A systems biology approach identifies new regulators of poplar root development under low nitrogen
Abstract
Summary In Populus , low nitrogen ( LN ) elicits rapid and vigorous lateral root ( LR ) proliferation, which is closely mirrored by corresponding transcriptomic changes. Using transcriptomic data, we built a genetic network encompassing a large proportion of the differentially regulated transcriptome. The network is organized in a hierarchical fashion, centered on 11 genes. Transgenic manipulations of only three of the 11 genes had a strong impact on root development under LN . These three genes encoded an F‐box protein similar to Hawaiian Skirt ( Pta HWS ) and two transcription factors ( Pta RAP 2.11 and Pta NAC 1 ). Up‐ and downregulation of the three genes caused increased and decreased root proliferation under LN conditions, respectively. The transgenic manipulations had a strong positive effect on growth under greenhouse conditions including increased shoot and root biomass. The three genes appeared to encompass a putative yet‐unknown mechanism that underlies root development under LN . Specifically, the genes are predominantly expressed in roots and have a similar temporal response to LN . More importantly, transgenic manipulation for each of the three genes had a highly significant impact on the expression of the other two. The transgenic manipulations appear tomore »
- Authors:
-
- Forest Resources and Environmental Science Michigan Technological University Houghton MI 49931 USA
- Department of Biological Sciences Eastern Illinois University Charleston IL 61920 USA
- Publication Date:
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1401156
- Resource Type:
- Publisher's Accepted Manuscript
- Journal Name:
- The Plant Journal
- Additional Journal Information:
- Journal Name: The Plant Journal Journal Volume: 84 Journal Issue: 2; Journal ID: ISSN 0960-7412
- Publisher:
- Wiley-Blackwell
- Country of Publication:
- United Kingdom
- Language:
- English
Citation Formats
Dash, Madhumita, Yordanov, Yordan S., Georgieva, Tatyana, Kumari, Sapna, Wei, Hairong, and Busov, Victor. A systems biology approach identifies new regulators of poplar root development under low nitrogen. United Kingdom: N. p., 2015.
Web. doi:10.1111/tpj.13002.
Dash, Madhumita, Yordanov, Yordan S., Georgieva, Tatyana, Kumari, Sapna, Wei, Hairong, & Busov, Victor. A systems biology approach identifies new regulators of poplar root development under low nitrogen. United Kingdom. https://doi.org/10.1111/tpj.13002
Dash, Madhumita, Yordanov, Yordan S., Georgieva, Tatyana, Kumari, Sapna, Wei, Hairong, and Busov, Victor. Thu .
"A systems biology approach identifies new regulators of poplar root development under low nitrogen". United Kingdom. https://doi.org/10.1111/tpj.13002.
@article{osti_1401156,
title = {A systems biology approach identifies new regulators of poplar root development under low nitrogen},
author = {Dash, Madhumita and Yordanov, Yordan S. and Georgieva, Tatyana and Kumari, Sapna and Wei, Hairong and Busov, Victor},
abstractNote = {Summary In Populus , low nitrogen ( LN ) elicits rapid and vigorous lateral root ( LR ) proliferation, which is closely mirrored by corresponding transcriptomic changes. Using transcriptomic data, we built a genetic network encompassing a large proportion of the differentially regulated transcriptome. The network is organized in a hierarchical fashion, centered on 11 genes. Transgenic manipulations of only three of the 11 genes had a strong impact on root development under LN . These three genes encoded an F‐box protein similar to Hawaiian Skirt ( Pta HWS ) and two transcription factors ( Pta RAP 2.11 and Pta NAC 1 ). Up‐ and downregulation of the three genes caused increased and decreased root proliferation under LN conditions, respectively. The transgenic manipulations had a strong positive effect on growth under greenhouse conditions including increased shoot and root biomass. The three genes appeared to encompass a putative yet‐unknown mechanism that underlies root development under LN . Specifically, the genes are predominantly expressed in roots and have a similar temporal response to LN . More importantly, transgenic manipulation for each of the three genes had a highly significant impact on the expression of the other two. The transgenic manipulations appear to also affect the expression of the regulatory mi RNA ( Ptami RNA 164e ) of one of the transcription factors ( Pta NAC 1 ), albeit in an opposite fashion. Consistent with a putative function of Pta HWS in proteasome degradation, treatment with proteasome inhibitor reversed the expression changes in the transgenic plants. The insights from this study will allow genetic modifications of root architecture for more efficient and dynamic nitrogen foraging in biofuel crops like poplar.},
doi = {10.1111/tpj.13002},
journal = {The Plant Journal},
number = 2,
volume = 84,
place = {United Kingdom},
year = {Thu Oct 08 00:00:00 EDT 2015},
month = {Thu Oct 08 00:00:00 EDT 2015}
}
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