[1] 刘旭, 黎裕, 李立会, 贾继增. 作物种质资源学理论框架与发展战略. 植物遗传资源学报, 2023, 24: 1–10.

Liu X, Li Y, Li L H, Jia J Z. Theoretical framework and development strategy for the science of crop germplasm resources. J Plant Genet Resour, 2023, 24: 1–10 (in Chinese with English abstract).

[2] Khush G S. Green revolution: the way forward. Nat Rev Genet, 2001, 2: 815–822.

[3] 王海岗, 温琪汾, 穆志新, 乔治军. 山西谷子核心资源群体结构及主要农艺性状关联分析. 中国农业科学, 2019, 52: 4088–4099.

Wang H G, Wen Q F, Mu Z X, Qiao Z J. Population structure and association analysis of main agronomic traits of Shanxi core collection in foxtail millet. Sci Agric Sin, 2019, 52: 4088–4099 (in Chinese with English abstract).

[4] Yang Z R, Zhang H S, Li X K, Shen H M, Gao J H, Hou S Y, Zhang B, Mayes S, Bennett M, Ma J X, Wu C Y, Sui Y, Han Y H, Wang X C. A mini foxtail millet with an Arabidopsis-like life cycle as a C₄ model system. Nat Plants, 2020, 6: 1167–1178.

[5] Diao X M, James S, Jeffrey L B, Li J Y. Initiation of Setaria as a model plant. Front Agr Sci Eng, 2014, 1: 16.

[6] Doust A N, Kellogg E A, Devos K M, Bennetzen J L. Foxtail millet: a sequence-driven grass model system. Plant Physiol, 2009, 149: 137–141.

[7] Li P H, Brutnell T P. Setaria viridis and Setaria italica, model genetic systems for the Panicoid grasses. J Exp Bot, 2011, 62: 3031–3037.

[8] Hu H, Mauro-Herrera M, Doust A N. Domestication and improvement in the model C₄ grass, Setaria. Front Plant Sci, 2018, 9: 719.

[9] Tian B H, Wang J G, Zhang L X, Li Y J, Wang S Y, Li H J. Assessment of resistance to lodging of landrace and improved cultivars in foxtail millet. Euphytica, 2010, 172: 295–302.

[10] Tian B H, Luan S R, Zhang L X, Liu Y L, Zhang L, Li H J. Penalties in yield and yield associated traits caused by stem lodging at different developmental stages in summer and spring foxtail millet cultivars. Field Crops Res, 2018, 217: 104–112.

[11] Ueguchi T M, Fujisawa Y, Kobayashi M, Ashikari M, Iwasaki Y, Kitano H, Matsuoka M. Rice dwarf mutant d1, which is defective in the alpha subunit of the heterotrimeric G protein, affects gibberellin signal transduction. Proc Natl Acad Sci USA, 2000, 97: 11638–11643.

[12] Sasaki A, Itoh H, Gomi K, Ueguchi T M, Ishiyama K, Kobayashi M, Jeong D H, An G, Kitano H, Ashikari M, Matsuoka M. Accumulation of phosphorylated repressor for gibberellin signaling in an F-box mutant. Science, 2003, 299: 1896–1898.

[13] Itoh H, Tatsumi T, Sakamoto T, Otomo K, Toyomasu T, Kitano H, Ashikari M, Ichihara S, Matsuoka M. A rice semi-dwarf gene, Tan-Ginbozu (D35), encodes the gibberellin biosynthesis enzyme, ent-kaurene oxidase. Plant Mol Biol, 2004, 54: 533–547.

[14] Lin H, Wang R X, Qian Q, Yan M X, Meng X B, Fu Z M, Yan C Y, Jiang B, Su Z, Li J Y, Wang Y H. DWARF27, an iron-containing protein required for the biosynthesis of strigolactones, regulates rice tiller bud outgrowth. Plant Cell, 2009, 21: 1512–1525.

[15] Ferrero-Serrano Á, Cantos C, Assmann S M. The role of dwarfing traits in historical and modern agriculture with a focus on rice. Cold Spring Harb Biol, 2019, 11: a034645.

[16] Zegeye W A, Chen D B, Islam M, Wang H, Riaz A, Rani M H, Hussain K, Liu Q N, Zhan X D, Cheng S H, Cao L Y, Zhang Y X. OsFBK4, a novel GA insensitive gene positively regulates plant height in rice (Oryza Sativa L.). Ecol Genet Genom, 2022, 23: 100115.

[17] Liu T Z, Zhang X, Zhang H, Cheng Z J, Liu J, Zhou C L, Luo S, Luo W F, Li S, Xing X X, Chang Y Q, Shi C L, Ren Y L, Zhu S S, Lei C L, Guo X P, Wang J, Zhao Z C, Wang H Y, Zhai H Q, Lin Q B, Wan J M. Dwarf and high tillering1 represses rice tillering through mediating the splicing of D14 pre-mRNA. Plant Cell, 2022, 34: 3301–3318.

[18] Hill W G. Understanding and using quantitative genetic variation. Philos Trans R Soc Lond B Biol Sci, 2010, 365: 73–85.

[19] El-Soda M, Malosetti M, Zwaan B J, Koornneef M, Aarts M G M. Genotype×environment interaction QTL mapping in plants: lessons from Arabidopsis. Trends Plant Sci, 2014, 19: 390–398.

[20] Hong Z, Ueguchi-Tanaka M, Umemura K, Uozu S, Fujioka S, Takatsuto S, Yoshida S, Ashikari M, Kitano H, Matsuoka M. A rice brassinosteroid-deficient mutant, ebisu dwarf (d2), is caused by a loss of function of a new member of cytochrome P450. Plant Cell, 2003, 15: 2900–2910.

[21] Yamamuro C, Ihara Y, Wu X, Noguchi T, Fujioka S, Takatsuto S, Ashikari M, Kitano H, Matsuoka M. Loss of function of a rice brassinosteroid insensitive1 homolog prevents internode elongation and bending of the Lamina joint. Plant Cell, 2000, 12: 1591–1606.

[22] Multani D S, Briggs S P, Chamberlin M A, Blakeslee J J, Murphy A S, Johal G S. Loss of an MDR transporter in compact stalks of maize Br2 and sorghum dw3 mutants. Science, 2003, 302: 81–84.

[23] Liu F, Wang P D, Zhang X B, Li X F, Yan X H, Fu D H, Wu G. The genetic and molecular basis of crop height based on a rice model. Planta, 2018, 247: 1–26.

[24] Diao X, Jia G. Genetics and Genomics of Setaria. Cham: Springer International Publishing, 2017. pp 93–113.

[25] Zhu M Y, He Q, Lyu M J, Shi T T, Gao Q, Zhi H, Wang H, Jia G Q, Tang S, Cheng X L, Wang R, Xu A D, Wang H G, Qiao Z J, Liu J, Diao X M, Gao Y. Integrated genomic and transcriptomic analysis reveals genes associated with plant height of foxtail millet. Crop J, 2023, 11: 593–604.

[26] Zhao M C, Zhi H, Zhang X, Jia G Q, Diao X M. Retrotransposon-mediated DELLA transcriptional reprograming underlies semi-dominant dwarfism in foxtail millet. Crop J, 2019, 7: 458–468.

[27] Xue C X, Zhi H, Fang X J, Liu X T, Tang S, Chai Y, Zhao B H, Jia G Q, Diao X M. Characterization and fine mapping of SiDWARF2 (D2) in foxtail millet. Crop Sci, 2016, 56: 95–103.

[28] Dineshkumar S P, Shashidhar V R, Ravikumar R L, Seetharam A, Gowda B T S. Indentification of true genetic dwarfing sources in foxtail millet (Setaria italica Beauv.). Euphytica, 1992, 60: 207–212.

[29] Qian J Y, Jia G Q, Zhi H, Li W, Wang Y F, Li H Q, Shang Z L, Doust A N, Diao X. Sensitivity to gibberellin of dwarf foxtail millet varieties. Crop Sci, 2012, 52: 1068–1075.

[30] Fan X K, Tang S, Zhi H, He M M, Ma W S, Jia Y C, Zhao B H, Jia G Q, Diao X M. Identification and fine mapping of SiDWARF3 (D3), a pleiotropic locus controlling environment-independent dwarfism in foxtail millet. Crop Sci, 2017, 57: 2431–2442.

[31] He Q, Zhi H, Tang S, Xing L, Wang S Y, Wang H G, Zhang A Y, Li Y H, Gao M, Zhang H J, Chen G Q, Dai S T, Li J X, Yang J J, Liu H F, Zhang W, Jia Y C, Li S J, Liu J R, Qiao Z J, Guo E H, Jia G Q, Liu J, Diao X M. QTL mapping for foxtail millet plant height in multi-environment using an ultra-high density bin map. Theor Appl Genet, 2021, 134: 557–572.

[32] 陆平. 谷子种质资源描述规范和数据标准. 北京: 中国农业出版社, 2006.

Lu P. Resource Description Specification and Date Standard of Foxtail Millet Germplasm. Beijing: China Agriculture Press, 2006 (in Chinese with English abstract).

[33] Knapp S J, Stroup W W, Ross W M. Exact confidence intervals for heritability on a progeny mean Basis1. Crop Sci, 1985, 25: 192–194.

[34] Zhang G Y, Liu X, Quan Z W, Cheng S F, Xu X, Pan S K, Xie M, Zeng P, Yue Z, Wang W L, Tao Y, Bian C, Han C L, Xia Q J, Peng X H, Cao R, Yang X H, Zhan D L, Hu J C, Zhang Y X, Li H N, Li H, Li N, Wang J Y, Wang C C, Wang R Y, Guo T, Cai Y J, Liu C Z, Xiang H T, Shi Q X, Huang P, Chen Q C, Li Y R, Wang J, Zhao Z H, Wang J. Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential. Nat Biotechnol, 2012, 30: 549–554.

[35] Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira M A R, Bender D, Maller J, Sklar P, de Bakker P I W, Daly M J, Sham P C. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet, 2007, 81: 559–575.

[36] 翟俊鹏, 李海霞, 毕惠惠, 周思远, 罗肖艳, 陈树林, 程西永, 许海霞. 普通小麦主要农艺性状的全基因组关联分析. 作物学报, 2019, 45: 1488–1502.

Zhai J P, Li H X, Bi H H, Zhou S Y, Luo X Y, Chen S L, Cheng X Y, Xu H X. Genome-wide association study for main agronomic traits in common wheat. Acta Agron Sin, 2019, 45: 1488–1502 (in Chinese with English abstract).

[37] 谢磊, 任毅, 张新忠, 王继庆, 张志辉, 石书兵, 耿洪伟. 小麦穗发芽性状的全基因组关联分析. 作物学报, 2021, 47: 1891–1902.

Xie L, Ren Y, Zhang X Z, Wang J Q, Zhang Z H, Shi S B, Geng H W. Genome-wide association study of pre-harvest sprouting traits in wheat. Acta Agron Sin, 2021, 47: 1891–1902 (in Chinese with English abstract).

[38] Armstrong R A. When to use the bonferroni correction. Ophthalmic Physiol Opt, 2014, 34: 502–508.

[39] Fang C, Ma Y M, Wu S W, Liu Z, Wang Z, Yang R, Hu G H, Zhou Z K, Yu H, Zhang M, Pan Y, Zhou G A, Ren H X, Du W G, Yan H R, Wang Y P, Han D Z, Shen Y T, Liu S L, Liu T F, Zhang J X, Qin H, Yuan J, Yuan X H, Kong F J, Liu B H, Li J Y, Zhang Z W, Wang G D, Zhu B G, Tian Z X. Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean. Genome Biol, 2017, 18: 161.

[40] He Q, Wang C C, He Q, Zhang J, Liang H K, Lu Z F, Xie K, Tang S, Zhou Y H, Liu B, Zhi H, Jia G Q, Guo G G, Du H L, Diao X M. A complete reference genome assembly for foxtail millet and setaria-db, a comprehensive database for setaria. Mol Plant, 2024, 17: 219–222.

[41] Zhang R L, Jia G Q, Diao X M. GeneHapR: an R package for gene haplotypic statistics and visualization. BMC Bioinf, 2023, 24: 199.

[42] Chen H G, Zeng X L, Yang J, Cai X, Shi Y M, Zheng R R, Wang Z Q, Liu J Y, Yi X X, Xiao S W, Fu Q, Zou J J, Wang C Y. Whole-genome resequencing of osmanthus fragrans provides insights into flower color evolution. Hortic Res, 2021, 8: 98.

[43] 刁现民, 王立伟, 智慧, 张俊, 李顺国, 程汝宏. 谷子中矮秆资源创制、遗传解析和育种利用. 作物学报, 2024, 50: 265–279.

Diao X M, Wang L W, Zhi H, Zhang J, Li S G, Cheng R H. Development, genetic deciphering, and breeding utilization of dwarf lines in foxtail millet. Acta Agron Sin, 2024, 50: 265–279 (in Chinese with English abstract).

[44] Beavis W D, Grant D, Albertsen M, Fincher R. Quantitative trait loci for plant height in four maize populations and their associations with qualitative genetic loci. Theor Appl Genet, 1991, 83: 141–145.

[45] Vanous A, Gardner C, Blanco M, Martin-Schwarze A, Lipka A E, Flint-Garcia S, Bohn M, Edwards J, Lübberstedt T. Association mapping of flowering and height traits in germplasm enhancement of maize doubled haploid (GEM-DH) lines. Plant Genome, 2018, 11: 170083

[46] Wang B B, Liu H, Liu Z P, Dong X M, Guo J J, Li W, Chen J, Gao C, Zhu Y B, Zheng X M, Chen Z L, Chen J, Song W B, Hauck A, Lai J S. Identification of minor effect QTLs for plant architecture related traits using super high density genotyping and large recombinant inbred population in maize (Zea mays). BMC Plant Biol, 2018, 18: 17.

[47] Zhao Y, Wang H S, Bo C, Dai W, Zhang X G, Cai R H, Gu L J, Ma Q, Jiang H Y, Zhu J, Cheng B J. Genome-wide association study of maize plant architecture using F₁ populations. Plant Mol Biol, 2019, 99: 1–15.

[48] 杨小红, 严建兵, 郑艳萍, 余建明, 李建生. 植物数量性状关联分析研究进展. 作物学报, 2007, 33: 523–530.

Yang X H, Yan J B, Zheng Y P, Yu J M, Li J S. Reviews of association analysis for quantitative traits in plants. Acta Agron Sin, 2007, 33: 523–530 (in Chinese with English abstract).

[49] Zhi H, He Q, Tang S, Yang J J, Zhang W, Liu H F, Jia Y C, Jia G Q, Zhang A Y, Li Y H, Guo E H, Gao M, Li S J, Li J X, Qin N, Zhu C C, Ma C Y, Zhang H J, Chen G Q, Zhang W F, Wang H G, Qiao Z J, Li S G, Cheng R H, Xing L, Wang S Y, Liu J, Liu J R, Diao X M. Genetic control and phenotypic characterization of panicle architecture and grain yield-related traits in foxtail millet (Setaria italica). Theor Appl Genet, 2021, 134: 3023–3036.

[50] Zhang K, Fan G Y, Zhang X X, Zhao F, Wei W, Du G H, Feng X L, Wang X M, Wang F, Song G L, Zou H F, Zhang X L, Li S D, Ni X M, Zhang G Y, Zhao Z H. Identification of QTLs for 14 agronomically important traits in Setaria italica based on SNPs generated from high-throughput sequencing. G3 (Bethesda), 2017, 7: 1587–1594.

[51] Feldman M J, Paul R E, Banan D, Barrett J F, Sebastian J, Yee M C, Jiang H, Lipka A E, Brutnell T P, Dinneny J R, Leakey A D B, Baxter I. Time dependent genetic analysis links field and controlled environment phenotypes in the model C4 grass Setaria. PLoS Genet, 2017, 13: e1006841.

[52] Peng S S, Liu Y C, Xu Y C, Zhao J H, Gao P, Liu Q, Yan S Y, Xiao Y H, Zuo S M, Kang H X. Genome-Wide association study identifies a plant-height-associated gene OsPG3 in a population of commercial rice varieties. Int J Mol Sci, 2023, 24: 11454.

[53] LeClere S, Tellez R, Rampey R A, Matsuda S P T, Bartel B. Characterization of a family of IAA-amino acid conjugate hydrolases from Arabidopsis. J Biol Chem, 2002, 277: 20446–20452.

[54] Xing A Q, Gao Y F, Ye L F, Zhang W P, Cai L C, Ching A, Llaca V, Johnson B, Liu L, Yang X H, Kang D M, Yan J B, Li J S. A rare SNP mutation in brachytic2 moderately reduces plant height and increases yield potential in maize. J Exp Bot, 2015, 66: 3791–3802.

[55] Della Rovere F, Airoldi C A, Falasca G, Ghiani A, Fattorini L, Citterio S, Kater M, Altamura M M. The Arabidopsis BET bromodomain factor GTE4 regulates the mitotic cell cycle. Plant Signal Behav, 2010, 5: 677–680.

[56] Airoldi C A, Rovere F D, Falasca G, Marino G, Kooiker M, Altamura M M, Citterio S, Kater M M. The Arabidopsis BET bromodomain factor GTE4 is involved in maintenance of the mitotic cell cycle during plant development. Plant Physiol, 2010, 152: 1320–1334.

[57] Li Y H, Yang Y Q, Liu Y, Li D X, Zhao Y H, Li Z J, Liu Y, Jiang D G, Li J, Zhou H, Chen J H, Zhuang C H, Liu Z L. Overexpression of OsAGO1b Induces adaxially rolled leaves by affecting leaf abaxial sclerenchymatous cell development in rice. Rice, 2019, 12: 60.

[58] Hu Y, Song S, Weng X Y, You A Q, Xing Y Z. The heading-date gene Ghd7 inhibits seed germination by modulating the balance between abscisic acid and gibberellins. Crop J, 2021, 9: 297–304.

[59] Zong W B, Ren D, Huang M H, Sun K L, Feng J L, Zhao J, Xiao D D, Xie W H, Liu S Q, Zhang H, Qiu R, Tang W J, Yang R Q, Chen H Y, Xie X R, Chen L T, Liu Y G, Guo J X. Strong photoperiod sensitivity is controlled by cooperation and competition among Hd1, Ghd7 and DTH8 in rice heading. New Phytol, 2021, 229: 1635–1649.

[60] Xue W Y, Xing Y Z, Weng X Y, Zhao Y, Tang W J, Wang L, Zhou H J, Yu S B, Xu C G, Li X H, Zhang Q F. Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice. Nat Genet, 2008, 40: 761–767.

[61] Wu L W, Ren D Y, Hu S K, Li G M, Dong G J, Jiang L, Hu X M, Ye W J, Cui Y T, Zhu L, Hu J, Zhang G H, Gao Z Y, Zeng D L, Qian Q, Guo L B. Down-regulation of a nicotinate phosphoribosyl transferase gene, OsNaPRT1, leads to withered leaf tips. Plant Physiol, 2016, 171: 1085–1098.

[62] Wang D F, Qin Y L, Fang J J, Yuan S J, Peng L X, Zhao J F, Li X Y. A missense mutation in the zinc finger domain of OsCESA7 deleteriously affects cellulose biosynthesis and plant growth in rice. PLoS One, 2016, 11: e0153993.

[63] 陈玲玲, 刘亭萱, 谷勇哲, 宋健, 王俊, 邱丽娟. 大豆叶柄夹角相关基因GmILPA1单倍型分析. 植物遗传资源学报, 2021, 22: 1698–1707.

Chen L L, Liu T X, Gu Y Z, Song J, Wang J, Qiu L J. Haplotype analysis of petiole angle related gene GmILPAl in soybean. J Plant Genet Resour, 2021, 22: 1698–1707 (in Chinese with English abstract).

[64] Sanchez Carranza A P, Singh A, Steinberger K, Panigrahi K, Palme K, Dovzhenko A, Dal Bosco C. Hydrolases of the ILR1-like family of Arabidopsis thaliana modulate auxin response by regulating auxin homeostasis in the endoplasmic reticulum. Sci Rep, 2016, 6: 24212.