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| Peter Andeer | Romy Chakraborty | Dawn Chiniquy | |
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| Adam Deutschbauer | Yezhang Ding | Veronica Escalante | Albina Khasanova |
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| Hsiao-han Lin | Jenny Mortimer | Aindrila Mukhopadhyay | Daniel Naylor |
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| Trent Northen | Shweta Priya | Astrid Terry | Marta Torres |
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| Eunice Tsang | John Vogel | Kateryna Zhalnina |
Research Groups
Drs. Romy Chakraborty, Adam Deustchbauer, Jenny Mortimer, Aidrila Mukhopdahyay, Trent Northen, John Vogel, and Kateryna Zhalnina lead research teams at Lawrence Berkeley National Laboratory working on m-CAFEs projects.
m-CAFEs Publications
Rubin BE, Diamond S, Cress BF, Crits-Christoph A, Shivram H, He C, Xu M, Zhou Z, Smith SJ, Smock DC, Tang K, Owens TK, Krishnappa N, Sachdeva R, Barrangou R, Deutschbauer AM, Banfield JF, Doudna JA, Targeted Genome Editing of Bacteria Within Microbial Communities. Nat Biotechnol (in review)/ bioRxiv [doi]: 10.1101/2020.07.17.209189
Chiniquy, D., Barnes, E. M., Zhou, J., Hartman, K., Li, X., Sheflin, A., Pella, A., Marsh, E., Prenni, J., Deutschbauer, A. M., Schachtman, D. P., & Tringe, S. G. (2021). Microbial community field surveys reveal abundant pseudomonas population in sorghum rhizosphere composed of many closely related phylotypes. Frontiers in Microbiology, 12, 598180. [doi]:10.3389/fmicb.2021.598180 PMID: 33767674, PMCID: PMC7985074 OSTI:1774893
Ding Y, Northen TR, Khalil A, Huffaker A, Schmelz EA (2021) Getting back to the grass roots: harnessing specialized metabolites for improved crop stress resilience. Curr Opin Biotechnol. 2021 Jun 11; 70 174-186 [doi]:10.1016/j.copbio.2021.05.010 PMID:34129999 OSTI:1812518
Jabusch, L.K.; Kim, P.W.; Chiniquy, D.; Zhao, Z.; Wang, B.; Bowen, B.; Kang, A.J.; Yoshikuni, Y.; Deutschbauer, A.M.; Singh, A.K.; Northen, T.R. Microfabrication of a Chamber for High-Resolution, In Situ Imaging of the Whole Root for Plant–Microbe Interactions. Int. J. Mol. Sci. 2021, 22, 7880. PMID: 34360661 PMCID: PMC8348081 [doi]:10.3390/ijms22157880 OSTI:1812357
Yee, M.O., Kim, P.W., Li, Y., Singh, A.K, Northen, T.R., Chakraborty, R., Specialized Plant Growth Chamber Designs to Study Complex Rhizosphere Interactions. Front. Microbiol., 26 March 2021. [doi]:10.3389/fmicb.2021.625752 PMID: 33841353, PMCID: PMC8032546
Singer E, Vogel JP, Northen T, Mungall CJ, Juenger ET. (2021) Novel and emerging capabilities that can provide a holistic understanding of the plant root microbiome”Phytobiomes Journal. [doi]:10.1094/PBIOMES-05-20-0042-RVW
Zhalnina, K., Hawkes, C., Shade, A., Firestone, M. K., Pett-Ridge, J. (2021) Managing Plant Microbiomes for Sustainable Biofuel Production. Phytobiomes J.5: 3-13 [doi]: 10.1094/PBIOMES-12-20-0090-E
Sasse, J., Kosina, S. M., de Raad, M., Jordan, J. S., Whiting, K., Zhalnina, K., & Northen, T. R. (2020). Root morphology and exudate availability are shaped by particle size and chemistry in Brachypodium distachyon. Plant Direct, 4(7), e00207. [doi]:10.1002/pld3.207
Wang, B., Zhao, Z., Jabusch, L. K., Chiniquy, D. M., Ono, K., Conway, J. M., Zhang, Z., Wang, G., Robinson, D., Cheng, J.-F., Dangl, J. L., Northen, T. R., & Yoshikuni, Y. (2020). CRAGE-Duet Facilitates Modular Assembly of Biological Systems for Studying Plant-Microbe Interactions. ACS Synthetic Biology [Electronic Resource], 9(9), 2610–2615.
Sasse, J.; Kant, J.; Cole, B. J., Klein, A. P., Arsova, B.; Schlaepfer, P.; Gao, J.; Lewald, K.; Zhalnina, K.; Kosina, S.; Bowen, B. P., Treen, D.; Vogel, J.; Visel, A.; Watt, M.; Dangl, J. L. and Northen, T. R. (2019) Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass. New Phytol, 222: 1149-1160. [doi]:10.1111/nph.15662
Zengler K, Hofmockel K, Baliga NS, Behie SW, Bernstein HC, Brown JB, Dinneny JR, Floge SA, Forry SP, Hess M, Jackson SA, Jansson C, Lindemann SR, Pett-Ridge J, Maranas C, Venturelli OS, Wallenstein MD, Shank EA, Northen TR. (2019) EcoFABs: advancing microbiome science through standardized fabricated ecosystems. Nat Methods. 16(7):567-571. [doi]:10.1038/s41592-019-0465-0
Zhalnina, K, Newman D, Zengler K, Northen TR. (2019) Need for laboratory ecosystems to unravel the structure and function of microbial communities mediated by chemistry. mBio. e01175-18. [doi]: 10.1128/mBio.01175-18
Gao J, Sasse J, Lewald KM, Zhalnina K, Cornmesser LT, Duncombe TA, Yoshikuni Y, Vogel JP, Firestone MK, Northen TR. Ecosystem Fabrication (EcoFAB) Protocols for The Construction of Laboratory Ecosystems Designed to Study Plant-microbe Interactions. J Vis Exp. 2018;(134):e57170. [doi]:10.3791/57170
Sasse J, Martinoia E, Northen T. Feed your friends: do plant exudates shape the root microbiome? (2018) Trends Plant Sci. 2018;23(1):25-41. [doi]:10.1016/j.tplants.2017.09.003
Zhalnina K, Louie KB, Hao Z, Mansoori N, da Rocha UN, Shi S, Cho H, Karaoz U, Loqué D, Bowen BP, Firestone MK, Northen TR, Brodie EL. (2018) Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly. Nat Microbiol. 2018;3(4):470-480. [doi]:10.1038/s41564-018-0129-3
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