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| Status |
Public on May 01, 2023 |
| Title |
Molecular changes in the maize roots transcriptome due to soil microbes |
| Organism |
Zea mays |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
The association between soil microbes and plant roots is present in all natural and agricultural environments. Microbes can be beneficial, pathogenic, or neutral to the host plant development and adaptation to abiotic or biotic stresses. Progress in investigating the functions and changes in microbial communities in diverse environments have been rapidly developing in recent years, but the changes in root function is still largely understudied. The aim of this study was to determine how soil bacteria influence maize root transcription and microRNAs (miRNAs) populations in a controlled inoculation of known microbes over a defined time course. At each time point after inoculation of the maize inbred line B73 with ten bacterial isolates, DNA and RNA were isolated from roots. The V4 region of the 16S rRNA gene was amplified from the DNA and sequenced with the Illumina MiSeq platform. Amplicon sequencing of the 16S rRNA gene indicated that most of the microbes successfully colonized maize roots. The colonization was dynamic over time and varied with the specific bacterial isolate. Small RNA sequencing and mRNA-Seq was done to capture changes in the root transcriptome from 0.5 to 480 hours after inoculation. The transcriptome and small RNA analyses revealed epigenetic and transcriptional changes in roots due to the microbial inoculation. This research provides the foundational data needed to understand how plant roots interact with bacterial partners and will be used to develop predictive models for root response to bacteria.
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| Overall design |
gene expression profiling analysis of the maize inbred line B73 with ten bacterial isolates at 1o time point after inoculation.
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| Contributor(s) |
Zhang C, Hao J, Yu B, Schachtman D |
| Citation missing |
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| Submission date |
Oct 03, 2022 |
| Last update date |
May 03, 2023 |
| Contact name |
Chi Zhang |
| E-mail(s) |
czhang5@unl.edu
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| Organization name |
University of Nebraska - Lincoln
|
| Street address |
1901 Vine Street
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| City |
Lincoln |
| State/province |
NE |
| ZIP/Postal code |
68588 |
| Country |
USA |
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| Platforms (1) |
| GPL20156 |
Illumina NextSeq 500 (Zea mays) |
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| Samples (69)
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| Relations |
| BioProject |
PRJNA886632 |
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