Skip to main content

Table 1 Putative and confirmed root-to-shoot transmission of PTGS (rtp) mutations identified by Can-Seq and complementation tests

From: Can-Seq: a PCR and DNA sequencing strategy for identifying new alleles of known and candidate genes

Candidate geneHomozygous candidate mutationrtp mutantPutative rtp mutationCausative rtp mutationMutant crossed to
AGO1P204SEMS#193Yesn.d.EMS#152
G277EEMS#97Yesn.d.EMS#152
D769NEMS#101Yesn.d.EMS#152
Intron 5 donor splice variantEMS#152YesYesEMS#193, EMS#97, EMS#101
AGO9M261IEMS#155Yesn.d.EMS#140
G853REMS#140Yesn.d.EMS#155
DCL2aW796*aEMS#193aYesYesEMS#149, dcl2 (Kas-1)
A1098VaEMS#149aYesYesEMS#193, dcl2 (Kas-1)
HASTYR544HEMS#193Yesn.d.EMS#155
G1083SEMS#155Yesn.d.EMS#193
JMJ14Q183*EMS#38Yesn.d.EMS#90
G331EEMS#148Yesn.d.EMS#90
Intron 2 acceptor splice variantEMS#90YesYesEMS#38, EMS#148
NRPD1AS222FEMS#193Yesn.d.EMS#144
R1174*EMS#144Yesn.d.EMS#193
NRPD1BaA513TaEMS#149aInconclusiven.d.EMS#193
R1174*aEMS#193aInconclusiven.d.EMS#149
RDR6bG19EbEMS#157bNon.d.EMS#153
W227*EMS#153
(rtp2-5)c
YesYesEMS#19, EMS#94, EMS#146, EMS#159, EMS#157, sde1-1
W685*cEMS#19 (rtp2-2)cYesYesEMS#153, sde1-1
W764*EMS#94Yesn.d.EMS#153
P1073LbEMS#146bNon.d.EMS#153
R828KcEMS#159
(rtp2-6)c
YesYesEMS#153, sde1-1
R376*cEMS#11 (rtp2-1)cYesn.d.sde1-1
  1. Multiple independent candidate mutations were identified in all of the genes listed in the table, and complementation tests were used to identify putative and confirmed rtp causative mutations. We classified a candidate mutation as putative when an rtp phenotype was observed in the F1 progeny of a cross between a mutant and one other independent mutant carrying a homozygous mutation in the same candidate gene. On the other hand, we classified a candidate mutation as causative when an rtp phenotype was observed in the F1 progeny of a cross between a mutant and at least two other independent rtp mutants carrying a homozygous mutation in the same candidate gene. Based on the complementation tests shown in the table, most of the candidate mutations identified by Can-Seq were classified as at least putative rtp mutations. Furthermore, all seven candidate mutations that were tested by crossing to at least two other independent rtp mutants carrying mutations in the same candidate gene were confirmed to be causative rtp mutations. The two dcl2 mutants in the Table were crossed to each other and also to the naturally occurring dcl2 mutant in ecotype Kas-1, and in all cases, the F1 phenotype was mutant [11]. At least three F1 progeny plants were characterized for each combination of crosses. n.d., not determined
  2. aBoth EMS#193 and EMS#149 carried causative mutations in DCL2 [11] and additional mutations in NRPD1B (also see Additional file 4: Table S4)
  3. bThe causative mutations in EMS#157 and EMS#146 did not map to the RDR6 missense mutations (also see Additional file 4: Table S4)
  4. crdr6 alleles described in Taochy et al. [11]