Nelumbo nucifera self-self: Difference between revisions
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==[[SynMap]] whole genome syntenic dotplot: evidence for tetraploidy== | ==[[SynMap]] whole genome syntenic dotplot: evidence for tetraploidy== | ||
Nelumbo nuclifera self-self shows extensive synteny to self. Genome-wide pattern with similar Ks values for syntenic gene-pairs is strong evidence of a tetraploidy event in this lineage. No evidence for the eurosid/eudicot-specific [[paleohexaploidy]]. | Nelumbo nuclifera self-self shows extensive synteny to self. Genome-wide pattern with similar Ks values for syntenic gene-pairs is strong evidence of a tetraploidy event in this lineage. No evidence for the eurosid/eudicot-specific [[paleohexaploidy]]. | ||
[[File:Screen shot 2012-04-09 at 5.48.45 PM.png|thumb|center|600px|[[SynMap]] self-self comparison of scaffold assembly of Nelumo nuclifera. Results may be regenerated at: http://genomevolution.org/r/4p9w]] | |||
[[File:Screen shot 2012-02-27 at 1.10.44 PM.png|thumb|600px|center|[[SynMap]] self-self comparison of Nelumbo nuclifera. Contigs are arranged by the [[Syntenic Path Assembly]] and color coded by Ks value. Results may be regenerated http://genomevolution.org/r/4ke9]] | [[File:Screen shot 2012-02-27 at 1.10.44 PM.png|thumb|600px|center|[[SynMap]] self-self comparison of Nelumbo nuclifera. Contigs are arranged by the [[Syntenic Path Assembly]] and color coded by Ks value. Results may be regenerated http://genomevolution.org/r/4ke9]] | ||
==[[GEvo]] high-resolution syntenic analysis== | ==[[GEvo]] high-resolution syntenic analysis== | ||
High-resolution analysis of two Nelumbo nuclifera contigs show classic [[synteny]] pattern: collinear arrangement of paralogous gene pairs. | High-resolution analysis of two Nelumbo nuclifera contigs show classic [[synteny]] pattern: collinear arrangement of paralogous gene pairs. | ||
[[File:Screen shot 2012-02-27 at 1.16.44 PM.png|thumb|600px|center|Comparison of two syntenic regions as evidenced by the collinear arrangement of paralogous gene pairs. Note the tandem gene duplication. Results may be regenerated: http://genomevolution.org/r/4keb]] | [[File:Screen shot 2012-02-27 at 1.16.44 PM.png|thumb|600px|center|Comparison of two syntenic regions as evidenced by the collinear arrangement of paralogous gene pairs. Note the tandem gene duplication. Results may be regenerated: http://genomevolution.org/r/4keb]] | ||
Latest revision as of 00:53, 10 April 2012
SynMap whole genome syntenic dotplot: evidence for tetraploidy
Nelumbo nuclifera self-self shows extensive synteny to self. Genome-wide pattern with similar Ks values for syntenic gene-pairs is strong evidence of a tetraploidy event in this lineage. No evidence for the eurosid/eudicot-specific paleohexaploidy.
GEvo high-resolution syntenic analysis
High-resolution analysis of two Nelumbo nuclifera contigs show classic synteny pattern: collinear arrangement of paralogous gene pairs.
