{"id":8,"date":"2025-03-14T16:47:46","date_gmt":"2025-03-14T16:47:46","guid":{"rendered":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/?page_id=8"},"modified":"2025-05-15T15:15:30","modified_gmt":"2025-05-15T15:15:30","slug":"publication","status":"publish","type":"page","link":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/publication\/","title":{"rendered":"Publication"},"content":{"rendered":"\n
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12. Muhammad D<\/strong>, Clark, N.M., Tharp, N.E., Chatt, E.C., Vierstra, R.D. and Bartel, B. (2024), Global impacts of peroxisome and pexophagy dysfunction revealed through multi-omics analyses of lon2 and atg2 mutants. Plant J, 120: 2563-2583.<\/a><\/p>\n\n\n\n

11. Schmittling S*., Muhammad D*<\/strong>., Haque S., Long T.A., Williams C. (2023) Cellular Clarity: A logistic regression approach to identify root epidermal regulators of iron deficiency response. BMC Genomics<\/em>. 24: 620.<\/em><\/a> (1)<\/a><\/p>\n\n\n\n

10. Muhammad D*<\/strong>., Alameldin H.F*., Oh S., Montgomery B.L., Warpeha K.M. (2023) Arogenate Dehydratases: Unique roles in light-directed development during the seed-to-seedling transition in Arabidopsis thaliana<\/em>. Frontiers in Plant Science<\/em>. 14: 1220732. <\/a> (4)<\/a><\/p>\n\n\n\n

9. Muhammad D<\/strong>*., Smith K.A*., Bartel B. (2022) Plant Peroxisome Proteostasis\u2014Establishing, Renovating, and Dismantling the Peroxisomal Proteome. Essays in Biochemistry<\/em>. 66: 229\u2013242. <\/a> (7)<\/a><\/p>\n\n\n\n

8. Muhammad D<\/strong>., <\/strong>Clark N.M., Haque S., Williams C.M., Sozzani R., Long T.A. <\/em>(2022) POPEYE intercellular localization mediates cell-specific iron deficiency responses. Plant Physiology.<\/em> 190: 2017-2032. <\/a> (10)<\/a><\/p>\n\n\n\n

7. Koryachko, A., Matthiadis A., Haque, S., Muhammad D<\/strong>., Ducoste J., Tuck J., Long T.A., Williams C. (2019) Dynamic modeling of iron deficiency response in A. thaliana<\/em> roots. in silico Plants<\/em>. 1: diz005<\/a> (7)<\/a><\/p>\n\n\n\n

6. Muhammad D*<\/strong>., Schmittling S*., Williams C., Long T.A. (2016) More than Meets the Eye: Emergent Properties of Transcription Factors Networks in Arabidopsis<\/em>. BBA Gene Regulatory Mechanisms.<\/em> 1860: 64-74.<\/a> (11)<\/a><\/p>\n\n\n\n

5. Para A., Muhammad D<\/strong>., Orozco-Nunnelly D., Memishi R., Alvarez S., Naldrett M., Warpeha K. (2016) The dehydratase ADT3 affects ROS homeostasis and cotyledon development. Plant Physiology<\/em>. 172: 1045-1060.<\/a> (38)<\/a><\/p>\n\n\n\n

4. Koryachko, A., Matthiadis A., Muhammad D<\/strong>., Foret J., Brady S.M., Ducoste J., Tuck J., Long T.A., Williams C. (2015) Clustering and Differential Alignment Algorithm: Identification of early stage regulators in the Arabidopsis thaliana<\/em> iron deficiency response. PLOS One<\/em>. 10: e0136591.  <\/a> (15)<\/a><\/p>\n\n\n\n

3. Orozco-Nunnelly D.A., Muhammad, D<\/strong>., Liakaite, V., Green, S., Warpeha K.M. (2014) Pirin1 Is a Non-Circadian Regulated Transcript and Protein, but Highly Responsive to Light\/Dark Periods in the Seed-to-Seedling Transition in Arabidopsis thaliana<\/em>. Plant Molecular Biology Reporter<\/em>. 33: 1336-1348.
<\/a>(4)<\/a><\/p>\n\n\n\n

2. Sullivan, J., Muhammad, D<\/strong>., Warpeha, K.M. (2014) Phenylalanine is required to promote specific developmental responses and prevent cellular damage in response to UV-B in soybean (Glycine max<\/em>) during the seed-to-seedling transition. PLOS One. <\/em>9: e112301.<\/a> (18)<\/a><\/p>\n\n\n\n

1. Orozco-Nunnelly D.A., Muhammad, D<\/strong>., Mezzich R., Lee, B.S., Jayathilaka L., Kaufman L.S., Green, S., Warpeha K.M. (2014) Pirin1 (PRN1) is a multifunctional protein that regulates quercetin, and impacts light and UV responses in the seed-to-seedling transition of Arabidopsis thaliana. PLOS One. 9: e93371.<\/a> (39<\/a>)<\/p>\n<\/div><\/div>\n\n\n\n

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(*equal contributions) 12. Muhammad D, Clark, N.M., Tharp, N.E., Chatt, E.C., Vierstra, R.D. and Bartel, B. (2024), Global impacts of peroxisome and pexophagy dysfunction revealed through multi-omics analyses of lon2 and atg2 mutants. Plant...<\/p>\n","protected":false},"author":59,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-8","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/pages\/8","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/users\/59"}],"replies":[{"embeddable":true,"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/comments?post=8"}],"version-history":[{"count":22,"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/pages\/8\/revisions"}],"predecessor-version":[{"id":252,"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/pages\/8\/revisions\/252"}],"wp:attachment":[{"href":"https:\/\/sites.biochem.umass.edu\/muhammadlab\/wp-json\/wp\/v2\/media?parent=8"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}