Skip to main content
ARS Home » Pacific West Area » Albany, California » Western Regional Research Center » Crop Improvement and Genetics Research » Research » Research Project #434430

Research Project: Molecular Genetic Tools Advancing the Application of Biotechnology for Crop Improvement

Location: Crop Improvement and Genetics Research

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum Reprint Icon - (Peer Reviewed Journal)
Lei, L., Gordon, S.P., Liu, L., Sade, N., Lovell, J., Rubio-Wilhelmi, M., Singan, V., Sreedasyam, A., Hestrin, R., Philipps, J., Hernandez, B.T., Barry, K., Shu, S., Jenkins, J., Schmutz, J., Goodstein, D., Thilmony, R.L., Blumwald, E., Vogel, J. 2023. The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum. G3, Genes/Genomes/Genetics. https://doi.org/10.1093/g3journal/jkad245.

Complete genome of Agrobacterium fabrum strain 1D1416 Reprint Icon - (Peer Reviewed Journal)
Alabed, D., Huo, N., Gu, Y.Q., Thomson, J.G. 2023. Complete genome of Agrobacterium fabrum strain 1D1416. Microbiology Resource Announcements. 12(7). https://doi.org/10.1128/mra.00264-23.

Complete genome of Agrobacterium fabrum strain 1D1416 Reprint Icon - (Peer Reviewed Journal)
Alabed, D.F., Huo, N., Gu, Y.Q., Thomson, J.G. 2023. Complete genome of Agrobacterium fabrum strain 1D1416. Microbiology Resource Announcements. 12(7). https://doi.org/10.1128/mra.00264-23.

Evaluation of novel surfactants for plant transformation Reprint Icon - (Peer Reviewed Journal)
Huynh, J.N., Hotton, S.K., Chan, R., Syed, Y., Thomson, J.G. 2022. Evaluation of novel surfactants for plant transformation. BMC Research Notes. 15. Article 360. https://doi.org/10.1186/s13104-022-06251-5.

CRISPR-Cas9 gene editing of the Sal1 gene family in wheat Reprint Icon - (Peer Reviewed Journal)
Mohr, T.J., Horstman, J.D., Gu, Y.Q., Elarabi, N.I., Abdallah, N.A., Thilmony, R.L. 2022. CRISPR-Cas9 gene editing of the Sal1 gene family in wheat. Plants. 11(17). Article 2259. https://doi.org/10.3390/plants11172259.

Tissue-specific expression of Ruby in Mexican lime (C. aurantifolia) confers anthocyanin accumulation in fruit Reprint Icon - (Peer Reviewed Journal)
Thilmony, R.L., Dasgupta, K., Shao, M., Harris, D., Hartman, J., Harden, L.A., Chan, R., Thomson, J.G. 2022. Tissue-specific expression of Ruby in Mexican lime (C. aurantifolia) confers anthocyanin accumulation in fruit. Frontiers in Plant Science. 13. Article 945738. https://doi.org/10.3389/fpls.2022.945738.

GrainGenes: A data-rich repository for small grains genetics and genomics Reprint Icon - (Peer Reviewed Journal)
Yao, E., Blake, V.C., Cooper, L., Wight, C.P., Michel, S., Cagirici, H.B., Lazo, G.R., Birkett, C., Waring, D.J., Jannink, J., Holmes, I., Waters, A.J., Eickholt, D.P., Sen, T.Z. 2022. GrainGenes: A data-rich repository for small grains genetics and genomics. Database: The Journal of Biological Databases and Curation. 2022. Article baac034. https://doi.org/10.1093/database/baac034.

Lilac limes: more than just a pretty fruit - (Trade Journal)
Thomson, J.G., Thilmony, R.L. 2022. Lilac limes: more than just a pretty fruit. Citrograph. 13(3):48-51. Available: https://citrus-research-board-static.sfo2.digitaloceanspaces.com/citrograph/pdf/CRB-Citrograph-Mag-Q3-Summer-2022-Web.pdf

Draft genome sequence of Agrobacterium fabrum strain 1D1104 Reprint Icon - (Peer Reviewed Journal)
Huo, N., Gu, Y.Q., McCue, K.F., Alabed, D., Thomson, J.G. 2021. Draft genome sequence of Agrobacterium fabrum strain 1D1104. Microbiology Resource Announcements. 10(48). Article e00996-21. https://doi.org/10.1128/MRA.00996-21.

Gene assembly in agrobacterium via nucleic acid transfer using recombinase technology (GAANTRY) Reprint Icon - (Book / Chapter)
Hathwaik, L.T., Thomson, J.G., Thilmony, R.L. 2021. Gene assembly in agrobacterium via nucleic acid transfer using recombinase technology (GAANTRY). In: Bandyopadhyay, A., Thilmony, R.L, editors. Rice Genome Engineering and Gene Editing. Methods in Molecular Biology. New York, NY: Humana. p. 3-17.

Isolation of novel citrus and plum fruit promoters and their functional characterization for fruit biotechnology Reprint Icon - (Peer Reviewed Journal)
Dasgupta, K., Hotton, S., Belknap, W., Syed, Y., Dardick, C.D., Thilmony, R.L., Thomson, J.G. 2020. Isolation of novel citrus and plum fruit promoters and their functional characterization for fruit biotechnology. BioMed Central (BMC)Biotechnology. 20. https://doi.org/10.1186/s12896-020-00635-w.

Phenotypic examination of camelina sativa (L.) crantz accessions from the USDA – ARS National Genetics Resource Program Reprint Icon - (Peer Reviewed Journal)
Hotton, S., Kammerzell, M., Chan, R., Hernandez, B.T., Young, H.A., Tobias, C.M., Mckeon, T.A., Brichta, J.L., Thomson, N.J., Thomson, J.G. 2020. Phenotypic examination of camelina sativa (L.) crantz accessions from the USDA – ARS National Genetics Resource Program. Plants. 9(5). https://doi.org/10.3390/plants9050642.

Into the weeds: matching importation history to genetic consequences and pathways in two widely used biological control agents Reprint Icon - (Peer Reviewed Journal)
Hopper, J.V., McCue, K.F., Pratt, P.D., Duchesne, P., Grosholz, E.D., Hufbauer, R. 2019. Into the weeds: matching importation history to genetic consequences and pathways in two widely used biological control agents. Evolutionary Applications. 12(4):773-790. https://doi.org/10.1111/eva.12755.

Draft genome sequence of Agrobacterium tumefaciens strain 1D1526 Reprint Icon - (Peer Reviewed Journal)
Huo, N., Gu, Y.Q., Mc Cue, K.F., Alabed, D., Thomson, J.G. 2019. Draft genome sequence of Agrobacterium tumefaciens strain 1D1526. Microbiology Resource Announcements. 8(45). https://doi.org/10.1128/MRA.01084-19.

Transgene stacking in potato using the GAANTRY system Reprint Icon - (Peer Reviewed Journal)
McCue, K.F., Gardner, E.B., Chan, R., Thilmony, R.L., Thomson, J.G. 2019. Transgene stacking in potato using the GAANTRY system. BMC Research Notes. 12:457. https://doi.org/10.1186/s13104-019-4493-8.

The Potato Association of America, a professional society for advancement of the potato industry - (Abstract Only)

Draft genome sequence of serratia sp. 1D1416 Reprint Icon - (Peer Reviewed Journal)
Alabed, D.F., Huo, N., Gu, Y.Q., McCue, K.F., Thomson, J.G. 2019. Draft genome sequence of serratia sp. 1D1416. Microbiology Resource Announcements. 8(3):e01354-18. https://doi.org/10.1128/MRA.01354-18.

RMCE methods of precise plant genome modification - (Abstract Only)