Description This data set contains 3296 A genome specific markers of three A-genome containing species, and was used to construct the phylogenetic tree in Figure 4B
Download Fig4B markers.xlsx (8.865 Mb)
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Title Fig. 4 Phylogenetic tree of the three A genome contained species B. rapa, B. juncea and B. napus
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Description Figure 4 Phylogenetic tree of the three A genome contained species B. rapa, B. juncea and B. napus (A) Evaluated with a set of markers (16,077) which was aligned to unique positions of A, B and C genomes (ABC-markers), respectively; the figure shown B. juncea being separated from other two species. (B), Evaluated with a subset of markers (3,296) which were uniquely aligned to A genome; the figure shown a close relationship between B. juncea and B. rapa, and together separated from B. napus. 26 accessions of the three Brassica species, i.e, B. rapa, B. juncea and B. napus, were used.
Download Fig. 4 Phylogenetic tree of the three A g...us.pdf (479.4 Kb)
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Title Genotype that used for Additional file 5
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Download Genotype that used for Additional file 6.xlsx (12.74 Mb)
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Title Additional File 5 Phylogenetic tree of the three A genome-contained species evaluated with different sets of markers
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Description Additional file 5 Phylogenetic tree of the three A genome-contained species evaluated with different sets of markers. A, Evaluated with all of high-quality markers with genome alignments (28,267) (left), with a set of markers (16,077) which was aligned to unique positions of A, B and C genomes (ABC-markers, middle), and markers (12,781) which were uniquely aligned to B (8,278) and C (4,503) genomes(right), respectively. All of the three figures shown that B. juncea was separated from other two species. B, Evaluated with markers aligned to A genome uniquely (3,296) (left), and 3,296 A genome specific markers plus 11,321 markers with alignment on A genome along with positions on other genome(s). B. juncea and B. rapa shown close relationship and separated from B. napus.
Download Additional File 5 Phylogenetic tree of th...rs.pdf (565.9 Kb)
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Title Information of DArT-SeqTM markers and genotypes of the 26 diverse lines from the three A genome-carrying species
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Description Informaetion of DArT-SeqTM markers and genotypes of the 26 diverse lines from the three A genome-carrying species and the aligment of the 47550 marker sequences to the genome of the three A genome-carrying species
Download Information of DArT-SeqTM markers and geno....xlsx (69.83 Mb)
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When using this data, please cite the original publication:

Zou J, Hu D, Liu P, Raman H, Liu Z, Liu X, Parkin I, Chalhoub B, Meng J (2016) Co-linearity and divergence of the A subgenome of Brassica juncea compared with other Brassica species carrying different A subgenomes. BMC Genomics 17: 18. http://dx.doi.org/10.1186/s12864-015-2343-1

Additionally, please cite the Dryad data package:

Zou J, Hu D, Liu P, Raman H, Liu Z, Liu X, Parkin I, Chalhoub B, Meng J (2016) Data from: Co-linearity and divergence of the A subgenome of Brassica juncea compared with other Brassica species carrying different A subgenomes. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.56986
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