远志KNOX基因家族的鉴定及其表达模式分析

doi:10.3969/j.issn.1674-7968.2026.11.006

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Abstract The KNOX transcription factor family is an important class of plant homeodomain proteins that play key regulatory roles in plant growth, development, and stress responses. This study aimed to identify and characterize the KNOX gene family members in Polygala tenuifolia, and to explore their tissue-specific expression patterns as well as their response characteristics to biotic and abiotic stresses. Using bioinformatics approaches, KNOX family genes were screened and identified based on the whole-genome sequence of P. tenuifolia, and their physicochemical properties, gene structures, conserved motifs, and promoter cis-regulatory elements were analyzed. Synteny analyses were performed both intra- and inter specifically. A phylogenetic tree was constructed using MEGA 7.0 software, and the expression profiles of KNOX genes in different tissues (roots, stems, and leaves) as well as under salt and salicylic acid (SA) stresses were examined by qPCR. The results showed that a total of 16 KNOX gene family members were identified in P. tenuifolia, distributed across 12 chromosomes, with 13 pairs of PtKNOX genes exhibiting syntenic relationships. Phylogenetic analysis classified the KNOX genes into 2 major groups: ClassI and ClassⅡ. Tissue-specific expression analysis revealed that different types of KNOX genes exhibited distinct expression patterns across various tissues and organs. qPCR results demonstrated that both salt stress and SA treatment significantly upregulated the expression levels of Pt01c1792.1 and Pt17c1863.1 (P<0.05). This study provides a theoretical basis for further investigations into the biological functions of PtKNOX genes in regulating growth, development, and secondary metabolite biosynthesis in P. tenuifolia.

Key words： Polygala tenuifolia KNOX gene family Genome-wide identification Analysis of expression patterns

Received: 16 March 2026

ZTFLH:	S567
	R286.12

Fund:国家自然科学基金(82003899); 陕西省科技计划项目(2025ZY-XCZXJX-04); 陕西省中医药管理局项目(2025-CXTD-01); 榆林市科技计划项目(2025-SF-219); 陕西中医药大学科技项目(2025SXZY-GJHX18); 中央本级重大增减支项目(2060302); 咸阳市科技计划项目(L2024-QCY-ZYYJJQ-X64)

Corresponding Authors: *ppengliang@126.com

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	XU Sheng
	QIAO Xiao-Yu
	ZONG Hao-Ran
	TONG Xu-Yao
	WEI Shu-Shen
	CUI Jia-Jun
	YAN Yong-Gang
	ZHANG Gang
	YANG Bing-Yue
	PENG Liang

Cite this article:

XU Sheng,QIAO Xiao-Yu,ZONG Hao-Ran, et al. Identification and Expression Pattern of the KNOX Gene Family in Polygala tenuifolia[J]. 农业生物技术学报, 2026, 34(11): 2337-2349.

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https://journal05.magtech.org.cn/Jwk_ny/EN/10.3969/j.issn.1674-7968.2026.11.006 OR https://journal05.magtech.org.cn/Jwk_ny/EN/Y2026/V34/I11/2337

[1] 常璟, 王泽民, 胡运杰, 等. 2024. 马铃薯CDF转录因子家族鉴定及逆境响应分析[J]. 中国蔬菜, (09): 34-43.
(Chang J, Wang Z M, Hu Y J, et al. 2024. Identification and stress response analysis of potato CDF transcription factors[J]. Chinese Vegetables, (09): 34-43.)
[2] 陈筱瑶, 冯梦娇, 黄欣, 等. 2024. 西瓜TALE基因家族鉴定及表达分析[J]. 中国瓜菜, 37(10): 18-29.
(Chen X Y, Feng M J, Huang X, et al.2024. Identification and expression analysis of TALE gene family in watermelon[J]. China Cucurbits and Vegetables, 37(10): 18-29.)
[3] 国家药典委员会. 2020. 中国药典[M]. 北京: 中国医药科技出版社, pp. 163.
(Chinese Pharmacopoeia Commission.2020. Pharmacopoeia of the People'S Republic of China [M]. Beijing: China Medical Science Press, pp. 163.)
[4] 净易尧, 罗瑶, 史嘉周, 等. 2024. 远志bZIP基因家族的鉴定及表达分析[J]. 中草药, 55(12): 4140-4149.
(Jing Y Y, Luo Y, Shi J Z, et al.2024. Identification and expression analysis of bZIP gene family in Polygala tenuifolia[J]. Chinese Traditional and Herbal Drugs, 55(12): 4140-4149.)
[5] 刘青, 汪玉凤, 赵韩生, 等. 2014.麻竹同源异型盒基因DlKNOX1的克隆及功能初步分析[J]. 林业科学, 50(02): 56-62.
(Liu Q, Wang Y F, Zhao H S, et al.2014.Molecular characteristics and primary functional analysis of DIKNOX1 gene from Dendrocalamus latiflorus[J]. Scientia Silvae Sinicae, 50(02): 56-62.)
[6] 刘青, 孙化雨, 李利超, 等. 2016. 麻竹同源异型盒基因DlKNOX的克隆及表达分析[J]. 热带亚热带植物学报, 24(06): 649-656.
(Liu Q, Sun H Y, Li L C, et al.2016. Cloning and expression analysi of DI KNOX gene from bamboo (Dendrocalamus latiflorus)[J]. Journal of Tropical and Subtropical Botany, 24(06): 649-656.)
[7] 彭亮, 杨冰月, 张岗, 等. 2018. 干旱胁迫对远志种子萌发及幼苗生长和生理特性的影响[J]. 西北植物学报, 38(04): 741-749.
(Peng L, Yang B Y, Zhang G,et al.2018. Seed Germination and seedling growth physiological characteristics of Polygala tenuifolia Willd. under drought stress[J]. Acta Botanica Boreali-Occidentalia Sinica, 38(04): 741-749.)
[8] 宋宁宁, 梁慧慧, 安义伟, 等. 2022. 小麦KNOX基因家族鉴定与生物信息学分析[J]. 分子植物育种, 20(07): 2105-2117.
(Song N N, Liang H H, An Y W, et al.2022. Identification and bioinformatics analysis of KNOX gene family in wheat (Triticum aestivum L.)[J]. Molecular Plant Breeding, 20(07): 2105-2117.)
[9] 孙润润, 王园园, 郭新磊, 等. 2019. 亚洲棉全基因组KNOX基因家族鉴定及组织表达分析[J]. 中国棉花, 46(12): 15-22.
(Sun R R, Wang Y Y, Guo X L, et al.2019. Genome-wide identification and expression analysis of KNOX genes family in Gossypium arboreum[J]. China Cotton, 46: 15-22.)
[10] 施卫萍, 张欣, 赵媛, 等. 2024. 谷子KNOX基因家族鉴定及组织表达模式分析[J]. 农业生物技术学报, 32(08): 1742-1752.
(Shi W P, Zhang X, Zhao Y, et al.2024. Identification and tissue expression pattern analysis of KNOX gene family in Setaria italica[J]. Journal of Agricultural Biotechnology, 32(08): 1742-1752.)
[11] 王好让, 童飞, 李思梦, 等. 2024. 大豆TIFY基因家族的生物信息学分析及非生物胁迫表达研究[J]. 大豆科学, 43(06): 683-694.
(Wang H R, Tong F, Li S M, et al.2024. Bioinformatics analvsis of the TIFY gene family of Soybean (Glycine max L.) and the expression under abiotic stress[J]. Soybean Science, 43(06): 683-694.)
[12] 王聪, 侯思佳, 张倩倩, 等. 2024. KNOX2转录因子研究进展[J]. 植物生理学报, 60(09): 1367-1374.
(Wang C, Hou S J, Zhang J J, et al.2024. Research progress of KNOX2 transcription factors[J]. Plant Physiology Journal, 60(09): 1367-1374.)
[13] 吴垚, 王佳伟, 马叶子, 等. 2025. 远志化学成分及药理作用研究进展[J]. 陕西中医药大学学报, 48(01): 5-14.
(Wu Y, Wang J W, Ma Y Z, et al.2025. Research progresson chemical composition and pharmacological effects of Polygalae Radix[J]. Journal of Shaanxi University of Chinese Medicine, 48(01): 5-14.
[14] 王纪良, 姬祥卓, 金兵兵, 等. 2023. 玉米KNOX基因家族鉴定及表达分析[J]. 分子植物育种, 21(03): 708-716.
(Wang J L, Ji X Z, Jin B B, et al.2023. Identification and expression analysis of KNOX gene family in Maize[J]. Molecular Plant Breeding, 21(03): 708-716.)
[15] 徐晓燕, 黄小忠, 刘万仙, 等. 2024. 瓠瓜KNOX基因家族全基因组鉴定及组织表达分析[J]. 西北农林科技大学学报(自然科学版), 52(03): 113-122.
(Xu X Y, Huang X Z, Liu W X, et al.2024. Genome-wide identification and expression of KNOX gene family in bottle gourd[J]. Journal of Northwest A & F University (Natural Science Edition), 52(03): 113-122.)
[16] 叶曙光, 宰文珊, 熊自力, 等. 2017. 番茄KNOX基因家族鉴定及茄科作物KNOX基因进化关系分析[J]. 核农学报, 31(07): 1263-1271.
(Ye S G, Zai W S, Xiong Z L, et al.2017. Genome-wide identification of KNOX gene family in tomatoand their evolutionary relationship in Solanaceae[J]. Journal of Nuclear Agricultural Sciences, 31(07): 1263-1271.)
[17] 杨素德, 吴信华, 高洪邺, 等. 2023. 基于网络药理学和指纹图谱的远志抗抑郁质量标志物的预测[J]. 中南药学, 21(07): 1820-1826.
(Yang S D, Wu X H, Gao H Y, et al.2023. Predictive of Polygala tenuifolia quality markers for antidepressant effect based on network pharmacology and fingerprints[J]. Central South Pharmacy, 21(07): 1820-1826.)
[18] 赵长江, 宋巨奇, 都梦翔, 等. 2021. 玉米KNOX基因家族鉴定及组织和逆境表达分析[J]. 西北植物学报, 41(07): 1109-1119.
(Zhao C J, Song J Q, Du M X, et al.2021. Genome-wide identification and expression profile of KNOX gene family in Zea mays[J]. Acta Botanica Boreali-Occidentalia Sinica, 41(07): 1109-1119.)
[19] Aysha J, Noman M, Wang F, et al.1981. Synthetic promoters: Designing the cis regulatory modules for controlled gene expression[J]. Molecular Biotechnology, 60(8): 608-620.
[20] Astell C R, Ahlstrom-Jonasson L, Smith M, et al.2004. The sequence of the DNAs coding for the mating-type loci of Saccharomyces cerevisiae[J]. Cell, 27(1): 15-23.
[21] Bueno N, Alvarez J M, Ordas R J.2020. Characterization of the KNOTTED1-LIKE HOMEOBOX (KNOX) gene family in Pinus pinaster Ait.[J]. Plant Science, 301: 110691.
[22] Chai M, Zhou C, Molina I, et al.2016. A class Ⅱ KNOX gene, KNOX4, controls seed physical dormancy[J]. Proceedings of the National Academy of Sciences of the USA, 113(25): 6997-7002.
[23] Chen C, Wu Y, Li J, et al.2023. TBtools-II: A "one for all, all for one" bioinformatics platform for biological big-data mining[J]. Molecular Plant,16(11): 1733-1742.
[24] Deng X, Zhao S, Liu X, et al.2020. Polygala tenuifolia: A source for anti-Alzheimer's disease drugs[J]. Pharmaceutical Biology, 58(1): 410-416.
[25] Deng S, Ma W, Cui C, et al.2025. Identification of the KNOX Gene Family in Salvia miltiorrhiza Revealing Its Response Characteristics to Salt Stress[J]. Plants (Basel), 14(3):348.
[26] Duvaud S, Gabella C, Lisacek F, et al.2021. Expasy. the swiss bioinformatics resource portal, as designed by its users[J]. Nucleic Acids Research, 49(W1): W216-W227.
[27] Finn R D, Clements J, Eddy S R.2011. HMMER web server: interactive sequence similarity searching[J]. Nucleic Acids Research, 39(Web Server issue): W29-W37.
[28] Geourjon C, Deléage G.1995. SOPMA: Significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments[J]. Computer Applications in the Biosciences, 11(6): 681-684.
[29] Hake S, Smith H M S, Holtan H, et al.2004. The role of Knox genes in plant development[J]. Annual Review of Cell and Developmental Biology, 20(1): 125-151.
[30] Hay A, Tsiantis M.2010. KNOX genes: Versatile regulators of plant development and diversity[J]. Development, 137(19): 3153-3165.
[31] Jia P, Xing L, Zhang C, et al.2021. MdKNOX19, a class Ⅱ knotted-like transcription factor of apple, plays roles in ABA signalling/sensitivity by targeting ABI5 during or gan development[J]. Plant Science, 302: 110701.
[32] Keren-Keiserman A, Shtern A, Levy M, et al.2022. CLASS-II KNOX genes coordinate spatial and temporal ripening in tomato[J]. Plant Physiology, 190(1): 657-668.
[33] Lei L, Dong K, Liu S, et al.2024. Genome-wide identification of the WRKY gene family in blueberry (Vaccinium spp.) and expression analysis under abiotic stress[J]. Frontiers in Plant Science, 15: 1447749.
[34] Li E, Bhargava A, Qiang W, et al.2012. The Class Ⅱ KNOX gene KNAT7 negatively regulates secondary wall formation in Arabidopsis and is functionally conserved in Populu[J]. New Phytologist, 194(1): 102-115.
[35] Li G H, Manzoor M A, Wang G Y, et al.2023. Comparative analysis of KNOX genes and their expression patterns under various treatments in Dendrobium huoshanense[J]. Frontiers in Plant Science, 14: 1258533.
[36] Liu L, Lu W, Fan S, et al.2025. Genome-wide identification and characterization of the KNOX gene family in Vitis aurensmis[J]. PeerJ, 13: e19250.
[37] Li R, Wei Z, Li Y, et al.2022a. SKI-INTERACTING PRO TEIN interacts with SHOOT MERISTEMLESS to regulate shoot apical meristem formation[J]. Plant Physiolo gy, 189(4): 2193-2209.
[38] Li S, Yao Y, Ye W, et al.2022b. Genome-wide identification of wheat KNOX gene family and functional characterization of TaKNOX14-D in Plants[J]. International Journal of Molecular Sciences, 23(24): 15918.
[39] Qin W, Yin Q, Chen J, et al.2020. The classⅡ KNOX transcription factors KNAT3 and KNAT7 synergistically regulate monolignol biosynthesis in Arabidopsis[J]. Journal of Experimental Botany, 71(18): 5469-5483.
[40] Qu L J, Furumizu C, Alvarez J P, et al.2015. Antagonistic roles for KNOX1 and KNOX2 genes in patterning the land plant body plan following an ancient gene duplicatio[J]. PLOS Genetics, 11(2): e1004980.
[41] Rosin F M, Hart J K, Horner H T, et al.2003. Overexpression of a Knotted-like homeobox gene of potato alters vegetative development by decreasing gibberellin accumulation[J]. Plant Physiology, 132(1): 106-117.
[42] Sakamoto T, Kamiya N, Ueguchi-Tanaka M, et al.2001. KNOX homeodomain protein directly suppresses the expression of a gibberellin biosynthetic gene in the tobacco shoot apical meristem[J]. Genes Development, 15(5): 581-590.
[43] Scofield S, Dewitte W, Murray J A H.2007.The KNOX gene SHOOT MERISTEMLESS is required for the development of reproductive meristematic tissues in Arabidopsis[J]. The Plant Journal, 50(5): 767-781.
[44] Tabata R, Ikezaki M, Fujibe T, et al.2010. Arabidopsis auxin response factor 6 and 8 regulate jasmonic acid biosyn thesis and floral organ development via repression of class 1 KNOX genes[J]. Plant and Cell Physiology, 51(1): 164-75.
[45] Tsuda K, Hake S.2015. Diverse functions of KNOX transcription factors in the diploid body plan of plants[J]. Current Opinion in Plant Biology, 27: 91-96.
[46] Vinh L B, Heo M, Phong N V, et al.2020. Bioactive Compounds from Polygala tenuifolia and their inhibitory effects on lipopolysaccharide-stimulated pro-inflammatory cytokine production in bone marrow-derived dendritic cells[J]. Plants, 9(9): 1240.
[47] Wang C C, Yen J H, Cheng Y C, et al.2017. Polygala tenuifolia extract inhibits lipid accumulation in 3T3-L1 adipocytes and high-fat diet-induced obese mouse model and affects hepatic transcriptome and gut microbiota profiles[J]. Food & Nutrition Research, 61(1): 1379861.
[48] Wang S, Yamaguchi M, Grienenberger E, et al.2019.The Class Ⅱ KNOX genes KNAT3 and KNAT7 work cooperatively to influence deposition of secondary cell walls that provide mechanical support to Arabidopsis stems[J]. The Plant Journal, 101(2): 293-309.
[49] Williams R W.1998.Plant homeobox genes: Many functions stem from a common motif[J]. Bioessays, 20: 280-282.
[50] Xie J, Chen Y, Cai G, et al.2023.Tree visualization by one table (tvBOT): A web application for visualizing, modifying and annotating phylogenetic trees[J]. Nucleic Acids Research, (W1): W587-W592.
[51] Yanai O, Shani E, Dolezal K, et al.2005. Arabidopsis KNOXI proteins activate cytokinin biosynthesis[J]. Current Biology, 15(17): 1566-1571.
[52] Zhang S, Pan Y, Zhi C, et al.2021. Genome-wide identification and characterization of KNOTTED-like homeobox (KNOX) homologs in garlic (Allium sativum L.) and their expression profilings responding to exogenous cytokinin and gibberellin[J]. International Journal of Molecular Sciences, 22(17): 9237.