Progress 01/01/18 to 12/31/22
Outputs
Target Audience:A poster describing the genetic basis of plat architecture in soybean was presented in the Plant Science Networking on campus, which involves more than 100 participants from industry, Purdue Agriculture faculty, staff, and students. Changes/Problems:This is the 2nd NCE year of the whole project, and we have achieved the overall goals of the project. We have even identified an additional gene (Dt4) that underliessoybean stem growth habit and validated its function through genetic transformation - acomponent was not expected to be achieved, On the other hand, the candidate genes for dt3 still require validationby stacking more than one candidate genein a single plant. This complexity was not anticipated and need future efforts to address. What opportunities for training and professional development has the project provided? A postdoc partially supported by this project has gained additional mentoring on manuscript and grant writing and are prepared for future independent career. How have the results been disseminated to communities of interest? We has presented poster in the Plant Plant Science Networking poster session and developped an additional manuscript. In addition, the PD delivered 4 seminars in academic institutions and seed companies. What do you plan to do during the next reporting period to accomplish the goals?
Nothing Reported
Impacts
What was accomplished under these goals?
Overall, this project has enhanced our understanding of genetic basis modulating soybean stem growth habit and allelic distribution in the natural population and elite cultivars. Through the project, we have been able to determine the casual mutations for changes of stem growth habit, to address fundamental questions regarding why plant growth habit is associated with plants' responses to drought stress, to identify an additional novel gene (Dt4) and the causal mutation within it for phenotypic changes, and to develop strategies for enhancement of plant tolerance to drought. We have also developed near-isogenic lines in elite variety backgrounds and tested the effect growth habit on soybean productivity and yield, providing scientific guidance for soybean production in different eco-regions.
Publications
- Type:
Journal Articles
Status:
Accepted
Year Published:
2023
Citation:
Clark, B.C., and Ma, J 2023. Genetic bases of shoot architecture in soybean. Molecular Breeding, accepted.
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Progress 01/01/21 to 12/31/21
Outputs
Target Audience:A poster describing some results from this project was presented at Plant Science Networking held on Purdue campus. Changes/Problems:The Dt3 candidate gene remains to be functionally validated. What opportunities for training and professional development has the project provided?The PD has advised the postdoctoral associate on paper writing, and mentered an undergraduate worker who has applied graduate school at Purdue. How have the results been disseminated to communities of interest?We has showed our research progress through a poster in the annual ASA/CSSA virtual conference and through two publications. What do you plan to do during the next reporting period to accomplish the goals?We will continue functional validation of the Dt3 candidate gene, and test the field performance of the near isogenic lines developped through this project.
Impacts
What was accomplished under these goals?
Objective 1) identification of causative mutation and molecular mechanism triggering the Dt2 function: Progress: Completed. Objective 2) cloning and functional characterization of the Dt3/dt3 locus: Progress: the gene-editing line for the Dt3 candidate gene didn't show expected phenotypes, so we have been testing two adjacent genes as new candidate of the Dt3 locus. Objective 3) characterization of Dt2- and dt3-mediated molecular responses to water stress: Progress: We are still validating the dt3 candidacy and thus haven't started with this objective yet. Objective 4) analysis of natural variation in the Dt3/dt3 region: Progress: Completed. Objective 5) development of Dt1/dt1, Dt2/dt2, and Dt3/dt3 near isogenic lines (NILs). Progress: Completed.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2021
Citation:
Clark, C.B., Wang, W., Wang, Y., Fear, G.J., Wen, Z., Wang, D., Ren, B. and Ma, J., 2021. Identification and molecular mapping of a major quantitative trait locus underlying branch angle in soybean. Theor. Appl. Genet. https://doi.org/10.1007/s00122-021-03995-9
- Type:
Journal Articles
Status:
Published
Year Published:
2021
Citation:
Wang, W., Chen, L., Wang, X., Duan, J., Flynn, R.D., Wang, Y., Clark, C.B., Sun, L., Zhang, D., Wang, D.R. and Kessler, S.A., and Ma, J.* 2021. A transposon?mediated reciprocal translocation promotes environmental adaptation but compromises domesticability of wild soybeans. New Phytologist. https://doi.org/10.1111/nph.17671.
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Progress 01/01/20 to 12/31/20
Outputs
Target Audience:Due to the pandemic, the audiance were reached mainly through conferences and publications.We presented a poster in the annual /ASACSSA conference, and submitted a paper that has been published. Changes/Problems:Due to the pandemic that only allowed essential work to be conducted, development of experimental lines through backcrossing were delayed . As a result, we may need an extension to fully accomplishobjective 5. What opportunities for training and professional development has the project provided?The PD has advised the postdoctoral associate on grant and paperwriting. How have the results been disseminated to communities of interest?Limited efforts have been made due to the pandemic, but we has showed our research progress through a poster in the annual ASA/CSSA virtual conference and a publication; andthe published work has been disseminated through social media such as Twitter. What do you plan to do during the next reporting period to accomplish the goals?We will continue the efforts as proposed in the project, with the focus on functional and phenotypic characterization of experimental lines generated from the project and development of isogenic lines.
Impacts
What was accomplished under these goals?
Objective 1) identification of causative mutation and molecular mechanism triggering the Dt2 function: Progress: We have confirmed that one of the threemutation sites in the first intron was responsible for the gain-of-function of the Dt2 allele, and this mutation is likely a n intronic enhancer for promoteing shoot apic al meristem (SAM)-specific, developmental stage-specificexpression. Objective 2) cloning and functional characterization of the Dt3/dt3 locus: Progress: We have obtained the dt3 mutants have been created through CRISPR-Cas9 gene editing. T2seeds have been harvested in the greenhouse, and the homozygous T2 seeds are ready for planting in the field for more accurate phenotyping. Objective 3) characterization of Dt2- and dt3-mediated molecular responses to water stress: Progress: We are still validating the dt3 candidacy and thus haven't started with thisobjectiveyet. Objective 4) analysis of natural variation in the Dt3/dt3 region: Progress: This objective has been accomplishjed as describbed in the last annual report. Objective 5) development of Dt1/dt1, Dt2/dt2, and Dt3/dt3 near isogenic lines (NILs). Progress: Crosses of the donor lines or advanced lines containing one form of the Dt2, dt3, were further backcrossed with Williams 82 to generate BC3progeny lines, these lines are ready for planting in the field.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2021
Citation:
Li, S., Wang, X., Xu, W., Liu, T., Cai, C., Chen, L., Clark, C.B. and Ma, J., 2021. Unidirectional movement of small RNAs from shoots to roots in interspecific heterografts. Nature Plants, 7(1), pp.50-59.
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Progress 01/01/19 to 12/31/19
Outputs
Target Audience:The PI participated in the Plant Biology 2019 in San Jose, CA and the 2019 International Plant & Genome Conference. Over 3,000 scientisists and students attended these meetings. The PI also gave a presentation at Rutgers University. Changes/Problems:Due to the servere weather in the planting season in 2019, some experimental lines were not germinated well in the field condition, as a result, some crosses need to be redone to enhance seed numbers. What opportunities for training and professional development has the project provided?The postdoctoral associate attended the Annual Plant & Animal Genome Conference in San Diego, CA, 2019, and presented the work in Purdue Plant Science Social Networking. The postdoctorial associate also participated in networking activities with several departmental seminar speakers. In addition, the PD has advised the postdoctoral associate on grant and paper writing. How have the results been disseminated to communities of interest?The PD presented some research data from this project in the Annual PAG cpnference and Soy 2019 conference. Some of the data have been published in peer-reviewed journals. What do you plan to do during the next reporting period to accomplish the goals?Contine the efforts asproposed in the project.
Impacts
What was accomplished under these goals?
Objective 1) identification of causative mutation and molecular mechanism triggering the Dt2 function: Progress: The causal mutations have been identified and are under functional validation. A DNA fragment containing 3 mutation sites that can complete distinguish Dt2 from dt2 was used to screen a cDNA library via Y1H assay, but no positive results have been obtained yet. Objective 2) cloning and functional characterization of the Dt3/dt3 locus: Progress: Dt3 candidate gene have been identified through ultra-fine mapping. The dt3 mutants have been created through CRISPR-Cas9 gene editing. T1 seeds are being planted in the greenhouse to generate homozygous dt3 lines. Objective 3) characterization of Dt2- and dt3-mediated molecular responses to water stress: Progress: This will be started once the CRISPR-Cas9-edited dt3 lines are obtained. No progress has been made yet. Objective 4) analysis of natural variation in the Dt3/dt3 region: Progress: Sequences of the Dt3/dt3 regions from ~800 re-sequenced soybean lines have been extracted and compared, which has identified candidate causal mutations for further validation. Objective 5) development of Dt1/dt1, Dt2/dt2, and Dt3/dt3 near isogenic lines (NILs). Progress: Crosses of the donor lines or advanced lines containing one form of the Dt2, dt3, were further backcrossed with Williams 82 to generate BC2 progeny.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2019
Citation:
Zhang, D., Wang, X., Li, S., Wang, C., Gosney, M., Mickelbart, M., and Ma, J.* 2019. A post-domestication mutation Dt2 triggers systemic modification of divergent and convergent pathways modulating multiple agronomic traits in soybean. Mol. Plants. https://doi.org/10.1016/j.molp.2019.05.010
- Type:
Journal Articles
Status:
Published
Year Published:
2019
Citation:
Ren, B., Wang, X., Duan, J., and Ma, J.* 2019. Rhizobial tRNA-derived small RNAs are signal molecules regulating plant nodulation. Science, 10.1126/science.aav8907.
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Progress 01/01/18 to 12/31/18
Outputs
Target Audience:The PI participated in the Plant Biology 2018 in Montreal, CA and the 2018 Biennial Molecular and Cellular Biology of Soybean (Soy2018) in Athens, GA, and gave two oral presentations in these meetings. Approximately 1,500 scientisists and students attended these meetings. The PI also give a presentation at University of California, Riverside. Changes/Problems:We have recently mapped a 4th stem growth habit gene, designated Dt4, and will expand our effort by including fine mapping and/or cloning of Dt4. What opportunities for training and professional development has the project provided?The PI provided excellent training opportunities for the postdoctorial associate through this project. In addition, the project provided opportunities for an undergradiuate student, and an visiting scholar from Shandong University. How have the results been disseminated to communities of interest?We have routinely had lots of summer visiters, including those from seed companies and high school teachers to visit the Agronomy farm, where the semi-determinate soybean varieties were planted. For example, we have a field day in 2018 in the Agronomy farm, which brought ~150 visitors from the soybean farms and industry indise and outside of Iniana. In addition, the soybean stem growth habit has been defined as an important plant architecture traits and will be examinecd in our newly built Controlled Environment Phenotyping Facility. What do you plan to do during the next reporting period to accomplish the goals?We plan to conduct the experiments as planed in the proposal.
Impacts
What was accomplished under these goals?
Objective 1) identification of causative mutation and molecular mechanism triggering the Dt2 function; Progress: A DNA fragment containing 3 mutation sites that can complete distinguish Dt2 from dt2 was used to screen a cDNA library via Y1H assay, with an intent to identify protains binding to the mutation sites. Objective 2) cloning and functional characterization of the Dt3/dt3 locus; Progress: Dt3 candidate gene have been pinpointed. CRSIPR-Cas9 was used to edit Dt3 candidate gene. Soybean seedling with the transformed CRISPR-Cas vector has been obtained, and whether the candidate gene has been edited will be determined. In addition, we have mapped a 4th stem growth habit gene (tentatively designated Dt4), which also make semi-determinate soybean plant, has been mapped to a genomic region with ~30 predicted genes. Objective 3) characterization of Dt2- and dt3-mediated molecular responses to water stress; Progress: This will be started once the CRISPR-Cas9-edited dt3 lines are obtained. Objective 4) analysis of natural variation in the Dt3/dt3 region; Progress: Sequences of the Dt3/dt3 regions from ~800 re-sequenced soybean lines have been extracted and compared. Objective 5) development of Dt1/dt1, Dt2/dt2, and Dt3/dt3 near isogenic lines (NILs). Progress: Crosses of the donor lines or advanced lines containing one form of the Dt2, dt3, were crossed with Williams 82.
Publications
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