Gene expression profiling reveals transcription factor networks and subgenome bias during Brassica napus seed development

2021 ◽  
Author(s):  
Deirdre Khan ◽  
Dylan J. Ziegler ◽  
Jenna L. Kalichuk ◽  
Vanessa Hoi ◽  
Nina Huynh ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Brassica Napus ◽  
Gene Expression Profiling ◽  
Seed Development ◽  
Expression Profiling ◽  
Transcription Factor Networks

scholarly journals Gene expression profiling reveals subgenome dominance during Brassica napus seed development

2020 ◽  
Author(s):  
Deirdre Khan ◽  
Dylan J. Ziegler ◽  
Jenna L. Kalichuk ◽  
Vanessa Hoi ◽  
Nina Hyunh ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Brassica Napus ◽  
Gene Expression Profiling ◽  
Rna Sequencing ◽  
Seed Development ◽  
Seed Coat ◽  
Expression Profiling ◽  
Early Stage ◽  
Transcriptional Networks

AbstractWe profiled the gene regulatory landscape of Brassica napus reproductive development using RNA sequencing. Comparative analysis of this nascent amphidiploid across the plant lifecycle revealed the contribution of each subgenome to plant reproduction. Global mRNA profiling revealed lower accumulation of Cn subgenome transcripts relative to the An subgenome. Subgenome-specific transcriptional networks identified distinct transcription factor families enriched in each of the An and Cn subgenome early in seed development. Global gene expression profiling of laser-microdissected seed subregions further reveal subgenome expression dynamics in the embryo, endosperm, and seed coat of early stage seeds. Transcription factors predicted to be regulators encoded by the An subgenome are expressed primarily in the seed coat whereas regulators encoded by the Cn subgenome were expressed primarily in the embryo. Data suggest subgenome bias are characteristic features of the B. napus seed throughout development, and that such bias might not be universal across the embryo, endosperm, and seed coat of the developing seed. Whole genome transcription factor networks identified BZIP11 as a transcriptional regulator of early B. napus seed development. Knockdown of BZIP11 using RNA interference resulted in a similar reduction in gene activity of predicted gene targets, and a reproductive-lethal phenotype. Taken together, transcriptional networks spanning both the An and Cn genomes of the B. napus seed can identify valuable targets for seed development research and that-omics level approaches to studying gene regulation in B. napus can benefit from both broad and high-resolution analyses.One Sentence SummaryGlobal RNA sequencing coupled with laser microdissection provides a critical resource to study subgenome bias in whole seeds and specific tissues of polyploid plants.

scholarly journals Induction of antioxidant and detoxification response by oxidants in cardiomyocytes: Evidence from gene expression profiling and activation of Nrf2 transcription factor

2007 ◽  
Vol 42 (1) ◽  
pp. 159-176 ◽  
Author(s):  
Sally E. Purdom-Dickinson ◽  
Yan Lin ◽  
Matt Dedek ◽  
Steve Morrissy ◽  
Jeffery Johnson ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Gene Expression Profiling ◽  
Expression Profiling ◽  
Nrf2 Transcription Factor

Gene expression profiling in polycythaemia vera: overexpression of transcription factor NF-E2

2005 ◽  
Vol 129 (1) ◽  
pp. 138-150 ◽  
Author(s):  
Philipp S. Goerttler ◽  
Clemens Kreutz ◽  
Johannes Donauer ◽  
Daniel Faller ◽  
Thomas Maiwald ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Gene Expression Profiling ◽  
Expression Profiling ◽  
Polycythaemia Vera

scholarly journals Direct targets of the TRP63 transcription factor revealed by a combination of gene expression profiling and reverse engineering

2008 ◽  
Vol 18 (6) ◽  
pp. 939-948 ◽  
Author(s):  
G. Della Gatta ◽  
M. Bansal ◽  
A. Ambesi-Impiombato ◽  
D. Antonini ◽  
C. Missero ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Reverse Engineering ◽  
Gene Expression Profiling ◽  
Expression Profiling

scholarly journals Gene Expression Profiling Identifies Microphthalmia-Associated Transcription Factor (MITF) and Dickkopf-1 (DKK1) as Regulators of Microenvironment-Driven Alterations in Melanoma Phenotype

PLoS ONE ◽  
2014 ◽  
Vol 9 (4) ◽  
pp. e95157 ◽  
Author(s):  
Mariusz L. Hartman ◽  
Beata Talar ◽  
Muhammad Zaeem Noman ◽  
Anna Gajos-Michniewicz ◽  
Salem Chouaib ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Gene Expression Profiling ◽  
Expression Profiling ◽  
Dickkopf 1

Gene expression profiling of developing Brassica napus seed in relation to changes in major storage compounds

Plant Science ◽  
2010 ◽  
Vol 178 (4) ◽  
pp. 381-389 ◽  
Author(s):  
Bianyun Yu ◽  
Margaret Gruber ◽  
George G. Khachatourians ◽  
Dwayne D. Hegedus ◽  
Abdelali Hannoufa
Keyword(s):  
Gene Expression ◽  
Brassica Napus ◽  
Gene Expression Profiling ◽  
Expression Profiling ◽  
Storage Compounds

Gene expression profiling for seed protein and oil synthesis during early seed development in soybean

2015 ◽  
Vol 37 (4) ◽  
pp. 409-418 ◽  
Author(s):  
Young Eun Jang ◽  
Moon Young Kim ◽  
Sangrea Shim ◽  
Jayern Lee ◽  
Suk-Ha Lee
Keyword(s):  
Gene Expression ◽  
Gene Expression Profiling ◽  
Seed Development ◽  
Expression Profiling ◽  
Seed Protein ◽  
Oil Synthesis ◽  
Early Seed Development

scholarly journals Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines

2016 ◽  
Vol 6 (1) ◽  
Author(s):  
Kohei Yamamizu ◽  
Alexei A. Sharov ◽  
Yulan Piao ◽  
Misa Amano ◽  
Hong Yu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Stem Cell ◽  
Embryonic Stem Cell ◽  
Gene Expression Profiling ◽  
Cell Lines ◽  
Expression Profiling ◽  
Embryonic Stem ◽  
Mouse Embryonic Stem Cell ◽  
Stem Cell Lines

Transcription factor gene expression profiling after acute intermittent nicotine treatment in the rat cerebral cortex

Neuroscience ◽  
2005 ◽  
Vol 133 (3) ◽  
pp. 787-796 ◽  
Author(s):  
N. Belluardo ◽  
P.A. Olsson ◽  
G. Mudo’ ◽  
W.H. Sommer ◽  
G. Amato ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Cerebral Cortex ◽  
Gene Expression Profiling ◽  
Expression Profiling ◽  
Rat Cerebral Cortex ◽  
Transcription Factor Gene ◽  
Nicotine Treatment ◽  
Factor Gene
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