Next Article in Journal
PredLnc-GFStack: A Global Sequence Feature Based on a Stacked Ensemble Learning Method for Predicting lncRNAs from Transcripts
Previous Article in Journal
A Pathway-Based Kernel Boosting Method for Sample Classification Using Genomic Data
Open AccessArticle

Twenty-Five Years of Propagation in Suspension Cell Culture Results in Substantial Alterations of the Arabidopsis Thaliana Genome

1
Genetics and Genomics of Plants, Faculty of Biology, Center for Biotechnology (CeBiTec), Bielefeld University, Sequenz 1, 33615 Bielefeld, NRW, Germany
2
Microbial Genomics and Biotechnology, Center for Biotechnology (CeBiTec), Bielefeld University, Sequenz 1, 33615 Bielefeld, NRW, Germany
*
Author to whom correspondence should be addressed.
Genes 2019, 10(9), 671; https://doi.org/10.3390/genes10090671
Received: 26 July 2019 / Revised: 23 August 2019 / Accepted: 29 August 2019 / Published: 2 September 2019
(This article belongs to the Section Plant Genetics and Genomics)
Arabidopsis thaliana is one of the best studied plant model organisms. Besides cultivation in greenhouses, cells of this plant can also be propagated in suspension cell culture. At7 is one such cell line that was established about 25 years ago. Here, we report the sequencing and the analysis of the At7 genome. Large scale duplications and deletions compared to the Columbia-0 (Col-0) reference sequence were detected. The number of deletions exceeds the number of insertions, thus indicating that a haploid genome size reduction is ongoing. Patterns of small sequence variants differ from the ones observed between A. thaliana accessions, e.g., the number of single nucleotide variants matches the number of insertions/deletions. RNA-Seq analysis reveals that disrupted alleles are less frequent in the transcriptome than the native ones. View Full-Text
Keywords: copy number variations; variant calling; next generation sequencing; long read sequencing copy number variations; variant calling; next generation sequencing; long read sequencing
Show Figures

Figure 1

MDPI and ACS Style

Pucker, B.; Rückert, C.; Stracke, R.; Viehöver, P.; Kalinowski, J.; Weisshaar, B. Twenty-Five Years of Propagation in Suspension Cell Culture Results in Substantial Alterations of the Arabidopsis Thaliana Genome. Genes 2019, 10, 671.

Show more citation formats Show less citations formats
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map

1
Back to TopTop