Rapid identification of a natural knockout allele of ARMADILLO REPEAT-CONTAINING KINESIN1 that causes root hair branching by mapping-by-sequencing

Plant Physiol. 2014 Nov;166(3):1280-7. doi: 10.1104/pp.114.244046. Epub 2014 Sep 23.


In Arabidopsis (Arabidopsis thaliana), branched root hairs are an indicator of defects in root hair tip growth. Among 62 accessions, one accession (Heiligkreuztal2 [HKT2.4]) displayed branched root hairs, suggesting that this accession carries a mutation in a gene of importance for tip growth. We determined 200- to 300-kb mapping intervals using a mapping-by-sequencing approach of F2 pools from crossings of HKT2.4 with three different accessions. The intersection of these mapping intervals was 80 kb in size featuring not more than 36 HKT2.4-specific single nucleotide polymorphisms, only two of which changed the coding potential of genes. Among them, we identified the causative single nucleotide polymorphism changing a splicing site in ARMADILLO REPEAT-CONTAINING KINESIN1. The applied strategies have the potential to complement statistical methods in high-throughput phenotyping studies using different natural accessions to identify causative genes for distinct phenotypes represented by only one or a few accessions.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Animals
  • Arabidopsis / genetics*
  • Arabidopsis / growth & development
  • Arabidopsis Proteins / genetics*
  • Arabidopsis Proteins / metabolism
  • Armadillo Domain Proteins / genetics*
  • Armadillo Domain Proteins / metabolism
  • Armadillos
  • Chromosome Mapping
  • Kinesins / genetics*
  • Kinesins / metabolism
  • Mutation
  • Phenotype
  • Plant Roots / genetics
  • Plant Roots / growth & development
  • Polymorphism, Single Nucleotide*


  • Arabidopsis Proteins
  • Armadillo Domain Proteins
  • MRH2 protein, Arabidopsis
  • Kinesins