Phylogenetic distribution and predominant genotype of the avian infectious bronchitis virus in China during 2008-2009

Ji, Jun; Xie, Jingwei; Chen, Feng; Shu, Dingming; Zuo, Kejing; Xue, Chunyi; Qin, Jianping; Li, Hongmei; Bi, Yingzuo; Ma, Jingyun; Xie, Qingmei

doi:10.1186/1743-422X-8-184

Virology Journal

Table 2 Sequence alignment of amino acid residues of the S1 glycoprotein of IBV strains with the M41 strain

From: Phylogenetic distribution and predominant genotype of the avian infectious bronchitis virus in China during 2008-2009

Strains	Deletions¹	Insertions²	Cleavage recognition motifs
CQ8		119(2)GL, 140(2)NS	RRTGR^a
CQ9	21(1)D, 118(1)G	72(7)YTNGNDV	HRRRR^b
MS1	21(1)D, 118(1)G	72(7)YTNGNDV	HRRRR^b
PT1	21(1)D, 118(1)G	72(7)YTNGNDV	RRSRR^c
PT2		117(2)GV, 286(1)N	RRLRR^d
PT3	21(1)D, 118(1)G	72(7)YTNGNDV	RRSRR^c
PT4	21(1)D, 118(1)G	72(7)YTNGNDV	RRSRR^c
BT		119(2)GS	RRFRR^e
Y4		117(2)GI, 286(1)N	RRFRR^e
Y9		117(2)GI, 286(1)N	RRFRR^e
FML	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HY		117(2)GV, 286(1)N	RRLRR^d
HY41	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HY42	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HY51	23(1)S, 118(1)G	72(7)YTNGNDV, 286(1)G	RRFRR^e
HY52	23(1)S, 118(1)G	72(7)YSNGNDV	RRSKR^f
HY1	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HY2	23(1)S, 118(1)G	72(7)YSNGNDV	RRSKR^f
HY3	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
KY		24(1)N, 119(2)GS	HRRRR^b
LZ1		24(1)N, 119(2)GS	HRRRR^b
LZ2		24(1)N, 119(2)GS	HRRRR^b
LZ3		24(1)N, 119(2)GS	HRRRR^b
LH	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
SL		24(1)N, 119(2)GS	HRRRR^b
ST1		119(2)GS	RRFRR^e
ST3		119(2)GS	RRFRR^e
WL	21(1)D, 118(1)G	72(7)YTNGNDV	HRRRR^b
XD2		119(2)GS	RRFRR^e
XD3		24(1)N, 119(2)GS	RRFRR^e
XN		24(1)N, 119(2)GS	RRFRR^e
XN1		25(1)N, 119(2)GS	HRRRR^b
XN2		119(2)GS	RRFRR^e
GL1	21(1)D, 118(1)G	72(7)YTNGNDV	HRRRR^b
GL2		117(2)GI, 289(1)N	RRLRR^d
GL		25(1)N, 119(2)GS	HRRRR^b
HEZ	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
LC	118(1)G	72(7)YTNGNDV, 286(1)S	RRFRR^e
LC1		117(2)GI	RRFRR^e
LC2		117(2)GI	RRFRR^e
LC3		117(2)GI	RRFRR^e
LC4		117(2)GI	RRFRR^e
LC5		117(2)GI	RRFRR^e
LC6	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
LC7		117(2)GI	RRFRR^e
LC8		117(2)GI	RRFRR^e
LC9	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
NN		117(2)GI, 286(1)N	RRLRR^d
YL08		117(2)GI, 286(1)N	RRLRR^d
YL4	24(1)S, 118(1)G	72(7)YTNGNDV	RRFRR^e
YL6		24(1)N, 119(2)GS	HRRRR^b
HN08		119(2)GS	RRFRR^e
HN1	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN2	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN31	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN32	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN33	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN34	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN41	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN42	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN43	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HN44	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
WH1		24(1)N, 119(2)GS	HRRRR^b
WH2		24(1)N, 119(2)GS	HRRRR^b
WH3		25(1)N, 119(2)GS	HRRRR^b
WH4		25(1)N, 119(2)GS	HRRRR^b
LYG		25(1)N, 119(2)GS	HRRRR^b
NJ			RRFRR^e
HZ1		25(1)N, 119(2)GS	HRRRR^b
HZ2		25(1)N, 119(2)GS	HRRRR^b
HZ3		25(1)N, 119(2)GS	HRRRR^b
HZ4	21(1)D, 118(1)G	72(7)YTNGNDV	RRFRR^e
HZ5		25(1)N, 119(2)GS	HRRRR^b
HZ6		25(1)N, 119(2)GS	HRRRR^b
HZ7		25(1)N, 119(2)GS	HRRRR^b
HZ8		25(1)N, 119(2)GS	HRRRR^b
HZ9		25(1)N, 119(2)GS	HRRRR^b
QZ1		24(1)N, 119(2)GS	HRRRR^b
QZ2		24(1)N, 119(2)GS	HRRRR^b
QZ3		24(1)N, 119(2)GS	HRRRR^b

¹ positions of residues in deduced amino acid sequences of the S1 protein of the M41 vaccine strain;
² positions of residues in deduced amino acid sequences of the S1 protein of the M41 strain between which the residue(s) of other IBVs was (were) inserted.
a, RRTGR: Arg-Arg-Thr-Gly-Arg (1/80); b, HRRRR: His-Arg-Arg-Arg-Arg (28/80); c, RRSRR: Arg-Arg-Ser-Arg-Arg (3/80); d, RRLRR: Arg-Arg-Leu-Arg-Arg 5/80; e, RRFRR: Arg-Arg-Phe-Arg-Arg (41/80); f, RRSKR Arg-Arg-Ser-Lys-Arg (2/80).

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ISSN: 1743-422X

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