Progress 07/01/23 to 06/30/24
Outputs Target Audience:Our target audience is the scientific community mainly reached through peer-reviewed publications. Changes/Problems:We lost two summers of data for Aim 2 because of the very dry conditions. This year already appears wetting in Nebraska and if it is too dry we will use irrigation to complete experiments for Aims 2 and 3. What opportunities for training and professional development has the project provided?Training of a new postdoc occurred in 2023 as well as on undergraduate student. How have the results been disseminated to communities of interest?Via peer reviewed publications listed previously. What do you plan to do during the next reporting period to accomplish the goals?In 2024 we are committed to finishing the work of Aim 2by doing another field experiment using irrigation as necessary and obtaining data on leaching. Wewill also extend this to capture data for Aim 3 using quantitative PCR to monitor amoA genes, sample soils to measure nitrification potential, and study microbial community structure.
Impacts What was accomplished under these goals?
Aim 1:Completed Aim 2: Determine whether sorgoleone alters the rate of nitrogen leaching in soil. During the summer of 2021 we developed and tested a system to measure leaching of nitrate in large field plots using an anion exchange resin. We buried mesh bags containing resin to a depth of 0.5 meters in the early summer. A subset of bags was extracted from the soil in Sept of 2021 and remained in April 2022. Three genotypes were tested one with high sorgoleone, one with low sorgoleone, and one with high resorcinol which is a lipid related to sorgoleone. Preliminary results suggest that the plots in which sorghum lines were planted with higher levels of sorgoleone in root exudates did show less nitrate leaching. A more comprehensive experiment was planted in June of 2022 to repeat with greater replication of the experiment planted in 2021, but this experiment failed because of the extremely dry conditions. The summer of 2023 was also very dry so an experiment was not attempted. Therefore in 2024 we are committed to finishing this work by using irrigation as necessary and obtaining data on leaching and will also extend this to capture data for Aim 3 using standard quantitative PCR to monitor amoA genes, sample soils to measure nitrification potential, and study microbial community structure. Aim 3: Directly test the effect of sorgoleone on field soil to determine how sorgoleone alters the microbial community composition, nitrification potential and ammonia monooxygenase (amoA) gene abundance. This will be done this summer in our field experiment in 2024. Aim 4: Completed
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2023
Citation:
Hao, J., Y. Yang, S. Futrell, E. Kelly, C. Lorts, B. Nebie, S. Runo, J. Yang , S. Alvarez, J. Lasky and D. Schachtman (2023). "CRISPR/Cas9-mediated mutagenesis of carotenoid cleavage dioxygenase (CCD) genes in sorghum alters strigolactone biosynthesis and plant biotic interactions." Phytobiomes 7:339 - 351.
- Type:
Journal Articles
Status:
Published
Year Published:
2021
Citation:
Hao, J. J., Y. N. Chai, L. D. Lopes, R. A. Ordonez, E. E. Wright, S. Archontoulis and D. P. Schachtman (2021). "The Effects of Soil Depth on the Structure of Microbial Communities in Agricultural Soils in Iowa (United States)." Applied and Environmental Microbiology 87(4): e02673-02620.
- Type:
Journal Articles
Status:
Published
Year Published:
2023
Citation:
Lopes, L., S. Futrell, E. Wright, G. Danalatos, M. Castellano, T. Vyn, S. Archontoulis and D. Schachtman (2023). "Soil depth and geographic distance modulate bacterial ??diversity in deep soil profiles throughout the US Corn Belt." Molecular Ecology 32:37183732.
- Type:
Journal Articles
Status:
Published
Year Published:
2024
Citation:
Chai, Y. N., Y. Qi, E. Goren, D. Chiniquy, A. M. Sheflin, S. G. Tringe, J. E. Prenni, P. Liu and D. P. Schachtman (2024). "Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum." mSystems 9(1): e0119023.
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Progress 07/01/22 to 06/30/23
Outputs Target Audience:The target audiencereached by our efforts has mainly been the plant and soil science scientific communities. Dissemination of information has mainly been done through the publication of journal articles. Changes/Problems:The postdoc working on part of the project left to return to his home country in Brazil. Hiring a new postdoc has slowed down some of the work. A new postdoc has been hired and they are now waiting for their visa to work in the USA. What opportunities for training and professional development has the project provided?A postdoc was trained, as well as a technician and several undergraduate. The technician was trained to do field work and basic lab work including DNA extraction, DNA quantification and 16S library construction. The postdoc was trainedto do field work and basic lab work including DNA extraction, DNA quantification, 16S library construction and also the analysis of 16S data. The postdoc also received training in the analysis of 16S data and manuscript writing. How have the results been disseminated to communities of interest?Six refereed manuscript have been or are in the process of being published. What do you plan to do during the next reporting period to accomplish the goals?Complete the data analysis and work being done for aim 2 and initiate and complete the work described in aim 3.
Impacts What was accomplished under these goals?
Aim 1 - This work has been completed and a paper published. Aim 2 - This aim is still ongoing with one season of preliminary data and data from the 2022 season being processed. Resin bags that were left in the field over winter and were excavated several weeks ago. Aim 3 - We are working on the experimental design and will complete this experiment upon arrivalof new postdoc. Aim 4 - This work has now been completed, paper was submitted and we are currently waiting for the publication to appear.
Publications
- Type:
Journal Articles
Status:
Accepted
Year Published:
2023
Citation:
Hao, J., Y. Ying Yang, S. Futrell, E. A. Kelly, C. M. Lorts, B. Nebie, S. Steven Runo, J. Jinliang Yang, S. Sophie Alvarez, J. R. Jesse R. Lasky and D. P. Schachtman (2023). "CRISPR/Cas9-mediated mutagenesis of carotenoid cleavage dioxygenase (CCD) genes in sorghum alters strigolactone biosynthesis and plant biotic interactions " Phytobiomes Journal in press.
- Type:
Journal Articles
Status:
Accepted
Year Published:
2023
Citation:
Lopes, L., S. Futrell, E. Wright, G. Danalatos, M. Castellano, T. Vyn, S. Archontoulis and D. Schachtman (2023). "Soil depth and geographic distance modulate bacterial ??diversity in deep soil profiles throughout the US Corn Belt." Molecular Ecology In press.
- Type:
Journal Articles
Status:
Published
Year Published:
2023
Citation:
Lopes, L. D. and D. P. Schachtman (2023). "Rhizosphere and bulk soil bacterial community succession is influenced more by changes in soil properties than in rhizosphere metabolites across a maize growing season " Applied Soil Ecology 189: 104960.
- Type:
Journal Articles
Status:
Published
Year Published:
2023
Citation:
Lopes, L. D., S. Futrell and D. P. Schachtman (2023). "Root exudate concentrations of indole-3-acetic acid (IAA) and abscisic acid (ABA) affect maize rhizobacterial communities at specific developmental stages " FEMS Microbiology Ecology 99: 1-12.
- Type:
Journal Articles
Status:
Published
Year Published:
2022
Citation:
Lopes, L., P. Wang, S. Futrell and D. Schachtman (2022). "Sugars and jasmonic acid concentration in root exudates effect maize rhizosphere bacterial communities." Applied and Environmental Microbiology e00971-22.
- Type:
Journal Articles
Status:
Published
Year Published:
2022
Citation:
Chai, Y. N. and D. P. Schachtman (2022). "Root exudates impact plant performance under abiotic stress." Trends in Plant Science 27(1): 80-91.
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Progress 07/01/21 to 06/30/22
Outputs Target Audience:In this past granting period the target audience was readers of the journal of mSystems (IF=6.5) and Trends in Plant Science (IF=12.5). Citations so far have been from Spain, Scotland, the Netherlands and other countries for the mSystems paper. There have been 241 readers of the manuscript according to Researchgate and 5 citations so far according to Google Scholar. The Trends in Plant Science review we wrote that was published in 2022 has been cited by 12 other manuscripts according to Google Scholar written by scientists in Australia, China and the UK. This review has been read by 202 scientists according to ResearchGate. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?A postdoc, undergraduates and a technician have worked on the project over the years and gained experience in microbial ecology, field approaches to studying nitrification, soil microbes and agronomic parameters. How have the results been disseminated to communities of interest?Mainly through publications in refereed journals. What do you plan to do during the next reporting period to accomplish the goals?Continue working on aim 2 and aim 3 and get the work from aim 4 published.
Impacts What was accomplished under these goals?
Aim 1: Determine the dynamics across two seasons of sorgoleone exudation and how that alters nitrification rates and nitrifying bacteria and archaea in the rhizosphere and in the soil outside of the rhizosphere. This work has beencompleted and the manuscript was published in 2021. The research showed that sorgoleone under field conditions had the strongest impacts on rhizophere soil inhibition of nitrification at specific developmental times during sorghum development. We also found that the soil outside of the rhizosphere did not experience the same type of inhibition of nitrification due to sorgoleone leading to the hypothesis that sorgoleone may not have a significant overall effecton inhibiting nitrification under field conditions. Aim 2:Determine whether sorgoleone alters the rate of nitrogen leaching in soil. During the summer of 2021 we developed and tested a system to measure leaching of nitrate in large field plots using an anion exchange resin. We buried mesh bags containing resin to a depth of 0.5 meters in the early summer. A subset of bags was extracted from the soil in Sept of 2021 and the remained in April 2022. Three genotypes were tested one with high sorgoleone, one with low sorgoleone and one with high resorcinol which is a lipid related to sorgoleone.Preliminary results suggest that the plots in which sorghum lines were planted with higher levels of sorgoleone in root exudatesdid show less nitrate leaching. The bags extracted in April 2022 are currently being analyzed for nitrate levels. A more comprehensive experiment was planted in June of 2022 to repeat with greater replication the experiment planted in 2021. Aim 3:Directly test the effect of sorgoleone on field soil microcosms to determine how sorgoleone alters the microbial community composition, nitrification potential and ammonia monooxygenase (amoA) gene abundance. Nothing to report at this time. Aim 4:Characterize transgenic plants for changes in strigolactone exudation and test how exudation of strigolactone from sorghum roots alters bacterial, archaeal, and fungal communities in the endosphere, rhizosphere and soil, and determine how these lines perform and acquire nitrogen in the field. Field experiments have been conducted on three transgenic lines of sorghum in which three CCD8 genes have been inactived using CRISPR editing.Knockout of the CCD8 genes altered the production of strigolactones, and knockout of CCD8b reduced grain yield and altered the root architecture and sorghum susceptibility to Striga. In addition, changes in root exudation of orobanchol due to the knockout of the CCD8b geneimpactedthe rhizosphere bacterial diversity and community composition. The fungal taxa that were differentially enriched due to changes in the exudation of orobanchol also highlight the role of this plant hormone on plant-microbe interactions. Our findings also shed light on a potentially sustainable and effective approach for parasitic weed management identified in this study. We found that the resistance of one strain of Striga was due to the exudation of orobanchol. This unique experiment was done in collaboration with colleagues at the Penn State University. It highlights that the manipulation of strigolactone production may be a pathway to modifying the resistance of crops to the parasitic plants but because of the plietrophic effects additional work will be required to fine tune this strategy.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2022
Citation:
Chai, YN, Schachtman, DP (2022) Root exudates impact plant performance under abiotic stress. Trends in Plant Science 27:80-91. https://doi.org/10.1016/j.tplants.2021.08.003
- Type:
Journal Articles
Status:
Submitted
Year Published:
2022
Citation:
CRISPR/Cas9-mediated mutagenesis of carotenoid cleavage dioxygenase (CCD) genes affects strigolactone biosynthesis and plant biotic interactions in sorghum
Jingjie Hao, Ying Yang, Elizabeth Kelly, Claire M. Lorts, Baloua Nebie, Steven Runo, Jesse R. Lasky, Sophie Alvarez, Stephanie Futrell, Daniel P. Schachtman 2022 New Phytologist
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Progress 07/01/20 to 06/30/21
Outputs Target Audience:Target audience is other scientists and the general public who consider nitrate in ground water important. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?One postdoc and 1 technician has been trained. Dr. Schachtman has gained new knowledge about strigolactone and its impacts of the rhizosphere. New methods have been developed for the analysis of sorgoleone using a mass spectrometer. How have the results been disseminated to communities of interest?One publication so far. What do you plan to do during the next reporting period to accomplish the goals?Continue with Aims 2 in the field next summer and excavate resin bags in current field over the next six months. Continue with Aim 4 and get information on fungal populations followed by a publication.
Impacts What was accomplished under these goals?
Aim 1 -Determine the dynamics across two seasons of sorgoleone exudation and how that alters nitrification rates and nitrifying bacteria and archaea in the rhizosphere and in the soil outside of the rhizosphere. This aimwas completed and the work has been published. Aim 2 -Determine whether sorgoleone alters the rate of nitrogen leaching in soil. Sorghum varieties were tested to find one that had high and low rates of sorgoleone exudation. These varieties were planted in 2021 and three levels of nitrogen were applied. Three bags containing anion exchange resin were buried in each plot. One bag was excavated and will be analyzed for nitrate in Sept 2021. Aim 3 -Directly test the effect of sorgoleone on field soil microcosms to determine how sorgoleone alters the microbial community composition, nitrification potential and ammonia monooxygenase (amoA) gene abundance. no progess Aim 4 -Characterize transgenic plants for changes in strigolactone exudation and test how exudation of strigolactone from sorghum roots alters bacterial, archaeal, and fungal communities in the endosphere, rhizosphere and soil, and determine how these lines perform and acquire nitrogen in the field. The field work has been completed and data analyzed. Work continues in the lab analyzing data and studying the transgenic plant phenotypes.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2021
Citation:
Wang, P., Chai, Y.N., Roston, R., Dayan, F.E., Schachtman, D.P. (2021) The Sorghum bicolor root exudate sorgoleone shapes bacterial communities and delays network formation, mSystems 6: 10.1128/mSystems.00749-20
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