{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T05:01:51Z","timestamp":1790830911200,"version":"4.1.0"},"reference-count":44,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T00:00:00Z","timestamp":1790812800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Plant Sci."],"abstract":"<jats:sec>\n                    <jats:title>Introduction<\/jats:title>\n                    <jats:p>\n                      <jats:italic>Atractylodes macrocephala<\/jats:italic>\n                      , a traditional Chinese medicinal herb, has a long history of cultivation and strong market demand in China. However, existing research has primarily focused on its germplasm resources and medicinal properties, while studies on the interaction mechanisms between secondary metabolism and rhizosphere soil environmental factors remain insufficient.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>\n                      This study investigated four\n                      <jats:italic>Atractylodes macrocephala<\/jats:italic>\n                      of quality grades, systematically compared their secondary metabolic pathways and rhizosphere soil environmental factors based on epigenetic variation assessments, and explored the intrinsic relationships between them using multidimensional statistical methods.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>\n                      The results revealed that cultivated\n                      <jats:italic>Atractylodes macrocephala<\/jats:italic>\n                      modulates DNA methylation patterns to adapt to environmental changes, exhibiting rich epigenetic diversity. Additionally, significant differences are observed in the secondary metabolic pathways of phenylpropanoids, isoflavonoids, and flavonoids. Soil nitrogen nutrition and pH value were identified as key environmental driving forces, with efficient nitrogen transformation and weakly acidic conditions being more favorable for\n                      <jats:italic>Atractylodes macrocephala<\/jats:italic>\n                      cultivation. Rhizosphere fungi serve as key microbial regulators, influencing secondary metabolism through energy pathways (b-oxidation, glycolysis, glyoxylate cycle), cofactor production (ubiquinone, heme), and amino acid and lipid metabolism (nutrient supply, release of phosphatidic acid and ROS).\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Discussion<\/jats:title>\n                    <jats:p>\n                      In contrast, bacteria mainly support soil iron nutrition, pollutant degradation, and pathogen infectivity modulation via virulence actor release. In conclusion, the secondary metabolic processes in\n                      <jats:italic>Atractylodes macrocephala<\/jats:italic>\n                      are synergistically regulated by an \"soil environment-rhizosphere microbiota\" system. These findings provide a theoretical basis for the standardized cultivation and resource development of\n                      <jats:italic>Atractylodes macrocephala<\/jats:italic>\n                      .\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.3389\/fpls.2026.1951327","type":"journal-article","created":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T04:51:35Z","timestamp":1790830295000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["Research on the epigenetic alterations in Atractylodes macrocephala and the synergistic regulatory mechanism of \u201csoil environment-rhizosphere microbes\u201d on its secondary metabolism"],"prefix":"10.3389","volume":"17","author":[{"given":"Yulong","family":"Li","sequence":"first","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jian","family":"You","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"WenJing","family":"Zhang","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wei","family":"Zhao","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ming","family":"Xing","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiangnan","family":"Li","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cui","family":"Ma","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]},{"name":"The first hospital of Jilin University, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wubuli","family":"Alimu","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]},{"name":"Akesu Prefecture Uyghur Medical Hospital","place":["Akesu Prefecture, Xinjiang, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yueming","family":"Zhao","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]},{"name":"Changbaishan Nature Conservation Management Center & Changbaishan Academy of Science","place":["Yanbian, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yujiao","family":"Zhang","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]},{"name":"Yanbian Specialties Research Institute","place":["Yanbian, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xia","family":"Chen","sequence":"additional","affiliation":[{"name":"National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Science, Jilin University","place":["Changchun, Jilin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2026,10,1]]},"reference":[{"key":"B1","first-page":"129","article-title":"Study on the dynamic changes of esters I, II, and III in Atractylodes macrocephala during different harvest periods","volume":"41","author":"Bai","year":"2010","journal-title":"Chin. 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