Difference between revisions of "Maeda Lab:Publications"
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<h3><font>Publications</font> ('''*'''corresponding author)</h3> '''[http://scholar.google.com/citations?user=uQBb60kAAAAJ Google Scholar citations]''' | <h3><font>Publications</font> ('''*'''corresponding author)</h3> '''[http://scholar.google.com/citations?user=uQBb60kAAAAJ Google Scholar citations]''' | ||
+ | '''Priprints''' | ||
+ | *'''Takeda-Kimura Y.''', '''Moore B.''', Holden S., Deb S.K., Barrett M., Lorence D., '''de Oliveira M.V.V.''', Grimwood J., Williams M., Boston L.B., Jenkins J.W., Plott C., Shu S., Barry K.W., Goodstein D.M., Schmutz J., Moscou M.J., McKain M.R., Leebens-Mack J.H.*, '''Maeda H.A.''' (2024) Genomes of Poaceae sisters reveal key metabolic innovations preceding the emergence of grasses. [https://doi.org/10.1101/2024.11.06.622220 '''''bioRvix''''' doi.org/10.1101/2024.11.06.622220] | ||
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+ | *'''Yokoyama R.*''', '''Maeda H.A.*''' (2024) Arabidopsis 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthases of the shikimate pathway display both manganese- and cobalt-dependent activities. [https://doi.org/10.1101/2024.10.06.616849 '''''bioRvix''''' doi.org/10.1101/2024.10.06.616849] | ||
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+ | *Du Y., '''Jung S.''', '''Maeda H.A.''', Bent A.F. (2024) Soybean Cyst Nematode-Resistant Protein AATRhg1 Affects Amino Acid Homeostasis and Betalain Accumulation. [https://doi.org/10.1101/2024.11.14.623632 '''''bioRvix''''' doi.org/10.1101/2024.11.14.623632] | ||
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+ | '''Published articles''' | ||
<ol> | <ol> | ||
− | <li>Busta L.,*, '''Hall D.''', Johnson B., '''Schaut M.''', '''Hanson. C.M.''', '''Gupta A.''', '''Gundrum M.''', '''Wang Y.''', '''Maeda H.A.*''' Phylochemical mapping of natural products onto the plant tree of life using text mining and large language models. '' | + | <li>'''El-Azaz J.*''', '''Maeda H.A.*''' (2024) A simplified liquid chromatography‐mass spectrometry methodology to probe the shikimate and aromatic amino acid biosynthetic pathways in plants [http://doi.org/10.1111/tpj.17105 '''''Plant J. 120, 2286-2304'''''] |
+ | [[File:FigJorge2024.png|center|400px|]] | ||
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+ | <li>Busta L.,*, '''Hall D.''', Johnson B., '''Schaut M.''', '''Hanson. C.M.''', '''Gupta A.''', '''Gundrum M.''', '''Wang Y.''', '''Maeda H.A.*''' (2024) Phylochemical mapping of natural products onto the plant tree of life using text mining and large language models. [https://doi.org/10.1101/2024.02.16.580694 '''''bioRvix''''' doi: 10.1101/2024.02.16.580694] [http://doi.org/10.1111/tpj.16906 '''''Plant J. 120, 406-419''''']. | ||
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+ | [[File:phylochemical1.jpg|center|550px|]] | ||
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+ | [[File:PNAS24.jpg|right|300px|]] | ||
+ | <li>'''Koper K.'''#, Han S-W.#, Kothadia R., Salamon H., Yoshikuni Y.*, '''Maeda H.A.*''' (2024) Multi-substrate specificity shaped the complex evolution of the aminotransferase family across the tree of life. [https://pubmed.ncbi.nlm.nih.gov/38885378/ '''''Proc. Natl. Acad. Sci. 121, e2405524121'''''] [https://www.biorxiv.org/content/10.1101/2024.03.19.585368v1 '''''bioRvix''''' doi: 10.1101/2024.03.19.585368] See the [https://jgi.doe.gov/an-enzyme-family-that-helped-shape-nitrogen-metabolism-on-our-planet/ '''''DOE JGI News'''''.] #These authors contributed equally. | ||
+ | :<font color="#404040"> ''The evolutionary analyses of the aminotransferase (AT) enzyme family across the tree of life found that many essential AT reactions are carried out by nonorthologous enzymes in different taxa, likely due to the multi-substrate specificity exhibited by many AT enzymes. The findings suggest the presence of diverse architecture and functionality of the nitrogen metabolic networks that likely operate in various extant organisms dealing with different nitrogen availabilities and demands.'' | ||
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+ | <li>'''Jung S.''', '''Maeda H.A.*''' (2024) Debottlenecking the DOPA 4,5-dioxygenase step with enhanced tyrosine supply boosts betalain production in ''Nicotiana benthamiana''. [https://academic.oup.com/plphys/advance-article-abstract/doi/10.1093/plphys/kiae166/7631229?redirectedFrom=fulltext '''''Plant Physiol. kiae166'''''][[File:DODA.jpg|right|150px|]] | ||
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+ | :<font color="#404040"> ''Synthetic biology provides emerging tools to produce valuable compounds in plant hosts as sustainable chemical production platforms. By testing a series of synthetic constructs for biosynthesis of betalain pigments from L-tyrosine, this study revealed that balancing between enhanced supply (“push”) and effective utilization (“pull”) of precursor by alleviating a bottleneck step is critical in producing high levels of target compounds.'' | ||
− | <li>'''El-Azaz J.''', '''Moore B.''', '''Takeda-Kimura Y.''', '''Yokoyama R.''', '''Wijesingha Ahchige M.''', '''Chen X.''', '''Schneider M.''', '''Maeda H.A.*''' (2023) Coordinated regulation of the entry and exit steps of aromatic amino acid biosynthesis supports the dual lignin pathway in grasses. [https://www.nature.com/articles/s41467-023-42587-7 | + | <li>'''Maeda H.A.*''', '''de Oliveira M.V.V.''' (2024) VAS1-mediated nitrogen shufffling for aromatic amino acid homeostasis. [https://pubmed.ncbi.nlm.nih.gov/38480091/ '''''Trends Plant Sci. 29, 507-509'''''] |
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+ | <li>'''El-Azaz J.''', '''Moore B.''', '''Takeda-Kimura Y.''', '''Yokoyama R.''', '''Wijesingha Ahchige M.''', '''Chen X.''', '''Schneider M.''', '''Maeda H.A.*''' (2023) Coordinated regulation of the entry and exit steps of aromatic amino acid biosynthesis supports the dual lignin pathway in grasses. [https://www.nature.com/articles/s41467-023-42587-7 '''''Nature Commun. 14, 7242'''''][[File:NatCom_Fig1.png|right|300px|]] | ||
:<font color="#404040"> ''Plants harness sunlight to generate thousands of chemical compounds from CO2, yet how they control the distribution of high-energy carbon remains poorly understood. This study by El-Azaz et al. revealed precise and coordinated regulation of grass enzymes that ensures balanced production of tyrosine and phenylalanine. This likely enables the robust synthesis of phenylpropanoid compounds like lignin in grasses from these two aromatic amino acids as starting materials. Understanding this process now lets us engineer plants to efficiently produce valuable phenolic compounds from atmospheric CO2.'' | :<font color="#404040"> ''Plants harness sunlight to generate thousands of chemical compounds from CO2, yet how they control the distribution of high-energy carbon remains poorly understood. This study by El-Azaz et al. revealed precise and coordinated regulation of grass enzymes that ensures balanced production of tyrosine and phenylalanine. This likely enables the robust synthesis of phenylpropanoid compounds like lignin in grasses from these two aromatic amino acids as starting materials. Understanding this process now lets us engineer plants to efficiently produce valuable phenolic compounds from atmospheric CO2.'' | ||
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<li>'''Yokoyama R.''', '''de Oliveira V.V.M.''', '''Kleven B.''', '''Maeda H.A.*''' (2021) The Entry Reaction of the Plant Shikimate Pathway is Subjected to Highly Complex Metabolite-Mediated Regulation | <li>'''Yokoyama R.''', '''de Oliveira V.V.M.''', '''Kleven B.''', '''Maeda H.A.*''' (2021) The Entry Reaction of the Plant Shikimate Pathway is Subjected to Highly Complex Metabolite-Mediated Regulation | ||
− | [https:// | + | [https://doi.org/10.1093/plcell/koaa042 '''''Plant Cell''''' '''33, 671–696'''] [[File:DHS_icon.jpg|right|170px|]] |
:<font color="#404040"> ''The shikimate pathway interconnects the central carbon metabolism and biosynthesis of aromatic amino acids and a wide range of aromatic natural products. This study found that the first enzyme of the shikimate pathway, DAHP synthases (DHSs), are regulated by at least five downstream metabolites (i.e. tyrosine, tryptophan, chorimate, arogenate, caffeate), uncovering much more complex feedback regulation of the shikimate pathway in plants than in microbes. The findings will help us enhance the production of these essential amino acids and natural products in plants.'' | :<font color="#404040"> ''The shikimate pathway interconnects the central carbon metabolism and biosynthesis of aromatic amino acids and a wide range of aromatic natural products. This study found that the first enzyme of the shikimate pathway, DAHP synthases (DHSs), are regulated by at least five downstream metabolites (i.e. tyrosine, tryptophan, chorimate, arogenate, caffeate), uncovering much more complex feedback regulation of the shikimate pathway in plants than in microbes. The findings will help us enhance the production of these essential amino acids and natural products in plants.'' | ||
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<li>Okazawa A., '''Maeda H.''', Fukusaki E., Katakura Y., and Kobayashi A. (2000) In Vitro Selection of Hematoporphyrin Binding DNA Aptamers. [http://www.ncbi.nlm.nih.gov/pubmed/11128644 '''''Bioorg. Med. Chem. Lett.''''' 10, 2653-2656]</li> | <li>Okazawa A., '''Maeda H.''', Fukusaki E., Katakura Y., and Kobayashi A. (2000) In Vitro Selection of Hematoporphyrin Binding DNA Aptamers. [http://www.ncbi.nlm.nih.gov/pubmed/11128644 '''''Bioorg. Med. Chem. Lett.''''' 10, 2653-2656]</li> | ||
<li>Fukusaki E., Kato T., '''Maeda H.''', Kawazoe N., Ito Y., Okazawa A., Kajiyama S. and Kobayashi A. (2000) DNA Aptamers that Bind to Chitin. [http://www.ncbi.nlm.nih.gov/pubmed/10743940 '''''Bioorg. Med. Chem. Lett.''''' 10, 423-425]</li> | <li>Fukusaki E., Kato T., '''Maeda H.''', Kawazoe N., Ito Y., Okazawa A., Kajiyama S. and Kobayashi A. (2000) DNA Aptamers that Bind to Chitin. [http://www.ncbi.nlm.nih.gov/pubmed/10743940 '''''Bioorg. Med. Chem. Lett.''''' 10, 423-425]</li> | ||
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</ol> | </ol> |
Latest revision as of 13:10, 15 February 2025
Publications (*corresponding author)Google Scholar citationsPriprints
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