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High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation

Nodule organogenesis in legumes is regulated temporally and spatially through gene networks. Genome-wide transcriptome, proteomic, and metabolomic analyses have been used previously to define the functional role of various plant genes in the nodulation process. However, while significant progress ha...

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Autores principales: Song, Jae Hyo, Montes-Luz, Bruna, Tadra-Sfeir, Michelle Zibetti, Cui, Yaya, Su, Lingtao, Xu, Dong, Stacey, Gary
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9048599/
https://www.ncbi.nlm.nih.gov/pubmed/35498680
http://dx.doi.org/10.3389/fpls.2022.820348
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author Song, Jae Hyo
Montes-Luz, Bruna
Tadra-Sfeir, Michelle Zibetti
Cui, Yaya
Su, Lingtao
Xu, Dong
Stacey, Gary
author_facet Song, Jae Hyo
Montes-Luz, Bruna
Tadra-Sfeir, Michelle Zibetti
Cui, Yaya
Su, Lingtao
Xu, Dong
Stacey, Gary
author_sort Song, Jae Hyo
collection PubMed
description Nodule organogenesis in legumes is regulated temporally and spatially through gene networks. Genome-wide transcriptome, proteomic, and metabolomic analyses have been used previously to define the functional role of various plant genes in the nodulation process. However, while significant progress has been made, most of these studies have suffered from tissue dilution since only a few cells/root regions respond to rhizobial infection, with much of the root non-responsive. To partially overcome this issue, we adopted translating ribosome affinity purification (TRAP) to specifically monitor the response of the root cortex to rhizobial inoculation using a cortex-specific promoter. While previous studies have largely focused on the plant response within the root epidermis (e.g., root hairs) or within developing nodules, much less is known about the early responses within the root cortex, such as in relation to the development of the nodule primordium or growth of the infection thread. We focused on identifying genes specifically regulated during early nodule organogenesis using roots inoculated with Bradyrhizobium japonicum. A number of novel nodulation gene candidates were discovered, as well as soybean orthologs of nodulation genes previously reported in other legumes. The differential cortex expression of several genes was confirmed using a promoter-GUS analysis, and RNAi was used to investigate gene function. Notably, a number of differentially regulated genes involved in phytohormone signaling, including auxin, cytokinin, and gibberellic acid (GA), were also discovered, providing deep insight into phytohormone signaling during early nodule development.
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spelling pubmed-90485992022-04-29 High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation Song, Jae Hyo Montes-Luz, Bruna Tadra-Sfeir, Michelle Zibetti Cui, Yaya Su, Lingtao Xu, Dong Stacey, Gary Front Plant Sci Plant Science Nodule organogenesis in legumes is regulated temporally and spatially through gene networks. Genome-wide transcriptome, proteomic, and metabolomic analyses have been used previously to define the functional role of various plant genes in the nodulation process. However, while significant progress has been made, most of these studies have suffered from tissue dilution since only a few cells/root regions respond to rhizobial infection, with much of the root non-responsive. To partially overcome this issue, we adopted translating ribosome affinity purification (TRAP) to specifically monitor the response of the root cortex to rhizobial inoculation using a cortex-specific promoter. While previous studies have largely focused on the plant response within the root epidermis (e.g., root hairs) or within developing nodules, much less is known about the early responses within the root cortex, such as in relation to the development of the nodule primordium or growth of the infection thread. We focused on identifying genes specifically regulated during early nodule organogenesis using roots inoculated with Bradyrhizobium japonicum. A number of novel nodulation gene candidates were discovered, as well as soybean orthologs of nodulation genes previously reported in other legumes. The differential cortex expression of several genes was confirmed using a promoter-GUS analysis, and RNAi was used to investigate gene function. Notably, a number of differentially regulated genes involved in phytohormone signaling, including auxin, cytokinin, and gibberellic acid (GA), were also discovered, providing deep insight into phytohormone signaling during early nodule development. Frontiers Media S.A. 2022-04-14 /pmc/articles/PMC9048599/ /pubmed/35498680 http://dx.doi.org/10.3389/fpls.2022.820348 Text en Copyright © 2022 Song, Montes-Luz, Tadra-Sfeir, Cui, Su, Xu and Stacey. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Song, Jae Hyo
Montes-Luz, Bruna
Tadra-Sfeir, Michelle Zibetti
Cui, Yaya
Su, Lingtao
Xu, Dong
Stacey, Gary
High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation
title High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation
title_full High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation
title_fullStr High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation
title_full_unstemmed High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation
title_short High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation
title_sort high-resolution translatome analysis reveals cortical cell programs during early soybean nodulation
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9048599/
https://www.ncbi.nlm.nih.gov/pubmed/35498680
http://dx.doi.org/10.3389/fpls.2022.820348
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