Different patterns of evolution for duplicated DNA repair genes in bacteria of the Xanthomonadales group

Table 1 Distribution of DNA repair genes in Xanthomonadales: presence of duplications.

Repair Pathway	Xanthomonas axonopodis[5.27 Mbp]	Xanthomonas campestris[5.08 Mbp]	Xylella fastidiosa[2.73 Mbp]
Nucleotide Excision Repair (NER)	*uvrA(2), uvrB, uvrC(2), uvrD(2), mfd*	*uvrA(2), uvrB, uvrC(2), uvrD, mfd*	uvrA, uvrB, uvrC, uvrD, mfd
Base Excision Repair (BER)	alkA^a, fpg, mag, mutY, nth, tag, ung, *xthA (2)*	alkA^a, fpg, mag, mutY, nth, tag, ung, *xthA (2)*	*fpg (2), mag, mutY, nth, ung, xthA*
Mismatch Repair ^b (MMR)	mutS, mutL	mutS, mutL	mutS, mutL
Direct Repair	alkB, phr, ogt	alkB, phr, ogt,	alkB, ogt
Recombination Repair	recA, recBCD, recF, recG, recJ, recN, recO, recR, recQ, ruvABC, sbcB	recA, recBCD, recF, recG, recJ, recN, recO, recR, recQ, ruvABC, sbcB	recA, recBCD, recF, recG, recJ, recN, recO, recR, recQ, ruvABC, sbcB
Other DNA Repair related genes	ada^a, *lexA(2), dinB, ligA^c, ligB^c (2)*	ada^a, *lexA(2), dinB, ligA^c, ligB^c (3), umuDC*	lexA, ligA^c

Genome sizes are indicated within brackets. The DNA repair genes identified in the genome of the three organisms are shown. Those present in more than one copy due to duplications are marked in bold (numbers in parenthesis). ^aalkA and ada regulatory domain genes are fused in these bacteria. ^bmutH, found in E. coli, is not present in these 3 genomes. ^c ligA corresponds to the NAD-dependent ligase and ligB to the ATP-dependent ligase (see text).

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