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Identifying crossover locations in an Arabidopsis thaliana HEI10 Col x Ler F2 population using genotyping by sequencing.

ABSTRACT: Identifying crossover locations in an Arabidopsis thaliana HEI10 Col x Ler F2 population using genotyping by sequencing.

PROVIDER: PRJEB14931 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1549100_1.fastq.gz	Fastqsanger.gz
	ERR1549100_2.fastq.gz	Fastqsanger.gz
	ERR1549110_1.fastq.gz	Fastqsanger.gz
	ERR1549110_2.fastq.gz	Fastqsanger.gz
	ERR1549120_1.fastq.gz	Fastqsanger.gz

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Identifying crossover locations in an Arabidopsis thaliana HEI10 Col x Ler F2 population using genotyping by sequencing.

Project description:Genomic DNA from 192 HEI10 Col x Ler F2 individuals was extracted using CTAB and used to generate sequencing libraries as described (Rowan et al; Yelina et al), with the following modifications. DNA was extracted from 3 rosette leaves of 5 week old plants and 150 ng of DNA used as input for each library. DNA shearing was carried out for 20 minutes at 37C with 0.4U of DNA Shearase (Zymo research). The barcoded adapters used for library construction are listed in Rowan et al. Each set of 96 libraries was sequenced on one lane of an Illumina NextSeq500 instrument (300-cycle Mid Output run). Sequencing data was analysed to identify crossovers as previously reported, using the TIGER pipeline (Rowan et al; Yelina et al). These data should be compared to a set of wild type control libraries available at E-MTAB-4657. Rowan BA, Patel V, Weigel D, Schneeberger K. Rapid and Inexpensive Whole-Genome Genotyping-by-Sequencing for Crossover Localization and Fine-Scale Genetic Mapping. G3 (Bethesda). 2015;5: 38598. Yelina NE, Lambing C, Hardcastle TJ, Zhao X, Santos B, Henderson IR. DNA methylation epigenetically silences crossover hot spots and controls chromosomal domains of meiotic recombination in Arabidopsis. Genes Dev. 2015;29: 2183202.

2016-08-05 | E-MTAB-4967 | biostudies-arrayexpress

Identifying crossover locations in an Arabidopsis thaliana HEI10-mRFP1 Col x Ler F2 population using genotyping by sequencing

Project description:Identifying crossover locations in an Arabidopsis thaliana HEI10-mRFP1 Col x Ler F2 population using genotyping by sequencing

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Identifying crossover locations in an Arabidopsis thaliana HEI10-mRFP1 Col x Ler F2 population using genotyping by sequencing

Project description:Identifying crossover locations in an Arabidopsis thaliana HEI10-mRFP1 Col x Ler F2 population using genotyping by sequencing

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Identifying crossover locations in an Arabidopsis thaliana HEI10-mRFP1 Col x Ler F2 population using genotyping by sequencing

Project description:Identifying crossover locations in an Arabidopsis thaliana HEI10-mRFP1 Col x Ler F2 population using genotyping by sequencing

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Identifying crossover locations in Arabidopsis thaliana recq4a recq4b and HEI10 recq4a recq4b Col x Ler F2 populations using genotyping by sequencing

Project description:Genomic DNA from 192 recq4a recq4b and 192 HEI10 recq4a recq4b Col x Ler F2 individuals was extracted using CTAB and used to generate sequencing libraries as described (Ziolkowski et al, 2017 Genes & Dev). Sequencing data was analysed to identify crossovers as previously reported, using the TIGER pipeline (Rowan et al, 2015 G3 (Bethesda); Yelina et al, 2015 Genes & Dev).

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Identifying crossover locations in Arabidopsis thaliana recq4a recq4b and HEI10 recq4a recq4b Col x Ler F2 populations using genotyping by sequencing

Project description:Identifying crossover locations in Arabidopsis thaliana recq4a recq4b and HEI10 recq4a recq4b Col x Ler F2 populations using genotyping by sequencing

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Identifying crossover locations in Arabidopsis thaliana asy1/+ Col × Ler F2 populations using genotyping-by-sequencing

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Whole-genome resequencing of BC1 populations from Arabidopsis (Col x Ler) x Col crosses (wild type and hei10+/-)

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis hei10+/- compared to wild type. Plants heterozygous for the hei10-2 mutation (Col-0) were crossed as females with Ler as males. Wild-type and hei10+/- plants were selected among the F1s and crossed as female or as male with wild-type Col-0. Leaf samples from the four back-crossed populations were used for DNA purification and library preparation for Illumina sequencing (NextSeq 2000 2×150 base pairs [bp]), performed at the Max Planck-Genome-center (https://mpgc.mpipz.mpg.de/home/).

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