#CELLPROFILER IDENTIFY CHROMOSOMES SERIES#

Rowan BA, Patel V, Weigel D, Schneeberger K (2015) Rapid and inexpensive whole-genome genotyping-by-sequencing for crossover localization and fine-scale genetic mapping. Cytogenet Genome Res 129:143–153Ĭhelysheva L, Vezon D, Chambon A et al (2012) The Arabidopsis HEI10 is a new ZMM protein related to Zip3. Methods Mol Biol 558:131–145Ĭhelysheva L, Grandont L, Vrielynck N et al (2010) An easy protocol for studying chromatin and recombination protein dynamics during Arabidopsisthaliana meiosis: Immunodetection of cohesins, histones and MLH1. J Exp Bot 63:887–894Īrmstrong SJ, Sanchez-Moran E, Franklin FCH (2009) Cytological analysis of Arabidopsis thaliana meiotic chromosomes. López E, Pradillo M, Oliver C et al (2012) Looking for natural variation in chiasma frequency in Arabidopsis thaliana. Sanchez-Moran E, Armstrong SJ, Santos JL et al (2002) Variation in chiasma frequency among eight accessions of Arabidopsis thaliana. Mercier R, Mézard C, Jenczewski E et al (2015) The molecular biology of meiosis in plants.

#CELLPROFILER IDENTIFY CHROMOSOMES SERIES#

We describe SeedScoring, a CellProfiler pipeline where the total time needed to measure crossover frequency in a single FTL line is approximately 5 min using a series of three images taken under a fluorescent stereomicroscope (3 min) and passing these images through the SeedScoring pipeline described in this protocol (2 min).

Here, we describe a protocol to computationally count the proportion of seeds that experienced a crossover event within the tested FTL interval and so measure the recombination frequency within that interval. A major advantage of FTL-based experiments is the ability to analyze thousands of seeds for each biological replicate, which requires the use of automatic seed scoring. In Arabidopsis, systems based on the segregation of fluorescent T-DNA reporters that are expressed in seeds (fluorescent-tagged lines, FTLs) allow for an accurate measurement of crossover frequency in specific chromosome regions. The number of crossovers during meiosis is relatively low, so multiple meioses need to be analyzed to accurately measure crossover frequency.

Cellprofiler identify chromosomes