Genome-wide analysis of mutations in mutant lineages selected following fast-neutron irradiation mutagenesis of Arabidopsis thaliana
Item Type Article
Authors Belfield, E.J.;Gan, X.;Mithani, A.;Brown, C.;Jiang, C.;Franklin, K.;Alvey, E.;Wibowo, Anjar Tri;Jung, M.;Bailey, K.;Kalwani, Sharan;Ragoussis, J.;Mott, R.;Harberd, N.P.
Citation Belfield EJ, Gan X, Mithani A, Brown C, Jiang C, et al. (2012) Genome-wide analysis of mutations in mutant lineages selected following fast-neutron irradiation mutagenesis of Arabidopsis thaliana. Genome Research 22: 1306-1315. doi:10.1101/
gr.131474.111.
Eprint version Publisher's Version/PDF
DOI 10.1101/gr.131474.111
Publisher Cold Spring Harbor Laboratory Press
Journal Genome Research
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Link to Item http://hdl.handle.net/10754/334634
FN M3 Line
E71 E99 E125 E128 E138 E216 Total Total (minus
spontaneous rate)
Single base substitutions
M3 homozygous variants 18 10 18 6 7 5 64 52.2
M2 homozygous variants 12.0 6.7 12.0 4.0 4.7 3.3 42.7 34.8
M1 heterozygous variants 48.0 26.7 48.0 16.0 18.7 13.3 170.7 139.3 M1 FN mutation rate 446.5 248.1 446.5 148.8 173.6 124.0 264.6 216.0
Standard error 64.4 48.0 64.4 37.2 40.2 34.0 20.3 18.3
Single base deletions
M3 homozygous variants 3 3 4 2 3 3 18 17.0
M2 homozygous variants 2.0 2.0 2.7 1.3 2.0 2.0 12.0 11.4
M1 heterozygous variants 8.0 8.0 10.7 5.3 8.0 8.0 48.0 45.4
M1 FN mutation rate 74.4 74.4 99.2 49.6 74.4 74.4 74.4 70.4
Standard error 26.3 26.3 30.4 21.5 26.3 26.3 10.7 10.5
Single base insertions
M3 homozygous variants 2 0 2 0 1 0 5 4.5
M2 homozygous variants 1.3 0.0 1.3 0.0 0.7 0 3.3 3.0
M1 heterozygous variants 5.3 0.0 5.3 0.0 2.7 0 13.3 12.1
M1 FN mutation rate 49.6 0.0 49.6 0.0 24.8 0 20.7 18.7
Standard error 21.5 0.0 21.5 0.0 15.2 0.0 5.7 5.4
All single base variants
M3 homozygous variants 23 13 24 8 11 8 87 73.2
M2 homozygous variants 15.3 9 16.0 5 7.3 5 58.0 48.8
M1 heterozygous variants 61.3 35 64.0 21 29.3 21 232.0 195.2
M1 FN mutation rate 570.5 322 595.3 198 272.9 198 359.7 302.6
Standard error 72.9 54.8 74.4 43.0 50.4 43.0 23.6 21.7
Supplemental Table 5. Calculated single base nucleotide mutation rates of six FN
M3 mutagenized Arabidopsis lines and correction for spontaneous mutations in each generation using Col-0 MA line mutation rates (Ossowski et al. 2010). Mutation rates were determined from homozygous variants detected in six FN irradiated M3 plant lines (see Supplemental Table 1). Mutations identified in E99 and E125 lines were validated by Sanger sequencing.
