Computational prediction and molecular confirmation of Helitron transposons in the maize genome

BMC Genomics

Table 3 Molecular Analysis of Two Adjacent Helitrons

Inbred Line	F1 + R1	F3 + R3	F2 + R4	F4 + R4	Conclusions
4Co63	x	x	N/A	1 kb
A188	x	x	0.7 kb	N/A	No.1^-No.2^-
A636	3 kb	0.6 kb	x	x	No.1⁺No.2⁺
B73	3 kb	0.6 kb	x	1 kb	No.1⁺No.2⁺
BSSS53	x	x	N/A	N/A
McC	0.5 kb	0.6 kb	x	0.7 kb	No.1^-No.2⁺
CML139	x	x	0.7 kb	N/A	No.1^-No.2^-
H99	x	x	0.7 kb	x	No.1^-No.2^-
I137TN	x	N/A	N/A	1 kb
Ki3	x	x	0.7 kb	N/A	No.1^-No.2^-
M14	x	x	0.7 kb	N/A	No.1^-No.2^-
Mo17	x	x	0.7 kb	N/A	No.1^-No.2^-
W22	0.5 kb	0.6 kb	x	N/A	No.1^-No.2⁺
W23	0.5 kb	0.6 kb	N/A	N/A	No.1^-No.2⁺

PCR results from different primer combinations.
⁺: Helitron present
^-: Helitron absent
x: no PCR amplification
N/A: no PCR test
Conclusions were based on PCR results. Both No.1 and No.2 Helitrons were detected in lines A636 and B73, only Helitron No.2 in lines McC, W22, and W23, and neither Helitron in lines A188, CML139, H99, Ki3, M14, or Mo17. No conclusion could be reached for 4Co63, BSSS53, and I137 TN based on the above PCR results.

ISSN: 1471-2164