. 2019 Oct 18;10:2353. doi: 10.3389/fmicb.2019.02353

TABLE 4.

Virulence gene patterns, allelic variants and mutations in flaA-SVR of C. jejuni isolated from avian and human sources.

Isolate code no.	Source	Virulence genes pattern	flaA-SVR nucleotide allele (No. of variations)	flaA-SVR peptide allele (No. of variations)	^∗∗Translation variation reference → clone	Accession no.
1	Pigeon droplets	cdtABC, flaA, virB11, iam	781 (30)	191 (16)	⁴⁹I → ²⁶T, ⁶⁰N → ³⁷K, ⁶³V → ⁴⁰E, ⁶⁴K → ⁴¹I, ⁷²S → ⁴⁹T, ⁷⁴K → ⁵¹R, ⁷⁶G → ⁵³I, ⁷⁷L → ⁵⁴F, ⁸⁴E → ⁶¹R, ⁸⁵R → ⁶²I, ⁸⁶I → ⁶³T, ⁹⁰G → ⁶⁷E, ⁹³Q → ⁷⁰P, ⁹⁴F → ⁷¹L, ⁹⁵T → ⁷²P, ⁹⁶L → ⁷³F	KX066127.1
2	Pigeon droplets	cdtABC, flaA, iam	731 (32)	191 (16)	⁴⁹I → ²⁷T, ⁵⁷A → ³⁵E, ⁶⁰N → ³⁸K, ⁶³V → ⁴¹E, ⁶⁴K → ⁴²I, ⁶⁶T → ⁴⁴I, ⁶⁷I → ⁴⁵M, ⁷²S → ⁵⁰T, ⁷⁴K → ⁵²R, ⁸⁴E → ⁶²R, ⁸⁵R → ⁶³I, ⁸⁶I → ⁶⁴T, ⁹³Q → ⁷¹P, ⁹⁴F → ⁷²L, ⁹⁶L → ⁷⁴F, ¹⁰¹G → ⁷⁹H	KX066128.1
3	Pigeon droplets	cdtABC, flaA, iam	940^∗	58 (10)	⁴⁹I → ²⁶T, ⁷⁷L → ⁵⁴V, ⁸⁴G → ⁶¹A, ⁸⁶I → ⁶³S, ⁸⁹S → ⁶⁶R, ⁹³Q → ⁷⁰A, ⁹⁴F → ⁷¹V, ⁹⁶L → ⁷³V, ⁹⁹Y → ⁷⁶F, ¹⁰¹G → ⁷⁸A	KX066129.1
4	Pigeon droplets	cdtABC, flaA, iam	38 (17)	5 (7)	⁴⁹I → ²⁷T, ⁷¹Q → ⁴⁹H, ⁷⁴K → ⁵²N, ⁷⁹R → ⁵⁷C, ⁸⁹S → ⁶⁷F, ⁹⁶L → ⁷⁴F, ¹⁰⁶K → ⁸⁴P	KX066130.1
5	Pigeon droplets	cdtABC, flaA, iam	1118 (18)	239 (13)	⁵⁶G → ³²C, ⁵⁷A → ³³S, ⁵⁹S → ³⁵L, ⁶²T → ³⁸I, ⁷¹Q → ⁴⁷I, ⁷⁶G → ⁵²A, ⁷⁸T → ⁵⁴K, ⁷⁹R → ⁵⁵C, ⁹⁰G → ⁶⁶T, ⁹²V → ⁶⁸E, ⁹⁹Y → ⁷⁵S, ¹⁰¹A → ⁷⁷C, ¹⁰⁴D → ⁸⁰V	KX066131.1
6	Pigeon droplets	cdtABC, flaA, iam	1275 (19)	209 (13)	⁵⁷A → ³⁵S, ⁶²T → ⁴⁰I, ⁶⁴K → ⁴²I, ⁶⁸G → ⁴⁶A, ⁷⁰T → ⁴⁸S, ⁷¹Q → ⁴⁹H, ⁷²S → ⁵⁰T, ⁷⁵I → ⁵³M, ⁹⁴L → ⁷²V, ⁹⁶L → ⁷⁴F, ⁹⁹Y → ⁷⁷D, ¹⁰²I → ⁸⁰K, ¹⁰⁴D → ⁸²V	KX066132.1
7	Pigeon droplets	cdtABC, flaA	186 (25)	356 (17)	⁶²T → ³⁷A, ⁶³I → ³⁸V, ⁶⁴K → ³⁹I, ⁶⁵A → ⁴⁰V, ⁷²S → ⁴⁷P, ⁷³S → ⁴⁸F, ⁷⁴K → ⁴⁹Q, ⁷⁸T → ⁵³S, ⁸⁵R → ⁶⁰S, ⁸⁶I → ⁶¹V, ⁸⁸S → ⁶³T, ⁹³Q → ⁶⁸S, ⁹⁶L → ⁷¹P, ⁹⁹Y → ⁷⁴D, ¹⁰¹G → ⁷⁶S, ¹⁰³D → ⁷⁸H, ¹⁰⁴D → ⁷⁹G	KX066134.1
8	Pigeon droplets	cdtABC, flaA	9 (26)	60 (15)	³³A → ⁸T, ⁴⁹I → ²⁴V, ⁵²E → ²⁷K, ⁵⁷A → ³²E, ⁶⁶T → ⁴¹I, ⁶⁷I → ⁴²T, ⁷²S → ⁴⁷T, ⁷⁷L → ⁵²F, ⁸²T → ⁵⁷R, ⁸³G → ⁵⁸V, ⁹⁰G → ⁶⁵S, ⁹⁴F → ⁶⁹A, ⁹⁶L → ⁷¹H, ¹⁰²L → ⁷⁷R, ¹⁰⁶Q → ⁸¹L	KX066135.1
9	Pigeon droplets	cdtAB, flaA	781 (31)	191 (14)	⁴⁹I → ²⁶T, ⁵⁷A → ³⁴E, ⁶⁰N → ³⁷K, ⁶³V → ⁴⁰E, ⁶⁴K → ⁴¹I, ⁷²S → ⁴⁹T, ⁷⁴K → ⁵¹R, ⁷⁶G → ⁵³I, ⁸⁴E → ⁶¹R, ⁸⁵R → ⁶²I, ⁸⁶I → ⁶³T, ⁹³Q → ⁷⁰P, ⁹⁴F → ⁷¹L, ⁹⁶L → ⁷³F	MK281505
10	Pigeon droplets	cdtAB, flaA, iam	1118 (17)	239 (13)	⁵⁶G → ³³C, ⁵⁷A → ³⁴S, ⁵⁹S → ³⁶L, ⁶²T → ³⁹I, ⁶⁸G → ⁴⁵A, ⁷¹Q → ⁴⁸N, ⁷⁶G → ⁵³A, ⁷⁸T → ⁵⁵K, ⁷⁹R → ⁵⁶C, ⁹⁰G → ⁶⁷T, ⁹²V → ⁶⁹E, ¹⁰¹A → ⁷⁸C, ¹⁰⁴D → ⁸¹V	MK281506
11	Pigeon droplets	cdtBC, flaA	938 (19)	209 (12)	⁵⁷A → ³⁴S, ⁶²T → ³⁹I, ⁶⁴K → ⁴¹I, ⁶⁸G → ⁴⁵A, ⁷⁰T → ⁴⁷S, ⁷¹Q → ⁴⁸N, ⁷²S → ⁴⁹T, ⁷⁵I → ⁵²M, ⁹⁴L → ⁷¹V, ⁹⁶L → ⁷³F, ¹⁰²I → ⁷⁹K, ¹⁰⁴D → ⁸¹V	MK281507
12	Pigeon droplets	cdtABC, flaA	177 (10)	74 (5)	³²I → ³⁸T, ³⁶T → ⁴²A, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ¹⁰²I → ¹⁰⁸L	MK281508
13	Pigeon droplets	cdtABC, flaA, iam	1486 (11)	92 (8)	¹⁹Q → ¹¹L, ²⁶M → ¹⁸I, ²⁹L → ²¹I, ⁶³V → ⁵⁵M, ⁷⁷V → ⁶⁹F, ⁹⁶I → ⁸⁸V, ⁹⁷K → ⁸⁹Q, ⁹⁹Y → ⁹¹F	MK281509
14	Pigeon droplets	cdtABC, flaA	756 (26)	58 (9)	⁴⁹I → ²⁶T, ⁷⁴K → ⁵¹N, ⁸⁶I → ⁶³S, ⁸⁹S → ⁶⁶R, ⁹⁴F → ⁷¹V, ⁹⁶L → ⁷³V, ⁹⁹Y → ⁷⁶F, ¹⁰¹G → ⁷⁸A, ¹⁰⁶K → ⁸³P	MK281510
15	Pigeon droplets	cdtBC, flaA	38 (18)	239 (5)	⁴⁹I → ²⁷T, ⁷⁴K → ⁵²N, ⁸⁹S → ⁶⁷R, ⁹⁶L → ⁷⁴F, ¹⁰⁶Q → ⁸⁴P	MK281511
16	Pigeon droplets	cdtABC, flaA	1183^∗	239 (15)	⁵⁷A → ³²S, ⁵⁹S → ³⁴L, ⁶²T → ³⁷I, ⁶⁴K → ³⁹I, ⁷⁰T → ⁴⁵S, ⁷¹Q → ⁴⁶I, ⁷²S → ⁴⁷T, ⁷⁵I → ⁵⁰M, ⁹⁰G → ⁶⁵T, ⁹⁴F → ⁶⁹V, ⁹⁶L → ⁷¹F, ⁹⁹Y → ⁷⁴S, ¹⁰¹A → ⁷⁶C, ¹⁰²I → ⁷⁷K, ¹⁰⁴D → ⁷⁹V	MK281512
17	Chicken meat	cdtABC, flaA, wlaN, iam	177 (8)	74 (5)	³²I → ³⁸T, ³⁶T → ⁴²A, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ¹⁰²I → ¹⁰⁸L	MG677923.1
18	Chicken meat	cdtABC, flaA, virB11, iam	177 (9)	74 (5)	¹⁰Q → ¹⁰E, ²³N → ²³Y, ³⁹N → ³⁹D, ⁷⁶G → ⁷⁶D, ⁸⁹S → ⁸⁹L	MG677924.1
19	Chicken meat	cdtABC, flaA, iam	1486 (11)	92 (7)	¹⁹Q → ¹³L, ²⁶M → ²⁰I, ⁶³V → ⁵⁷M, ⁸⁰F → ⁷⁴I, ⁸⁷F → ⁸¹L, ⁹⁷K → ⁹¹Q, ¹⁰⁴D → ⁹⁸E	MG677925.1
20	Chicken meat	cdtAB, flaA, iam	177 (12)	74 (8)	⁵A → ¹¹V, ³²I → ³⁸T, ³⁶T → ⁴²A, ⁴⁵S → ⁵¹N, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ⁸¹E → ⁸⁷A, ¹⁰²I → ¹⁰⁸L	MG677926.1
21	Chicken cl. swab	cdtAB, flaA	526^∗	211 (13)	⁶²T → ³⁸I, ⁶⁷I → ⁴³L, ⁷¹Q → ⁴⁷H, ⁷²S → ⁴⁸T, ⁷⁴K → ⁵⁰I, ⁸⁰F → ⁵⁶V, ⁸⁵K → ⁶¹S, ⁸⁶I → ⁶²V, ⁹⁴F → ⁷⁰A, ⁹⁵T → ⁷¹A, ⁹⁹Y → ⁷⁵A, ¹⁰²I → ⁷⁸V, ¹⁰³D → ⁷⁹G	KX066133.1
22	Chicken cl. swab	cdtABC, flaA, virB11, wlaN	177 (9)	74 (6)	⁵A → ¹¹V, ³²I → ³⁸T, ³⁶T → ⁴²A, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ¹⁰²I ¹⁰⁸L	MK281494
23	Chicken cl. swab	cdtAC, flaA, wlaN, iam	177 (12)	74 (8)	⁵A → ¹¹V, ³²I → ³⁸T, ³⁶T → ⁴²A, ⁴⁵S → ⁵¹N, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ⁸¹E → ⁸⁷A, ¹⁰²I → ¹⁰⁸L	MK281513
24	Chicken cl. swab	flaA	288^∗	92 (9)	¹⁰Q → ⁸E, ²³N → ²¹Y, ²⁶M → ²⁴I, ³⁹N → ³⁷D, ⁶³V → ⁶¹S, ⁷⁶G → ⁷⁴D, ⁸⁰F → ⁷⁸I, ⁸⁷F → ⁸⁵L, ⁸⁹S → ⁸⁷L	MK281495
25	Chicken meat	cdtC, flaA	1486 (12)	92 (7)	¹⁹Q → ¹⁵L, ²⁶M → ²²I, ²⁹L → ²⁵I, ³⁹N → ³⁵D, ⁶³V → ⁵⁹M, ⁹⁷K → ⁹³Q, ¹⁰⁴D → ¹⁰⁰E	MK281496
26	Chicken meat	flaA	177 (5)	74 (2)	³⁹N → ¹⁵D, ⁸⁰F → ⁵⁶I	MK281497
27	Chicken meat	cdtC, flaA	288 (8)	92 (4)	²⁶M → ²¹I, ⁶³V → ⁵⁸M, ⁸⁷F → ⁸²L, ¹⁰⁴D → ⁹⁹E	MK281498
28	Chicken meat	cdtAC, flaA, iam	9 (27)	211 (15)	³³A → ⁸T, ⁶²T → ³⁷I, ⁶⁷I → ⁴²L, ⁷²S → ⁴⁷T, ⁷⁴K → ⁴⁹I, ⁸⁰F → ⁵⁵V, ⁸²T → ⁵⁷R, ⁸⁵K → ⁶⁰S, ⁸⁶I → ⁶¹V, ⁹⁴F → ⁶⁹A, ⁹⁵T → ⁷⁰A, ⁹⁶L → ⁷¹H, ⁹⁹Y → ⁷⁴A, ¹⁰²I → ⁷⁷V, ¹⁰³D → ⁷⁸G	MK281499
29	Chicken meat	cdtC, flaA	526 (23)	211 (13)	⁴⁹I → ²⁴V, ⁶⁷I → ⁴²L, ⁷¹Q → ⁴⁶H, ⁷²S → ⁴⁷T, ⁷⁴K → ⁴⁹I, ⁸⁰F → ⁵⁵V, ⁸³G → ⁵⁸V, ⁸⁵K → ⁶⁰S, ⁸⁶I → ⁶¹V, ⁹⁴F → ⁶⁹A, ⁹⁵T → ⁷⁰A, ¹⁰²I → ⁷⁷V, ¹⁰³D → ⁷⁸G	MK281500
30	Chicken meat	cdtAC, flaA	526^∗	60 (14)	⁵²E → ²⁸K, ⁶²T → ³⁸I, ⁶⁶T → ⁴²I, ⁶⁷I → ⁴³T, ⁷¹Q → ⁴⁷H, ⁷²S → ⁴⁸T, ⁷⁴K → ⁵⁰I, ⁸⁰F → ⁵⁶L, ⁹⁰G → ⁶⁶S, ⁹⁴F → ⁷⁰A, ⁹⁵T → ⁷¹A, ⁹⁹Y → ⁷⁵A, ¹⁰²L → ⁷⁸R, ¹⁰³D → ⁷⁹G	MK281501
31	Human stool	cdtABC, flaA, virB11	177 (8)	74 (5)	³²I → ³⁸T, ³⁶T → ⁴²A, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ¹⁰²I → ¹⁰⁸L	MG677927.1
32	Human stool	cdtABC, flaA	239 (10)	9 (8)	¹K → ⁷R, ¹²L → ¹⁸S, ²⁷E → ³³D, ³⁶T → ⁴²S, ⁴²Q → ⁴⁸H, ⁷³S → ⁷⁹A, ⁹²V → ⁹⁸D, ⁹⁸N → ¹⁰⁴S	MG677928.1
33	Human stool	cdtABC, flaA, wlaN	288 (11)	92 (7)	⁸D → ¹⁴A, ²⁶M → ³²I, ²⁹L → ³⁵V, ⁶³V → ⁶⁹M, ⁷¹Q → ⁷⁷L, ⁸⁷F → ⁹³L, ¹⁰⁴D → ¹¹⁰E	MG677929.1
34	Human stool	cdtABC, flaA	177 (15)	74 (7)	¹⁰Q → ¹⁰E, ²³N → ²³Y, ⁵²E → ⁵²Q, ⁶⁵A → ⁶⁵G, ⁷⁶G → ⁷⁶D, ⁸⁸T → ⁸⁸A, ⁸⁹S → ⁸⁹L	MG677930.1
35	Human stool	cdtABC, flaA, wlaN	1064 (10)	267 (10)	⁴Q → ¹⁰P, ¹⁷M → ²³L, ³¹N → ³⁷T, ³⁸F → ⁴⁴I, ⁵⁰N → ⁵⁶Y, ⁶⁶T → ⁷²I, ⁷⁹R → ⁸⁵I, ⁹¹V → ⁹⁷A, ¹⁰²I → ¹⁰⁸L, ¹⁰⁷Y → ¹¹³L	MG677931.1
36	Human stool	cdtABC, flaA	239 (9)	9 (8)	⁸D → ¹⁴E, ¹⁰Q → ¹⁶H, ¹⁹Q → ²⁵K, ³⁹N → ⁴⁵Y, ⁴⁶G → ⁵²R, ⁶²T → ⁶⁸P, ⁷⁴K → ⁸⁰Q, ¹⁰⁶K → ¹¹²Q	MG677932.1
37	Human stool	cdtABC, flaA	177 (14)	74 (9)	³T → ³I, ¹⁹Q → ¹⁹E, ³⁴N → ³⁴Y, ⁵²E → ⁵²D, ⁷⁰T → ⁷⁰S, ⁷⁷V → ⁷⁷A, ⁹⁶I → ⁹⁶V, ¹⁰¹G → ¹⁰¹S, ¹⁰⁶K → ¹⁰⁶E	MG677933.1
38	Human stool	cdtABC, flaA	288 (7)	92 (5)	⁹G → ²V, ³⁴N → ²⁷S, ⁵⁸S → ⁵¹T, ⁶³V → ⁵⁶M, ¹⁰⁶K → ⁹⁹R	MG677934.1
39	Human stool	cdtAB, flaA	177 (8)	74 (5)	³²I → ³⁸T, ³⁶T → ⁴²A, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L, ¹⁰²I → ¹⁰⁸L	MK281502
40	Human stool	cdtBC, flaA	177 (8)	74 (4)	³²I → ³⁸T, ³⁶T → ⁴²A, ⁵⁸S → ⁶⁴G, ⁷¹Q → ⁷⁷L	MK281503
41	Human stool	cdtAB, flaA	177 (13)	74 (8)	¹⁹Q → ¹²E, ³⁴N → ²⁷Y, ⁵²E → ⁴⁵D, ⁷⁰T → ⁶³S, ⁷⁷V → ⁷⁰A, ⁹⁶I → ⁸⁹V, ¹⁰¹G → ⁹⁴S, ¹⁰⁶K → ⁹⁹E	MK281504

SVR, short variable region; cl. swab, cloacal swabs; A, alanine; R, arginine; N, asparagine; D, aspartic acid; C, cysteine; E, glutamic acid; Q, glutamine; G, glycine; H, histidine; I, isoleucine; L, leucine; K, lysine; M, methionine; F, phenylalanine; P, proline; S, serine; T, threonine; Y, tyrosine; V, valine. ^∗ Nucleotide alleles with asterisks have frameshift rather than point mutations. Novel allelic variants identified in this study are shown in bold. ^∗∗The information to the left of the arrow refer to the identity and the position on the reference strains (deposited on http://pubmlst.org/campylobacter/) and the information to the right of the arrow show the corresponding identity and position on the query strains.