Structural and Population Polymorphism of RT-Like Sequences in Avian Schistosomes Trichobilharzia szidati (Platyhelminthes: Digenea: Schistosomatidae)

Table 2

Characteristics of intra- and intergroup polymorphism and results of similarity search of studied T. szidati sequences.

		Similarity
Groups	Polymorphism	BLASTN	BLASTX	TBLASTX
		(+/+)	(Frame +3)	(Frame +3/+3)
Group I	Pinfo = 2; AT : GC = 62.3 : 37.7; test: dN-dS = −0.021 (); Dn = 0.6; Da = 1.1	No	Sm RT CAJ00247: score 49.3–52.4 bits, Exp , cover 51% (15–215 bp), I = 39–42%; Sj RT CAX83715: score 48.1–50.8 bits, Exp , cover 54% (3–215 bp), I = 35–38%; Cs RTGAA47523: score 45.8–46.2 bits, Exp 0.002–0.003, cover 40% (57–215 bp), I = 42%	Sj Penelope-like element retrotransposon Sj-penelope2 FN356226: score 65.4–70.2 bits, Exp , cover 98% (3–215 bp), I = 39–42%; Sm Penelope-like retrotransposon Perere-10 BN000801: Score 54.2–58.8 bits, Exp , Cover 53-54% (15–221 bp), I = 39–42%
Group II	Pinfo = 20; AT : GC = 57.8 : 42.2; test: dN-dS = −0.949 (); Dn = 2.2; Da = 2.0	No	Cs RTGAA47523: score 35.0, Exp 4.5–4.6, cover 43–48 (466–521 bp), I = 38-39%	No
Group III	Pinfo = 85; AT : GC = 58.7 : 41.3; test: dN-dS = −1.597 (); Dn = 3.9; Da = 3.9	S j Anhui clone BAC C108_113I17 FN293021: score 55.4 bits Exp ; cover 17% (308–375 bp); I = 78%; Chr1, chr2, chr3, chr4, chr7, Wchr: score 48.2–46.4 bits Exp ; cover 15–19% (116–220 bp); I = 70–77%	Sm RT CAJ00247: score 64.7–73.6 bits, Exp , cover 91–95% (15–386 bp), I = 30–37%; Sj RT CAX83715: score 50.4–60.8 bits, Exp , cover 77–95% (3–374 bp), I = 30–32%; Cs RTGAA47523: score 46.2–52.2 bits, Exp 0.002, cover 39–41% (3–374 bp), I = 47–49%	Sj Penelope-like element retrotransposon Sj-penelope2 FN356226: score 70.2–103.0 bits, Exp , cover 98% (3–386 bp), I = 34–36%; Sm Penelope-like retrotransposon Perere-10 BN000801: score 82.6–83.1 bits, Exp , cover 95% (15–386 bp), I = 35%; Sm Chr1, chr3, chr4, chr7, Wchr: score 118–48.2 bits, Exp ; cover 98-99% (3–386 bp), I = 27–47%; S j Anhui clone BAC C108_113I17 FN293021: score 35–49.2 bits, Exp ; cover 40–93 (81–230 bp); I = 26–40%
Groups I + III	AT : GC = 60.4 : 39.6; Pinfo = 182; test: dN-dS = −2.640 (); Dn = 24.1; Da = 21.6	—	—	—

: the sequence numbers, : length (bp), : the number of variable sites, Pinfo: the number of parsimonial sites, : distance (%), Sm: S. mansoni, Sj: S. japonicum, Cs: Clonorchis sinensis, RT: reverse transcriptase, Dn: nucleotide divergence, Da: amino acid divergence.