biostudies-literatureWei WKey Project of Chongqing Special Program for Technological Innovation and Application Devel-opmentthe "Challenge System" Project for Innovation and Breakthrough in the Seed Industry of Chong-qing Municipality: Coptis Chinen-sis ,the National Key Research and Development Program of China431https://www.ebi.ac.uk/biostudies/studies/S-EPMC12786017biostudies-literatureUnknown27(1)The basic leucine zipper (bZIP) transcription factors play crucial roles in plant growth and stress adaptation. However, a comprehensive genome-wide analysis of this family has been lacking in the medicinal plant <i>Coptis chinensis</i>. In this study, we identified 55 bZIP genes (<i>CcbZIPs</i>) from the <i>C. chinensis</i> genome and systematically classified them into 12 subfamilies through phylogenetic analysis with <i>Arabidopsis thaliana</i>. Notably, subfamilies L and O were absent, while two orphan genes were discovered, indicating lineage-specific evolution. Expression profiling revealed that numerous <i>CcbZIPs</i> respond dynamically to temperature and light stresses in a tissue-specific manner. These findings provide a foundation for understanding the regulatory roles of CcbZIPInternational journal of molecular sciencesGenome-Wide Identification and Analysis of bZIP Transcription Factors in &lt;i&gt;Coptis chinensis&lt;/i&gt; Reveals Their Regulatory Roles in Stress Responses.PMC12786017CSTB2024TIAD-KPX0049Grant No.2022YFD1201600Mo RGuo LPan YLe ZWei WWang YfalseGenome-Wide Identification and Analysis of bZIP Transcription Factors in &lt;i&gt;Coptis chinensis&lt;/i&gt; Reveals Their Regulatory Roles in Stress Responses.The basic leucine zipper (bZIP) transcription factors play crucial roles in plant growth and stress adaptation. However, a comprehensive genome-wide analysis of this family has been lacking in the medicinal plant <i>Coptis chinensis</i>. In this study, we identified 55 bZIP genes (<i>CcbZIPs</i>) from the <i>C. chinensis</i> genome and systematically classified them into 12 subfamilies through phylogenetic analysis with <i>Arabidopsis thaliana</i>. Notably, subfamilies L and O were absent, while two orphan genes were discovered, indicating lineage-specific evolution. Expression profiling revealed that numerous <i>CcbZIPs</i> respond dynamically to temperature and light stresses in a tissue-specific manner. These findings provide a foundation for understanding the regulatory roles of CcbZIP2025-01-01T00:00:00Z2025 Dec2026-06-30T03:26:38.534Z2026-06-30T03:21:04.959ZS-EPMC127860174151630410.3390/ijms27010431