Federal University of Mato Grosso do Sul Xanthomonas arboricola Project College of Computing - UFMS

Horizontal Gene Transfer Analysis

Alien Hunter (AH) (Vernikos & Parkhill 2006) has been used to find anomalous regions and horizontal transfer candidates. AH identifies regions that may have been laterally transferred by finding regions with unusual sequence composition in terms of k-mers for various values of k (called interpolated variable order motifs).

An anomalous region has AH score greater than an automatically calculated threshold that takes into account the sequence composition of the whole genome (the background composition).

The table below presents, for each genome (the concatenation of all contigs), a plot showing AH anomalous regions, and also a list of genes inside these regions. Each listed gene comes with the genomes, if any, where its homologs are, given by OrthoMCL (Li et al.2003).

GenomeAlien Hunter
plot		Genes in AH
regions
Xarb_3004_3004pdfhgt
Xarb_arracaciae_CFBP7407pdfhgt
Xarb_celebensis_NCPPB1630pdfhgt
Xarb_celebensis_NCPPB1832pdfhgt
Xarb_corylina_CFBP1159pdfhgt
Xarb_corylina_CFBP2565pdfhgt
Xarb_corylina_NCCB100457pdfhgt
Xarb_fragariae_CFBP6762pdfhgt
Xarb_fragariae_CFBP6773pdfhgt
Xarb_fragariae_LMG19144pdfhgt
Xarb_fragariae_LMG19145pdfhgt
Xarb_fragariae_LMG19146pdfhgt
Xarb_guizotiae_CFBP7408pdfhgt
Xarb_guizotiae_CFBP7409pdfhgt
Xarb_juglandis_CFBP2528pdfhgt
Xarb_juglandis_CFBP7179pdfhgt
Xarb_juglandis_CFBP8253pdfhgt
Xarb_juglandis_CPBF1521pdfhgt
Xarb_juglandis_CPBF367pdfhgt
Xarb_juglandis_CPBF426pdfhgt
Xarb_juglandis_CPBF427pdfhgt
Xarb_juglandis_DW3F3pdfhgt
Xarb_juglandis_J303pdfhgt
Xarb_juglandis_NCPPB1447pdfhgt
Xarb_juglandis_Xaj417pdfhgt
Xarb_populi_CFBP3122pdfhgt
Xarb_populi_CFBP3123pdfhgt
Xarb_pruni_CFBP3894pdfhgt
Xarb_pruni_IVIA26261pdfhgt
Xarb_zantedeschiae_CFBP7410pdfhgt
Xgardineri_SM40611pdfhgt

Funding

CAPES CNPq Fundect