Transcriptional Aneuploidy Responses of Brassica rapa -oleracea Monosomic Alien Addition Lines (MAALs) Derived From Natural Allopolyploid B. napus

Frontiers in Genetics
Zhu BinLi Zaiyun

Abstract

Establishing the whole set of aneuploids, for one naturally evolved allopolyploid species, provides a unique opportunity to elucidate the transcriptomic response of the constituent subgenomes to serial aneuploidy. Previously, the whole set of monosomic alien addition lines (MAALs, C1-C9) with each of the nine C subgenome chromosomes, added to the extracted A subgenome, was developed in the context of the allotetraploid Brassica napus donor "Oro," after the restitution of the ancestral B. rapa (RBR Oro) was realized. Herein, transcriptomic analysis using high-throughput technology was conducted to detect gene expression alterations in these MAALs and RBR. Compared to diploid RBR, the genes of all of the MAALs showed various degrees of dysregulated expressions that resulted from cis effects and more prevailing trans effects. In addition, the trans-effect on gene expression in MAALs increased with higher levels of homology between the recipient A subgenome and additional C subgenome chromosomes, instead of gene numbers of extra chromosomes. A total of 10 trans-effect dysregulated genes, among all pairwise comparisons, were mainly involved in the function of transporter activity. Furthermore, highly expressed genes were more prone ...Continue Reading

References

Apr 25, 2003·Trends in Genetics : TIG·Marjori A MatzkeAntonius J M Matzke
Oct 29, 2004·Nature Reviews. Genetics·Stylianos E AntonarakisSamuel Deutsch
Sep 12, 2006·BMC Genomics·Fiona M McCarthyShane C Burgess
Sep 26, 2006·The Plant Journal : for Cell and Molecular Biology·Isabelle M HenryLuca Comai
Feb 13, 2007·The Plant Cell·James A Birchler, Reiner A Veitia
May 23, 2007·Proceedings of the National Academy of Sciences of the United States of America·ChongFeng GaoGeorge F Vande Woude
Jun 19, 2008·Genetics·Eduardo M TorresAngelika Amon
Feb 13, 2010·The New Phytologist·E SzadkowskiA-M Chèvre
Sep 2, 2010·Genome Biology·Matthias PrestelPeter B Becker
Sep 30, 2010·Genetics·Isabelle M HenryLuca Comai
Oct 26, 2010·Journal of the American Academy of Child and Adolescent Psychiatry·Eric M Morrow
Apr 23, 2011·Proceedings of the National Academy of Sciences of the United States of America·Zhiyong XiongJ Chris Pires
Aug 30, 2011·Trends in Genetics : TIG·Jason M Sheltzer, Angelika Amon
Jan 10, 2012·Proceedings of the National Academy of Sciences of the United States of America·Michael ChesterDouglas E Soltis
Jan 25, 2012·Nature Reviews. Genetics·David J GordonDavid Pellman
Jul 18, 2012·Proceedings of the National Academy of Sciences of the United States of America·Jason M SheltzerAngelika Amon
Jul 19, 2012·Annual Review of Cell and Developmental Biology·Jake J Siegel, Angelika Amon
Sep 13, 2012·Molecular Systems Biology·Silvia StingeleZuzana Storchova
Dec 12, 2012·Nature Biotechnology·Cole TrapnellLior Pachter
Feb 13, 2013·Proceedings of the National Academy of Sciences of the United States of America·Huakun ZhangBao Liu
Jul 1, 1995·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Z LiP Luo
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
Apr 18, 2014·Nature·Benjamin D Pope, David M Gilbert
Apr 18, 2014·Nature·Audrey LetourneauStylianos E Antonarakis
Jul 19, 2014·Science·UNKNOWN International Wheat Genome Sequencing Consortium (IWGSC)
Mar 10, 2015·Nature Methods·Daehwan KimSteven L Salzberg

❮ Previous
Next ❯

Datasets Mentioned

BETA
GSE111510

Methods Mentioned

BETA
RNA-Seq
PCR

Software Mentioned

AgBase
R
HISAT
Cufflinks
MAALs
FastQC
Adobe Illustrator
RBR Oro
AgBase GoAnna website
Trimmomatic

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.