Table 5.

Housekeeping genes and specific primers used for multilocus sequence typing (MLST) in X. fastidiosa.

Gene	Position	Forward primer	Reverse primer	Gene function
holCa	XF0136	GATTTCCAAACCGCGCTTTC	TCATGTGCAGGCCGCGTCTCT	DNA polymerase III holoenzyme, chi subunit
rfbDa	XF0257	TTTGGTGATTGAGCCGAGGGT	CCATAAACGGCCGCTTTC	dTDP-4-dehydrorhamnose-3, 5-epimerase
nuoLa	XF0316	CATTATTGCCGGATTGTTAGG	GCGGGAAACATTACCAAGC	NADH-ubiquinone oxidoreductase, NQO12 subunit
nuoNa	XF0318	GGGTTAAACATTGCCGATCT	CGGGTTCCAAAGGATTCCTAA	NADH-ubiquinone oxidoreductase, NQO14 subunit
gltTa	XF0656	TTGGGTGTGGGTACGTTGCTG	CGCTGCCTCGTAAACCGTTGT	Glutamate symport protein
cysGa	XF0832	GGCGGCGGTAAGGTTG	GCGTATGTCTGTGCGGTGTGC	cysG Siroheme synthase
petCa	XF0910	CTGCCATTCGTTGAAGTACCT	CGTCCTCCCAATAAGCCT	Ubiquinol cytochrome c oxidoreductase
pilUa	XF1632	CAATGAAGATTCACGGCAATA	ATAGTTAATGGCTCCGCTATG	Twitching motility protein
leuAa	XF18188	GGGCGTAGACATTATCGAGAC	GTATCGTTGTGGCGTACACTG	2-Isopropylmalate synthase
lacFa	XF2447	TTGCTGGTCCTGCGGTGTTG	CCTCGGGTCATCACATAAGGC	ABC transporter sugar permease
rfbDb	XF0257	TTTGGTGATTGAGCCGAGGGTa	TCCATAAACGGCGCCTTC	dTDP-4-dehydrorhamnose-3, 5-epimerase
cysGb	XF0832	GGCGGCGGTAAGGTTGa	GCATATGTCTGTGCGGTGTGC	cysG Siroheme synthase
holCc	XF0136	ATGGCACGCGCCGACTTCT	ATGTCGTGTTTGTTCATGTGCAGG	DNA polymerase III holoenzyme, chi subunit
nuoLc	XF0316	TAGCGACTTACGGTTACTGGGC	ACCACCGATCCACAACGCAT	NADH-ubiquinone oxidoreductase, NQO12 subunit
gltTc	XF0656	TCATGATCCAAATCACTCGCTT	ACTGGACGCTGCCTCGTAAACC	Glutamate symport protein
cysGc	XF0832	GCCGAAGCAGTGCTGGAAG	GCCATTTTCGATCAGTGCAAAAG	cysG Siroheme synthase
petCc	XF0910	GCTGCCATTCGTTGAAGTACCT	GCACGTCCTCCCAATAAGCCT	Ubiquinol cytochrome c oxidoreductase
leuAc	XF18188	GGTGCACGCCAAATCGAATG	GTATCGTTGTGGCGTACACTG	2-Isopropylmalate synthase
malFc	XF2447	TTGCTGGTCCTGCGGTGTTG	GACAGCAGAAGCACGTCCCAGAT	ABC transporter sugar permease
pilUc	XF1632	CCGTAATCACAACTCAACAGGACA	CTGCGAATCAGCATGGCGTA	Twitching motility protein
acvBd	PD_1902	ACAGTATCGCCGTCGAAGTGATGA	CATGCATACRGCGATGYTTCCGAT	Virulence protein: suggested to regulate pathogenicity
copBd	PD_0101	ATGAACACCCGTACCTGGTTCGTA	ATTTAGTCTCCACCATGAGCCGCA	Copper resistance protein B precursor
cvaCad	PD_0215	TGCGTGAATTRACATTGACCG	CCTAGTCTGCGGCTTAAGCAGATT	Colicin V precursor
fimAd	PD_0062	CCCAGTGCGTCGTTATCGATTATTGGT	TTTYGYACTCTCAAGCATCGCATC	Fimbrial subunit precursor
gaad	PD_0315	TGAGAGCTGCYGATGTTCCAATGA	ACAGCTTCTGGCAAGAACAAGCAC	Glutaryl-7-aminocephalosporanic acid acylase precursor
pglAad	PD_1485	TAGTGCTGGCCTAACGATGTYGGT	CCGTATCAGCAACCACATGGAAGT	Polygalacturonase precursor
pilAd	PD_1924	ATCGCKCTGCCYATGTACCAAA	CAGCATTGATCGTRTTGCTGTRTG	Fimbrial protein
rpfFd	PD_0407	GCGCTCCATAGTTCGGAGTGATTT	ATGTCCGCTGTACATCCCATTCCT	Regulator of pathogenicity factors
xadAad	PD_0731	TGGGAGGTCAAAGYACTGCCATCA	GCATTGGCAGCAACACTCGAATCA	Outer membrane afimbrial adhesin
gltTe	PD1516	TTTTTCAGGGGTGTCGCGC	TTCCAACGTTACTGGACGCT	Glutamate symport protein
cysGe	PD1840	CCAAACATAGAAGCACGCCG	CGTATGTCTGTGCGGTGTG	Siroheme synthase
leuAe	PD1047	GGCCAGTGCTGTGTTTTGTT	GGGCTACTTGCTGGAGGAAG	2-Isopropylmalate synthase
lacFe	PD1465	TTCTTTGGTGGGTTGGGTGT	CACACAGCATCAACGTCGTC	ABC transporter sugar permease

^aSchuenzel et al. (2005).

^bAlmeida et al. (2008).

^cYuan et al. (2010).

^dParker et al. (2012).

^eHarris and Balci (2015).