X-alignment

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Syntenic dotplot generated by SynMap between two strains of Yersinia pseudotuberculosis. Strain IP 31758 (x-axis); strain YPIII (y-axis). Results can be regenerated at: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=1911;dsgid2=1906;D=20;g=10;A=5;w=0;b=1;ft1=1;ft2=1;dt=geneorder
Syntenic dotplot generated by SynMap between two strains of Anaeromyxobacter dehalogenans. Strain 2CP-1 (x-axis); strain 2CP-1C (y-axis). Results can be regenerated at: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=3508;dsgid2=3507;c=4;D=20;g=10;A=5;Dm=0;gm=0;w=0;b=1;ft1=1;ft2=1;do1=1;do2=1;do=40;dt=geneorder;ct=inv
Syntenic dotplot generated by SynMap between two species of Erwinia: amylovora strain ATCC 49946 (x-axis); billingiae strain Eb661 (y-axis). Results can be regenerated at: http://genomevolution.org/r/or3
Syntenic dotplot generated by SynMap of Oxalobacteraceae Herminiimonas arsenicoxydans (x-axis) and Janthinobacterium sp. strain Marseille (y-axis). Results can be regenerated at: http://genomevolution.org/r/orn
Syntenic dotplot generated by SynMap between two strains of Shewanella baltica. Strain OS155 is on the x-axis; strain OS185 is on the y-axis. Results can be regenerated at: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=2361;dsgid2=2360;D=20;g=10;A=5;w=0;b=1;ft1=1;ft2=1;dt=geneorder


Syntenic dotplot generated by SynMap between two species of Erwinia: amylovora strain CFPB1430 (x-axis); billingiae strain Eb661 (y-axis). Results can be regenerated at: http://genomevolution.org/r/or4


Syntenic dotplot generated by SynMap between two species of Yersinia pestis. Strain Nepal516 (x-axis); strain Pestoides F. Results can be regenerated at http://genomevolution.org/CoGe/SynMap.pl?dsgid1=1922;dsgid2=1923;D=20;g=10;A=5;w=0;b=1;ft1=1;ft2=1;dt=geneorder
Syntenic dotplot of Archaeas Thermoplasma acidophilum strain DSM 1728 (x-axis) and Thermoplasma volcanium strain GSS1 (y-axis). Results can be regenerated at: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=3419;dsgid2=3420;c=4;D=20;g=10;A=5;Dm=0;gm=0;w=0;b=1;ft1=1;ft2=1;do1=1;do2=1;do=40;dt=geneorder;ct=inv
Syntenic dotplot generated by SynMap between two species of Acidovorax. Species avenae subsp. citrulli strain AAC00-1 (x-axis) and subspecies JS42 (y-axis). Results can be regenerated at: http://genomevolution.org/CoGe/SynMap.pl?dsgid1=3441;dsgid2=3440;D=20;g=10;A=5;w=0;b=1;ft1=1;ft2=1;dt=geneorder
Syntenic dotplot generated by SynMap of Micrococcineae: Kocuria rhizophila strain DC2201; NBRC 103217 (x-axis) and Xylanimonas cellulosilytica strain DSM 15894 (y-axis). Results can be regenerated at: http://genomevolution.org/r/ot3
Syntenic dotplot generated by SynMap of Betaproteobacteri Herbaspirillum seropedicae strain SmR1 (x-axis) and Herminiimonas arsenicoxydans (y-axis). Results can be regenerated at: http://genomevolution.org/r/orm
Syntenic dotplot generated by SynMap of Xenorhabdus nematophila strain ATCC 19061 (x-axis) and Yersinia pestis strain Z176003 (y-axis). Results may be regenerated at: http://genomevolution.org/r/qsd
Syntenic dotplot generated by SynMap of Chloroflexus aggregans strain DSM 9485 (x axis) and Chloroflexus aurantiacus strain J-10-fl (y axis). Syntenic gene pairs colored by Ks values. Results can be regenerated at http://genomevolution.org/r/2hu7 .


X-alignments [1] are the result of visualizing sytnenic dotplots between bacterial genomes reflecting the high likelihood of genomic inversions happening symmetrically around the origin of replication. Since most linear representations of bacterial genomes begin at the origin, many such inversion events between two bacterial genomes result in their syntenic dotplot having and "X"-like pattern.

Please see non-X-alignments for exceptions to this (mostly found in Archaea).

  1. Eisen,J.A., Heidelberg,J.F., White,O. and Salzberg,S.L. (2000) Evidence for symmetric chromosomal inversions around the replication origin in bacteria. Genome Biol., 1, 1101–1109.