Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

10 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Whole-genome resequencing of F1* populations from Arabidopsis Col

ABSTRACT: This experiment aims at analyzing crossover distribution in female and male meiosis, in the Arabidopsis pure Col. Wild-type Col seeds were subjected to EMS mutagenesis, and four independent M2 plants were crossed to produce two independent F1*, which were heterozygous for a set of EMS mutations. Then, the two F1* plants were reciprocally crossed to generate two F1 populations. Leaf samples from plants from the obtained F1 populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

INSTRUMENT(S): Illumina HiSeq 3000

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Qichao Lian

PROVIDER: E-MTAB-11249 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Whole-genome resequencing of F1 populations from Arabidopsis Col

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis pure Col. Wild-type Col seeds were subjected to EMS mutagenesis, and four independent M2 plants were crossed to produce two independent F1*, which were heterozygous for a set of EMS mutations. Then, the two F1* plants were reciprocally crossed to generate two F1 populations. Leaf samples from plants from the obtained F1 populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

2022-06-14 | E-MTAB-11250 | biostudies-arrayexpress

Whole-genome resequencing of F1* populations from Arabidopsis Ler

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis pure Ler. Wild-type Ler seeds were subjected to EMS mutagenesis, and four independent M2 plants were crossed to produce two independent F1*, which were heterozygous for a set of EMS mutations. Then, the two F1* plants were reciprocally crossed to generate two F1 populations. Leaf samples from plants from the obtained F1 populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

2022-06-14 | E-MTAB-11248 | biostudies-arrayexpress

Whole-genome resequencing of F1 populations from Arabidopsis Ler

2022-06-14 | E-MTAB-11251 | biostudies-arrayexpress

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

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis. Wild-type Col plant was crossed with Ler plant to produce F1 hybrid. Then, the F1 hybrid was crossed as female or as male with wild-type Col to generate two BC1 populations. Leaf samples from plants of the obtained BC1 populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/) and Novogene.

2022-06-14 | E-MTAB-11254 | biostudies-arrayexpress

Whole-genome resequencing of BC1 populations from Arabidopsis (Col x Ler) x Col crosses (wild type and zyp1)

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis zyp1 mutant compared to wild type. Plants heterozygous for the zyp1-1 mutation (Col) were crossed as female with plants heterozygous for the zyp1-6 mutation (Ler). Wild type and zyp1-1/zyp-6 plants were selected among the F1s, and crossed as male or as female with wild-type Col. Leaf samples from plants from the four obtained BC1 populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

2021-02-26 | E-MTAB-9593 | biostudies-arrayexpress

Whole-genome resequencing of BC1 populations from Arabidopsis (Col x Ler) x Col crosses (wild type, HEI10oe, zyp1, and zyp1 HEI10oe)

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis HEI10oe, zyp1, and zyp1 HEI10oe compared to wild type. Plants double heterozygous of zyp1-1+/- HEI10oe (Col) were crossed with zyp1-6+/- mutant plants (Ler) to generate zyp1-1/zyp1-6 HEI10oe heterozygous, HEI10oe heterozygous, zyp1-1/zyp1-6 and wild type in Col/Ler hybrid background, and then crossed as male or as female with wild-type Col. Backcross populations were grown in the greenhouse (16 h day/8 h night) for 3 weeks and 4 days in the dark, 100-150mg leave samples from plants from the 8 obtained BC1 populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

2022-09-08 | E-MTAB-11696 | biostudies-arrayexpress

Whole-genome resequencing of wild-type and apomictic BRS CIRAD-302 rice

Project description:This experiment aims at analyzing genotype profiles of wild-type and apomictic BRS CIRAD-302 rice. Leaf samples from plants of the parental, F1, F2, T0, T1, and T2 were used for DNA purification and library preparation for Illumina sequencing (2x150 bp), performed by the Max Planck-Genome-centre Cologne, Germany (https://mpgc.mpipz.mpg.de/home/).

2022-12-02 | E-MTAB-11931 | biostudies-arrayexpress

Whole-genome resequencing of BC1 populations from Arabidopsis (Col x Ler) x Col crosses (wild type and heip1)

Project description:This experiment aims at analyzing crossover distribution in male and female meiosis, in the Arabidopsis heip1 compared to wild type. Plants heterozygous for the heip1-4 mutation (Col.0) were crossed as females with plants heterozygous for the heip1-5 mutation (Ler). Wild-type and heip1-4/heip1-5 plants were selected among the F1s and crossed as male or as female with wild-type Col.0. Leaf samples from the four back-crossed populations were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2 × 150 base pairs [bp]), performed at the Max Planck-Genome-center (https://mpgc.mpipz.mpg.de/home/).

2023-05-12 | E-MTAB-12838 | biostudies-arrayexpress

Whole-genome resequencing of BC1 populations from Arabidopsis (Col x Ler) x Col crosses (scep1)

Project description:This experiment aims at analyzing crossover distribution in female and male meiosis, in the Arabidopsis scep1 compared to wild type. The heterozygous scep1-1+/- plants were crossed with heterozygous scep1-7+/- plants to produce scep1-1/scep1-7 heteroallelic homozygous mutant. These plants were backcrossed as male or female with wild-type Col to generate the sequencing populations. Leaf samples from the back-crossed population were used for DNA purification and library preparation for Illumina sequencing (HiSeq 3000 2 × 150 base pairs [bp]), performed at the Max Planck-Genome-center (https://mpgc.mpipz.mpg.de/home/).

2023-08-24 | E-MTAB-12985 | biostudies-arrayexpress

MSH1 disruption in plants triggers RdDM-mediated reprogramming of phenotypic plasticity (Bisulfite-Seq II)

Project description:To generate msh1 memory revertant population, msh1 memory plant was used to pollinate Col-0 to generate F1 population. Derived F1 progenies were self-pollinated to generate F2 populations. F2 plants were self-pollinated to produce F3 families that were segregationg for the msh1 memory phenotype (small dwarf plants with delayed flowering).

2022-07-08 | GSE192432 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data