Molecular characterization of infectious bronchitis viruses isolated from broiler and layer chicken farms in Egypt during 2012

Peer review under responsibility of Faculty of Veterinary Medicine, Cairo University.

Figures & data

Table 1 IBV isolates identification.

No.	Isolate ID	Governorate	Type of production	Age (day)	Vaccination program	Collection date	Accession number
1	IBV-EG/1219F	Sharkia	Broiler	33	H120 at 1 day old	11/01/2012	KC776180
2	IBV-EG/1267F	Alexandria	Broiler	31	H120 at 1 day old	02/02/2012	KC776181
3	IBV-EG/1226B	Fayom	Broiler	29	Unknown	05/02/2012	KC776182
4	IBV-EG/1236B	Monofia	Broiler	31	H120 at 1 day old	12/02/2012	KC776183
5	IBV-EG/1260B	Bansuif	Layer	490	H120 at 1 day old and inactivated vaccine at 21 week	20/02/2012	KC776184
6	IBV-EG/1284B	Diemetta	Broiler	30	Unknown	08/03/2012	KC776185
7	IBV-EG/1290B	Luxor	Broiler	20	Unknown	14/03/2012	KC776186
8	IBV-EG/12177F	Giza	Broiler	26	H120 at 1 day old	20/03/2012	KC776187
9	IBV-EG/12103B	Dakahlia	Broiler	27	Unknown	04/04/2012	KC776188
10	IBV-EG/12249F	Behara	Broiler	28	H120 at 1 day old	20/04/2012	KC776192
11	IBV-EG/12150B	Qaluobia	Broiler	30	Unknown	20/05/2012	KC776190
12	IBV-EG/12164B	Ismailia	Broiler	33	H120 at 1 day old	21/05/2012	KC776191
13	IBV-EG/12105B	Menia	Broiler	31	Unknown	08/08/2012	KC776189

Table 2 Results of IBV detection.

No.	Governorate	Positive/Total no.		Positive/Total no. (Pos. %)
		Broiler	Layer
1	Behera	3/5	0/0	3/5 (60%)
2	Dakahlia	6/16	2/3	8/19 (42.1%)
3	Fayoum	37/46	3/5	40/51 (78.4%)
4	Gharbia	2/3	0/0	2/3 (66.7%)
5	Monofia	3/7	0/0	3/7 (42.9%)
6	Qualiobia	12/20	0/1	12/21 (57.1%)
7	Sharkia	6/7	1/3	7/10 (70%)
8	Alexandria	3/4	1/4	4/8 (50%)
9	Aswan	0/1	0/0	0/1 (0%)
10	Beni-suef	9/12	4/5	13/17 (76.5%)
11	Cairo	0/1	0/0	0/1 (0%)
12	Damietta	5/10	1/2	6/12 (50%)
13	Giza	6/7	1/3	7/10 (70%)
14	Ismailia	15/18	0/0	15/18 (83.3%)
15	Kafr El-Sheikh	3/5	0/0	3/5 (60%)
16	Luxor	1/12	0/0	1/12 (8.3%)
17	Menia	2/2	0/0	2/2 (100%)
18	North Sinai	0/1	0/0	0/2 (0%)
19	Port Said	0/1	0/0	0/1 (0%)
Total no.		117/179 (65.4%)	13/26 (50%)	130/205 (63.4%)

Figure 1 Showing embryonic lesions (A) curled & dwarfed embryos, (B) normal

Figure 2 Conventional PCR results gel electrophoresis of PCR product of SP1 gene.

Table 3 Identity and diversity of IBV.

Table 4 Amino acid substitution mutations in HVR of S1 gene of IBV.

Variant-2	S282	T285	V288	N289	I291	N292	I293	Q297	L298	S301	F308	Q318	K329	N331	T336	A351	L355
Group I^a	H	N		H		S	L	H	T			P	Q	D
Group II^b	A/T	S	I	E	F	Q	L	R	T	D	L	P			N	T	I

a Like variant 2 (IS/885).

b Like variant 1 (vaccinal strain).

Figure 3 Phylogenetic tree of SP1 gene. The black dots (•) refer to isolates belonging to group I, while stars (*) Refers to isolates belonging to group II.