Research Advance and Applications in Maize Wild Relatives Genomes

doi:10.13560/j.cnki.biotech.bull.1985.2023-1131

Abstract

Abstract:

Global change of climate has made great challenges to the crop productions and economical stabilities. The creation of adaptive species under the extreme environmental change is one of the primary goals in modern crop breeding process. As one of the most important crops in the world, maize have lost substantial genetic diversities during domestication, especially the loci that respond to the biotic and abiotic stress. Finding and utilizing the genetic diversity lost during maize domestication in wild species and landrace will provide new light for the creation of new adaptive varieties. In this review, we firstly introduce the discoveries and classification of teosinte（wild relatives of maize）, and then summarize the traits and genomic difference between teosinte and maize, the genetic mechanism of divergence of maize and teosinte basing on genetics, population genetics, molecular biology, revealing the importance of teosinte in the development of maize genetics from multiple perspectives. Finally, we prospect the key role of teosinte in maize future breeding process under climate changes.

Key words: climate change, maize, adaptability, wild species

HU Yi-wa, CHEN Lu. Research Advance and Applications in Maize Wild Relatives Genomes[J]. Biotechnology Bulletin, 2024, 40(3): 14-24.

Figures/Tables 2

References 137

[1]	Iltis HH, Doebley JF. Taxonomy of Zea(gramineae). ii. subspecific categories in the Zea mays complex and a generic synopsis[J]. American J Botany, 1980, 67(6): 994-1004. doi: 10.1002/ajb2.1980.67.issue-6 URL
[2]	Fukunaga K, Hill J, Vigouroux Y, et al. Genetic diversity and population structure of teosinte[J]. Genetics, 2005, 169(4): 2241-2254. pmid: 15687282
[3]	Wang P, Lu YL, Zheng MM, et al. RAPD and internal transcribed spacer sequence analyses reveal Zea nicaraguensis as a section Luxuriantes species close to Zea luxurians[J]. PLoS One, 2011, 6(4): e16728. doi: 10.1371/journal.pone.0016728 URL
[4]	Iltis HH, Doebley JF, M RG, et al. Zea diploperennis(gramineae): a new teosinte from Mexico[J]. Science, 1979, 203(4376): 186-188. pmid: 17834721
[5]	Poggio L, Gonzalez G, Confalonieri V, et al. The genome organization and diversification of maize and its allied species revisited: evidences from classical and FISH-GISH cytogenetic analysis[J]. Cytogenet Genome Res, 2005, 109(1-3): 259-267. pmid: 15753585
[6]	Ellneskog-Staam P, Henry Loaisiga C, Merker A. Chromosome C-banding of the teosinte Zea nicaraguensis and comparison to other Zea species[J]. Hereditas, 2007, 144(3): 96-101. pmid: 17663701
[7]	Sánchez González JJ, Ruiz Corral JA, García GM, et al. Ecogeography of teosinte[J]. PLoS One, 2018, 13(2): e0192676. doi: 10.1371/journal.pone.0192676 URL
[8]	Hufford MB, Bilinski P, Pyhäjärvi T, et al. Teosinte as a model system for population and ecological genomics[J]. Trends Genet, 2012, 28(12): 606-615. doi: 10.1016/j.tig.2012.08.004 pmid: 23021022
[9]	Mano Y, Nakazono M. Genetic regulation of root traits for soil flooding tolerance in genus Zea[J]. Breed Sci, 2021, 71(1): 30-39. doi: 10.1270/jsbbs.20117 URL
[10]	Rich PJ, Ejeta G. Towards effective resistance to Striga in African maize[J]. Plant Signal Behav, 2008, 3(9): 618-621. doi: 10.4161/psb.3.9.5750 URL
[11]	Beadle GW. Origin of corn: pollen evidence[J]. Science, 1981, 213(4510): 890-892. pmid: 17775274
[12]	Matsuoka Y, Vigouroux Y, Goodman MM, et al. A single domestication for maize shown by multilocus microsatellite genotyping[J]. Proc Natl Acad Sci USA, 2002, 99(9): 6080-6084. doi: 10.1073/pnas.052125199 pmid: 11983901
[13]	Piperno DR, Ranere AJ, Holst I, et al. Starch grain and phytolith evidence for early ninth millennium B.P. maize from the Central Balsas River Valley, Mexico[J]. Proc Natl Acad Sci USA, 2009, 106(13): 5019-5024. doi: 10.1073/pnas.0812525106 URL
[14]	Swanson-Wagner R, Briskine R, Schaefer R, et al. Reshaping of the maize transcriptome by domestication[J]. Proc Natl Acad Sci USA, 2012, 109(29): 11878-11883. doi: 10.1073/pnas.1201961109 pmid: 22753482
[15]	Li K, Wen WW, Alseekh S, et al. Large-scale metabolite quantitative trait locus analysis provides new insights for high-quality maize improvement[J]. Plant J, 2019, 99(2): 216-230. doi: 10.1111/tpj.2019.99.issue-2 URL
[16]	Xu GH, Cao JJ, Wang XF, et al. Evolutionary metabolomics identifies substantial metabolic divergence between maize and its wild ancestor, teosinte[J]. Plant Cell, 2019, 31(9): 1990-2009. doi: 10.1105/tpc.19.00111 URL
[17]	Flint-Garcia SA, Bodnar AL, Scott MP. Wide variability in kernel composition, seed characteristics, and zein profiles among diverse maize inbreds, landraces, and teosinte[J]. Theor Appl Genet, 2009, 119(6): 1129-1142. doi: 10.1007/s00122-009-1115-1 pmid: 19701625
[18]	Flint-Garcia SA. Genetics and consequences of crop domestication[J]. J Agric Food Chem, 2013, 61(35): 8267-8276. doi: 10.1021/jf305511d URL
[19]	Iltis HH. From teosinte to maize: the catastrophic sexual transmutation[J]. Science, 1983, 222(4626): 886-894. pmid: 17738466
[20]	Galinat WC. The origin of maize[J]. Annu Rev Genet, 1971, 5: 447-478. pmid: 16097663
[21]	Mangelsdorf PC, Reeves RG. Hybridization of maize, tripsacum, and euchlaena[J]. J Hered, 1931, 22(11): 329-343. doi: 10.1093/oxfordjournals.jhered.a103399 URL
[22]	Mangelsdorf PC, Robert GR. The origin of Indian corn and its relatives[J]. Agric Exp Sta BuI, 574: 1-315.
[23]	Mangelsdorf PC, Reeves RG. The origin of corn: I. pod corn, the ancestral form[J]. Bot Mus LeafI Harvard Univ, 1959, 18(7):329-356.
[24]	Mangelsdorf PC. Corn: its origin, evolution and improvement[J]. Science, 1974, 185(4152): 687-688. doi: 10.1126/science.185.4152.687 URL
[25]	Beadle GW. Studies ofEuchlaena and its hybrids with Zea[J]. ZVer-erbungslehre, 1932, 62(1): 291-304.
[26]	Beadle GW. The relation of crossing over to chromosome association in Zea-Euchlaena hybrids[J]. Genetics, 1932, 17(4): 481-501. doi: 10.1093/genetics/17.4.481 pmid: 17246663
[27]	Beadle GW. Teosinte and the origin of maize[J]. J Hered, 1939, 30(6): 245-247. doi: 10.1093/oxfordjournals.jhered.a104728 URL
[28]	Beadle GW. The mystery of maize[J]. Field Mus Nat History Bul, 1972, 43(10): 1-11.
[29]	Dennis ES, Peacock WJ. Knob heterochromatin homology in maize and its relatives[J]. J Mol Evol, 1984, 20(3-4): 341-350. pmid: 6439888
[30]	Benz BF. Archaeological evidence of teosinte domestication from Guilá Naquitz, Oaxaca[J]. Proc Natl Acad Sci USA, 2001, 98(4): 2104-2106. pmid: 11172083
[31]	Han YH, Li LJ, Song YC, et al. Physical mapping of the 5S and 45S rDNA in teosintes[J]. Hereditas, 2002, 137(1): 16-19. pmid: 12564628
[32]	Emerson RA., Beadle GW. Studies of Euchlaena and its hybrids with Zea. II. Crossing-over between the chromosomes of Euchlaena and those of Zea. Zeitscher[J]. Abstam Vererbungs I, 1932, 62: 291-304.
[33]	Baltazar BM, de Jesús Sánchez-Gonzalez J, de la Cruz-Larios L, et al. Pollination between maize and teosinte: an important determinant of gene flow in Mexico[J]. Theor Appl Genet, 2005, 110(3): 519-526. pmid: 15592808
[34]	Ellstrand NC, Garner LC, Hegde S, et al. Spontaneous hybridization between maize and teosinte[J]. J Hered, 2007, 98(2): 183-187. pmid: 17400586
[35]	Kistler L, Maezumi SY, Gregorio de Souza J, et al. Multiproxy evidence highlights a complex evolutionary legacy of maize in South America[J]. Science, 2018, 362(6420): 1309-1313. doi: 10.1126/science.aav0207 pmid: 30545889
[36]	van Heerwaarden J, Doebley J, Briggs WH, et al. Genetic signals of origin, spread, and introgression in a large sample of maize landraces[J]. Proc Natl Acad Sci USA, 2011, 108(3): 1088-1092. doi: 10.1073/pnas.1013011108 pmid: 21189301
[37]	Hufford MB, Lubinksy P, Pyhäjärvi T, et al. The genomic signature of crop-wild introgression in maize[J]. PLoS Genet, 2013, 9(5): e1003477. doi: 10.1371/journal.pgen.1003477 URL
[38]	Gonzalez-Segovia E, Pérez-Limon S, Cíntora-Martínez GC, et al. Characterization of introgression from the teosinte Zea mays ssp. mexicana to Mexican highland maize[J]. PeerJ, 2019, 7: e6815. doi: 10.7717/peerj.6815 URL
[39]	Calfee E, Gates D, Lorant A, et al. Selective sorting of ancestral introgression in maize and teosinte along an elevational cline[J]. PLoS Genet, 2021, 17(10): e1009810. doi: 10.1371/journal.pgen.1009810 URL
[40]	Yang N, Wang YB, Liu XG, et al. Two teosintes made modern maize[J]. Science, 2023, 382(6674): eadg8940. doi: 10.1126/science.adg8940 URL
[41]	Doebley JF, Goodman MM, Stuber CW. Isoenzymatic variation in Zea(gramineae)[J]. Syst Bot, 1984, 9(2): 203-218. doi: 10.2307/2418824 URL
[42]	Doebley J, Goodman MM, Stuber CW. Patterns of isozyme variation between maize and Mexican annual teosinte[J]. Econ Bot, 1987, 41(2): 234-246. doi: 10.1007/BF02858971 URL
[43]	Doebley J, Renfroe W, Blanton A. Restriction site variation in the Zea chloroplast genome[J]. Genetics, 1987, 117(1): 139-147. doi: 10.1093/genetics/117.1.139 pmid: 17246395
[44]	Chen L, Luo JY, Jin ML, et al. Genome sequencing reveals evidence of adaptive variation in the genus Zea[J]. Nat Genet, 2022, 54(11): 1736-1745. doi: 10.1038/s41588-022-01184-y pmid: 36266506
[45]	Galinat WC. The origin of maize as shown by key morphological traits of its ancestor, teosinte[J]. Maydica, 1983, 28: 121-138.
[46]	Doebley J. The genetics of maize evolution[J]. Annu Rev Genet, 2004, 38: 37-59. pmid: 15568971
[47]	Liu J, Fernie AR, Yan JB. The past, present, and future of maize improvement: domestication, genomics, and functional genomic routes toward crop enhancement[J]. Plant Commun, 2019, 1(1): 100010. doi: 10.1016/j.xplc.2019.100010 URL
[48]	Burton AL, Brown KM, Lynch JP. Phenotypic diversity of root anatomical and architectural traits in Zea species[J]. Crop Sci, 2013, 53(3): 1042-1055. doi: 10.2135/cropsci2012.07.0440 URL
[49]	Perkins AC, Lynch JP. Increased seminal root number associated with domestication improves nitrogen and phosphorus acquisition in maize seedlings[J]. Ann Bot, 2021, 128(4): 453-468. doi: 10.1093/aob/mcab074 URL
[50]	Brisson VL, Schmidt JE, Northen TR, et al. Impacts of maize domestication and breeding on rhizosphere microbial community recruitment from a nutrient depleted agricultural soil[J]. Sci Rep, 2019, 9(1): 15611. doi: 10.1038/s41598-019-52148-y pmid: 31666614
[51]	Munkacsi AB, Stoxen S, May G. Ustilago maydis populations tracked maize through domestication and cultivation in the Americas[J]. Proc Biol Sci, 2008, 275(1638): 1037-1046.
[52]	Johnston-Monje D, Raizada MN. Conservation and diversity of seed associated endophytes in Zea across boundaries of evolution, ethnography and ecology[J]. PLoS One, 2011, 6(6): e20396. doi: 10.1371/journal.pone.0020396 URL
[53]	Rasmann S, Köllner TG, Degenhardt J, et al. Recruitment of entomopathogenic nematodes by insect-damaged maize roots[J]. Nature, 2005, 434(7034): 732-737. doi: 10.1038/nature03451
[54]	Saxena RK, Edwards D, Varshney RK. Structural variations in plant genomes[J]. Brief Funct Genomics, 2014, 13(4): 296-307. doi: 10.1093/bfgp/elu016 pmid: 24907366
[55]	Ashe A, Colot V, Oldroyd BP. How does epigenetics influence the course of evolution?[J]. Philos Trans R Soc Lond B Biol Sci, 2021, 376(1826): 20200111. doi: 10.1098/rstb.2020.0111 URL
[56]	Lamka GF, Harder AM, Sundaram M, et al. Epigenetics in ecology, evolution, and conservation[J]. Front Ecol Evol, 2022, 10: 871791. doi: 10.3389/fevo.2022.871791 URL
[57]	Tenaillon MI, Hollister JD, Gaut BS. A triptych of the evolution of plant transposable elements[J]. Trends Plant Sci, 2010, 15(8): 471-478. doi: 10.1016/j.tplants.2010.05.003 pmid: 20541961
[58]	Lisch D. How important are transposons for plant evolution?[J]. Nat Rev Genet, 2013, 14(1): 49-61. doi: 10.1038/nrg3374 pmid: 23247435
[59]	Schnable PS, Ware D, Fulton RS, et al. The B73 maize genome: complexity, diversity, and dynamics[J]. Science, 2009, 326(5956): 1112-1115. doi: 10.1126/science.1178534 pmid: 19965430
[60]	Jiao YP, Peluso P, Shi JH, et al. Improved maize reference genome with single-molecule technologies[J]. Nature, 2017, 546(7659): 524-527. doi: 10.1038/nature22971 URL
[61]	Díez CM, Gaut BS, Meca E, et al. Genome size variation in wild and cultivated maize along altitudinal gradients[J]. New Phytol, 2013, 199(1): 264-276. doi: 10.1111/nph.12247 pmid: 23550586
[62]	Bilinski P, Albert PS, Berg JJ, et al. Parallel altitudinal clines reveal trends in adaptive evolution of genome size in Zea mays[J]. PLoS Genet, 2018, 14(5): e1007162. doi: 10.1371/journal.pgen.1007162 URL
[63]	Studer A, Zhao Q, Ross-Ibarra J, et al. Identification of a functional transposon insertion in the maize domestication gene Tb1[J]. Nat Genet, 2011, 43(11): 1160-1163. doi: 10.1038/ng.942 pmid: 21946354
[64]	Huang C, Sun HY, Xu DY, et al. ZmCCT9 enhances maize adaptation to higher latitudes[J]. Proc Natl Acad Sci USA, 2018, 115(2): E334-E341.
[65]	Aledo R, Raz R, Monfort A, et al. Chromosome localization and characterization of a family of long interspersed repetitive DNA elements from the genus Zea[J]. Theor Appl Genet, 1995, 90(7-8): 1094-1100. doi: 10.1007/BF00222927 pmid: 24173068
[66]	Hartings H, Lazzaroni N, Rossi V, et al. Distribution of sequences related to the Bg transposable element of maize in Zea and related Genera[J]. Theor Appl Genet, 1996, 92(6): 696-701. doi: 10.1007/BF00226091 pmid: 24166393
[67]	Ramekar RV, Park KC, Sa KJ, et al. Mutator-based transposon display: a genetic tool for evolutionary and crop-improvement studies in maize[J]. Mol Biotechnol, 2018, 60(11): 799-809. doi: 10.1007/s12033-018-0118-z pmid: 30178297
[68]	Zhang XB, Qi YW. The landscape of Copia and Gypsy retrotransposon during maize domestication and improvement[J]. Front Plant Sci, 2019, 10: 1533. doi: 10.3389/fpls.2019.01533 URL
[69]	Xu G, Lyu J, Li Q, et al. Evolutionary and functional genomics of DNA methylation in maize domestication and improvement[J]. Nat Commun, 2020, 11(1): 5539. doi: 10.1038/s41467-020-19333-4 pmid: 33139747
[70]	O'Mara JG. A cytogenetic study of Zea and Euchlaena[J]. Biology, 1942: 90227628.
[71]	Ting YC. Inversions and other characteristics of teosinte chromosomes[J]. CYTOLOGIA, 1958, 23(3): 239-250. doi: 10.1508/cytologia.23.239 URL
[72]	O'Mara JG. Chromosomes of maize-teosinte hybrids[D]. Cambridge: Bussey Inst Harvard Univ, 1964, 45.
[73]	Fang Z, Pyhäjärvi T, Weber AL, et al. Megabase-scale inversion polymorphism in the wild ancestor of maize[J]. Genetics, 2012, 191(3): 883-894. doi: 10.1534/genetics.112.138578 pmid: 22542971
[74]	Pyhäjärvi T, Hufford MB, Mezmouk S, et al. Complex patterns of local adaptation in teosinte[J]. Genome Biol Evol, 2013, 5(9): 1594-1609. doi: 10.1093/gbe/evt109 pmid: 23902747
[75]	Huang J, Gao YJ, Jia HT, et al. Characterization of the teosinte transcriptome reveals adaptive sequence divergence during maize domestication[J]. Mol Ecol Resour, 2016, 16(6): 1465-1477. doi: 10.1111/1755-0998.12526 pmid: 26990495
[76]	Han LQ, Mu ZN, Luo Z, et al. New lncRNA annotation reveals extensive functional divergence of the transcriptome in maize[J]. J Integr Plant Biol, 2019, 61(4): 394-405. doi: 10.1111/jipb.12708
[77]	Sepúlveda-García EB, Pulido-Barajas JF, Huerta-Heredia AA, et al. Differential expression of maize and teosinte microRNAs under submergence, drought, and alternated stress[J]. Plants, 2020, 9(10): 1367. doi: 10.3390/plants9101367 URL
[78]	Lemmon ZH, Bukowski R, Sun Q, et al. The role of cis regulatory evolution in maize domestication[J]. PLoS Genet, 2014, 10(11): e1004745. doi: 10.1371/journal.pgen.1004745 URL
[79]	Lorant A, Pedersen S, Holst I, et al. The potential role of genetic assimilation during maize domestication[J]. PLoS One, 2017, 12(9): e0184202. doi: 10.1371/journal.pone.0184202 URL
[80]	Beadle GW. The ancestry of corn[J]. Sci Am, 1980, 242(1): 112-119. doi: 10.1038/scientificamerican0180-112 URL
[81]	Szabó VM, Burr B. Simple inheritance of key traits distinguishing maize and teosinte[J]. Mol Gen Genet, 1996, 252(1/2): 33-41. doi: 10.1007/BF02173202 URL
[82]	Westerbergh A, Doebley J. Morphological traits defining species differences in wild relatives of maize are controlled by multiple quantitative trait loci[J]. Evolution, 2002, 56(2): 273-283. pmid: 11926495
[83]	Doebley J, Stec A. Inheritance of the morphological differences between maize and teosinte: comparison of results for two F₂ populations[J]. Genetics, 1993, 134(2): 559-570. doi: 10.1093/genetics/134.2.559 pmid: 8325489
[84]	Doebley J, Stec A. Genetic analysis of the morphological differences between maize and teosinte[J]. Genetics, 1991, 129(1): 285-295. doi: 10.1093/genetics/129.1.285 pmid: 1682215
[85]	Briggs WH, McMullen MD, Gaut BS, et al. Linkage mapping of domestication loci in a large maize teosinte backcross resource[J]. Genetics, 2007, 177(3): 1915-1928. doi: 10.1534/genetics.107.076497 pmid: 17947434
[86]	Lin ZL, Zhou LN, Zhong SY, et al. A gene regulatory network for tiller development mediated by Tin8 in maize[J]. J Exp Bot, 2022, 73(1): 110-122. doi: 10.1093/jxb/erab399 URL
[87]	Wang QJ, Liao ZQ, Zhu CT, et al. Teosinte confers specific alleles and yield potential to maize improvement[J]. Theor Appl Genet, 2022, 135(10): 3545-3562. doi: 10.1007/s00122-022-04199-5 pmid: 36121453
[88]	Chen QY, Yang CJ, York AM, et al. TeoNAM: a nested association mapping population for domestication and agronomic trait analysis in maize[J]. Genetics, 2019, 213(3): 1065-1078. doi: 10.1534/genetics.119.302594 pmid: 31481533
[89]	Zhang ZH, Zhang X, Lin ZL, et al. The genetic architecture of nodal root number in maize[J]. Plant J, 2018, 93(6): 1032-1044. doi: 10.1111/tpj.2018.93.issue-6 URL
[90]	Huang C, Chen QY, Xu GH, et al. Identification and fine mapping of quantitative trait loci for the number of vascular bundle in maize stem[J]. J Integr Plant Biol, 2016, 58(1): 81-90. doi: 10.1111/jipb.12358
[91]	Li D, Wang XF, Zhang XB, et al. The genetic architecture of leaf number and its genetic relationship to flowering time in maize[J]. New Phytol, 2016, 210(1): 256-268. doi: 10.1111/nph.13765 pmid: 26593156
[92]	Tang HJ, Zhang RY, Wang M, et al. QTL mapping for flowering time in a maize-teosinte population under well-watered and water-stressed conditions[J]. Mol Breed, 2023, 43(9): 67. doi: 10.1007/s11032-023-01413-0
[93]	Xu GH, Wang XF, Huang C, et al. Complex genetic architecture underlies maize tassel domestication[J]. New Phytol, 2017, 214(2): 852-864. doi: 10.1111/nph.14400 pmid: 28067953
[94]	Chen ZJ, Hu K, Yin Y, et al. Identification of a major QTL and genome-wide epistatic interactions for single vs. paired spikelets in a maize-teosinte F₂ population[J]. Mol Breed, 2022, 42(2): 9. doi: 10.1007/s11032-022-01276-x
[95]	Chen ZJ, Tang DG, Hu K, et al. Combining QTL-seq and linkage mapping to uncover the genetic basis of single vs. paired spikelets in the advanced populations of two-ranked maize × teosinte[J]. BMC Plant Biol, 2021, 21(1): 572. doi: 10.1186/s12870-021-03353-3
[96]	Zhang XL, Lu M, Xia AA, et al. Genetic analysis of three maize husk traits by QTL mapping in a maize-teosinte population[J]. BMC Genomics, 2021, 22(1): 386. doi: 10.1186/s12864-021-07723-x pmid: 34034669
[97]	Lauter N, Gustus C, Westerbergh A, et al. The inheritance and evolution of leaf pigmentation and pubescence in teosinte[J]. Genetics, 2004, 167(4): 1949-1959. doi: 10.1534/genetics.104.026997 pmid: 15342532
[98]	Karn A, Gillman JD, Flint-Garcia SA. Genetic analysis of teosinte alleles for kernel composition traits in maize[J]. G3, 2017, 7(4): 1157-1164. doi: 10.1534/g3.117.039529 URL
[99]	Liu ZB, Garcia A, McMullen MD, et al. Genetic analysis of kernel traits in maize-teosinte introgression populations[J]. G3, 2016, 6(8): 2523-2530. doi: 10.1534/g3.116.030155 URL
[100]	Liu ZB, Cook J, Melia-Hancock S, et al. Expanding maize genetic resources with predomestication alleles: maize-teosinte introgression populations[J]. Plant Genome, 2016, 9(1):1-11.
[101]	Wang KL, Zhang Z, Sha XQ, et al. Identification of a new QTL underlying seminal root number in a maize-teosinte population[J]. Front Plant Sci, 2023, 14: 1132017. doi: 10.3389/fpls.2023.1132017 URL
[102]	Chen Z, Sun JL, Li DD, et al. Plasticity of root anatomy during domestication of a maize-teosinte derived population[J]. J Exp Bot, 2022, 73(1): 139-153. doi: 10.1093/jxb/erab406 URL
[103]	Watanabe K, Takahashi H, Sato S, et al. A major locus involved in the formation of the radial oxygen loss barrier in adventitious roots of teosinte Zea nicaraguensis is located on the short-arm of chromosome 3[J]. Plant Cell Environ, 2017, 40(2): 304-316. doi: 10.1111/pce.v40.2 URL
[104]	Mano Y, Omori F. Flooding tolerance in interspecific introgression lines containing chromosome segments from teosinte(Zea nicaraguensis)in maize(Zea mays subsp. mays)[J]. Ann Bot, 2013, 112(6): 1125-1139. doi: 10.1093/aob/mct160 URL
[105]	Gong FP, Takahashi H, Omori F, et al. QTLs for constitutive aerenchyma from Zea nicaraguensis improve tolerance of maize to root-zone oxygen deficiency[J]. J Exp Bot, 2019, 70(21): 6475-6487. doi: 10.1093/jxb/erz403 URL
[106]	Ma AJ, Qiu YJ, Raihan T, et al. The genetics and genome-wide screening of regrowth loci, a key component of perennialism in Zea diploperennis[J]. G3, 2019, 9(5): 1393-1403. doi: 10.1534/g3.118.200977 URL
[107]	Leiboff S, DeAllie CK, Scanlon MJ. Modeling the morphometric evolution of the maize shoot apical meristem[J]. Front Plant Sci, 2016, 7: 1651. pmid: 27867389
[108]	Feng XJ, Xiong H, Zheng D, et al. Identification of Fusarium verticillioides resistance alleles in three maize populations with teosinte gene introgression[J]. Front Plant Sci, 2022, 13: 942397. doi: 10.3389/fpls.2022.942397 URL
[109]	Calderón CI, Yandell BS, Doebley JF. Fine mapping of a QTL associated with kernel row number on chromosome 1 of maize[J]. PLoS One, 2016, 11(3): e0150276. doi: 10.1371/journal.pone.0150276 URL
[110]	Zhang XY, Yang Q, Rucker E, et al. Fine mapping of a quantitative resistance gene for gray leaf spot of maize(Zea mays L.)derived from teosinte(Z. mays ssp. parviglumis)[J]. Theor Appl Genet, 2017, 130(6): 1285-1295. doi: 10.1007/s00122-017-2888-2
[111]	Vigouroux Y, Mitchell S, Matsuoka Y, et al. An analysis of genetic diversity across the maize genome using microsatellites[J]. Genetics, 2005, 169(3): 1617-1630. doi: 10.1534/genetics.104.032086 pmid: 15654118
[112]	Hufford MB, Xu X, van Heerwaarden J, et al. Comparative population genomics of maize domestication and improvement[J]. Nat Genet, 2012, 44(7): 808-811. doi: 10.1038/ng.2309 pmid: 22660546
[113]	Takuno S, Ralph P, Swarts K, et al. Independent molecular basis of convergent highland adaptation in maize[J]. Genetics, 2015, 200(4): 1297-1312. doi: 10.1534/genetics.115.178327 pmid: 26078279
[114]	Doebley J, Stec A, Gustus C. Teosinte branched1 and the origin of maize: evidence for epistasis and the evolution of dominance[J]. Genetics, 1995, 141(1): 333-346. doi: 10.1093/genetics/141.1.333 pmid: 8536981
[115]	Wang H, Nussbaum-Wagler T, Li BL, et al. The origin of the naked grains of maize[J]. Nature, 2005, 436(7051): 714-719. doi: 10.1038/nature03863
[116]	Wills DM, Whipple CJ, Takuno S, et al. From many, one: genetic control of prolificacy during maize domestication[J]. PLoS Genet, 2013, 9(6): e1003604. doi: 10.1371/journal.pgen.1003604 URL
[117]	Wills DM, Fang Z, York AM, et al. Defining the role of the MADS-box gene, Zea agamous-like1, a target of selection during maize domestication[J]. J Hered, 2018, 109(3): 333-338. doi: 10.1093/jhered/esx073 URL
[118]	Hung HY, Shannon LM, Tian F, et al. ZmCCT and the genetic basis of day-length adaptation underlying the postdomestication spread of maize[J]. Proc Natl Acad Sci USA, 2012, 109(28): E1913-E1921.
[119]	Xu DY, Wang XF, Huang C, et al. Glossy15 plays an important role in the divergence of the vegetative transition between maize and its progenitor, teosinte[J]. Mol Plant, 2017, 10(12): 1579-1583. doi: S1674-2052(17)30279-4 pmid: 28987887
[120]	Tian JG, Wang CL, Xia JL, et al. Teosinte ligule allele narrows plant architecture and enhances high-density maize yields[J]. Science, 2019, 365(6454): 658-664. doi: 10.1126/science.aax5482 pmid: 31416957
[121]	Chen WK, Chen L, Zhang X, et al. Convergent selection of a WD40 protein that enhances grain yield in maize and rice[J]. Science, 2022, 375(6587): eabg7985. doi: 10.1126/science.abg7985 URL
[122]	Guo L, Wang XH, Zhao M, et al. Stepwise cis-regulatory changes in ZCN8 contribute to maize flowering-time adaptation[J]. Curr Biol, 2018, 28(18): 3005-3015.e4. doi: S0960-9822(18)30928-X pmid: 30220503
[123]	Liang YM, Liu Q, Wang XF, et al. ZmMADS69 functions as a flowering activator through the ZmRap2.7-ZCN8 regulatory module and contributes to maize flowering time adaptation[J]. New Phytol, 2019, 221(4): 2335-2347. doi: 10.1111/nph.15512 pmid: 30288760
[124]	Huang YC, Wang HH, Zhu YD, et al. THP9 enhances seed protein content and nitrogen-use efficiency in maize[J]. Nature, 2022, 612(7939): 292-300. doi: 10.1038/s41586-022-05441-2
[125]	Lang ZH, Wills DM, Lemmon ZH, et al. Defining the role of prolamin-box binding factor1 gene during maize domestication[J]. J Hered, 2014, 105(4): 576-582. pmid: 24683184
[126]	Fang H, Fu XY, Wang YB, et al. Genetic basis of kernel nutritional traits during maize domestication and improvement[J]. Plant J, 2020, 101(2): 278-292. doi: 10.1111/tpj.14539
[127]	Cao YB, Liang XY, Yin P, et al. A domestication-associated reduction in K⁺-preferring HKT transporter activity underlies maize shoot K⁺ accumulation and salt tolerance[J]. New Phytol, 2019, 222(1): 301-317. doi: 10.1111/nph.2019.222.issue-1 URL
[128]	Wang HZ, Hou JB, Ye P, et al. A teosinte-derived allele of a MYB transcription repressor confers multiple disease resistance in maize[J]. Mol Plant, 2021, 14(11): 1846-1863. doi: 10.1016/j.molp.2021.07.008 pmid: 34271176
[129]	Wallace JG, Larsson SJ, Buckler ES. Entering the second century of maize quantitative genetics[J]. Heredity, 2014, 112(1): 30-38. doi: 10.1038/hdy.2013.6 pmid: 23462502
[130]	Zhang H, Li YY, Zhu JK. Developing naturally stress-resistant crops for a sustainable agriculture[J]. Nat Plants, 2018, 4: 989-996. doi: 10.1038/s41477-018-0309-4 pmid: 30478360
[131]	Prioli LM, Silva WJ, Sondahl MR. Tissue culture and plant regeneration in diploid perennial teosinte[J]. J Plant Physiol, 1984, 117(2): 185-190. doi: 10.1016/S0176-1617(84)80033-4 URL
[132]	Silva NC, Vidal R, Costa FM, et al. Presence of Zea luxurians(durieu and ascherson)bird in southern Brazil: implications for the conservation of wild relatives of maize[J]. PLoS One, 2015, 10(10): e0139034. doi: 10.1371/journal.pone.0139034 URL
[133]	Sánchez G JJ, De La Cruz L LDL, Vidal M VA, et al. Three new teosintes(Zea Spp., Poaceae)from México[J]. Am J Bot, 2011, 98(9): 1537-1548. doi: 10.3732/ajb.1100193 pmid: 21875968
[134]	Laurito G. A new species of Zea(Poaceae)from the Murciélago ISlands, Santa Elena Peninsula, Guanacaste, Costa Rica[J]. Biology, 2013, 80: 36-39.
[135]	Yang N, Xu XW, Wang RR, et al. Contributions of Zea mays subspecies mexicana haplotypes to modern maize[J]. Nat Commun, 2017, 8(1): 1874. doi: 10.1038/s41467-017-02063-5
[136]	Zhu HC, Li C, Gao CX. Applications of CRISPR-Cas in agriculture and plant biotechnology[J]. Nat Rev Mol Cell Biol, 2020, 21(11): 661-677.
[137]	Zobrist JD, Martin-Ortigosa S, Lee K, et al. Transformation of teosinte(Zea mays ssp. parviglumis)via biolistic bombardment of seedling-derived callus tissues[J]. Front Plant Sci, 2021, 12: 773419. doi: 10.3389/fpls.2021.773419 URL

玉米自交系/农家种 Maize inbred line/landrace	大刍草 Teosinte	群体类型 Population type	群体大小 Population size	性状数目 Number of traits	性状类型 Type of traits	标记类型 Type of markers	标记数目 Number of markers	QTL数目 Number of QTL	参考文献 Reference
Nay 15	parviglumis	F₂	290	9	形态学	RFLPs	82	50	[83]
Sin 2	meixcana	F₂	260	12	形态学	RFLPs	58	64	[84]
W22	parviglumis	BC₁	1 749	22	形态学	SNPs（InDels）/EST	304	59	[85]
A661	parviglumis	F_2:3	165	1	形态学	SNPs/GBS	2 659	2	[86]
B73	diploperennis	BC₂F₁	215	24	农艺和产量	SNPs/WGS	4 964 439	71	[87]
W22	parviglumis	BC₁S₄	223	22	农艺和驯化	SNPs/GBS	13 088	82	[88]
	parviglumis	BC₁S₄	270				16 109	79
	parviglumis	BC₁S₄	219				13 187	75
	parviglumis	BC₁S₄	235				11 395	78
	mexicana	BC₁S₄	310				14 884	150
W22	parviglumis	BC₂S₃	866	6	地下节根数	SNPs/GBS	19 838	133	[89]
W22	parviglumis	BC₂S₃	866	1	源和汇相关性状	SNPs/GBS	19 838	16	[90]
W22	parviglumis	BC₂S₃	866	4	叶片数目，开花期	SNPs/GBS	19 838	73	[91]
Mo17	mexicana	BC₂F₅	191	3	开花期性状	SNPs/芯片	12 390	16	[92]
W22	parviglumis	BC₂S₃	866	5	雄穗	SNPs/GBS	19 838	72	[93]
SICAU1212	mexicana	F₂	409	1	雌穗	SNPs/OPA	3 072	1	[94]
SICAU1212	mexicana	BC₃F₂	~300	1	雌穗	SNPs/WGS	NA	23	[95]
SICAU1212	mexicana	BC₄F₂	651	1	雌穗	SNPs/WGS	NA	23	[95]
Mo17	parviglumis	BC₂F₈	191	3	苞叶	SNPs/芯片	12 390	4	[96]
A158	parviglumis	BC₄F₂	116	3	叶鞘	RFLPs	24	10	[97]
B73	parviglumis	BC₄S₂	58	3	籽粒成份	SNPs/芯片	728	11	[98]
	parviglumis	BC₄S₂	66
	parviglumis	BC₄S₂	92
	parviglumis	BC₄DH	93
	parviglumis	BC₄S₂	99
	parviglumis	BC₄S₂	88
	parviglumis	BC₄S₂	96
	parviglumis	BC₄S₂	79
	parviglumis	BC₄S₂	96
	parviglumis	BC₄S₂	79
	parviglumis	BC₄S₂	82
B73	10 parviglumis	BC₄S₂	58	8	籽粒形态	SNPs/芯片	728	63	[99]
B73	10 parviglumis	BC₄S₂	58	3	产量	SNPs/芯片	728	15	[100]
PH4CV	mexicana	BC₂F₆	206	1	根系	SNPs/WGS	138 208	2	[101]
Mo17	mexicana	BC₂S₇	191	9	根系解剖结构	SNPs/芯片	56 110	16	[102]
Mi29	nicaraguensis	BC₃F₅	45	1	抗涝	SSRs	98	4	[103]
Mi29	nicaraguensis	BC₃F₅	45	3	抗涝	SSRs	98	1	[104]
Mi29	nicaraguensis	BC₃F₅	45	1	抗涝	SSRs	98	4	[105]
Rhee Flint	diploperennis	F₁	3	1	多年生	GBS/ SNPs	10 432	2	[106]
B73
Mo17
W22	parviglumis	BC₂S₃	841	8	顶端分生组织形态	SNPs/GBS	19 838	36	[107]
Mo17	mexicana	BC₂F₇	191	65	初级代谢物	SNPs/芯片	12 390	350	[15]
B73	parviglumis	BC₂F₈	113	1	病害	SNPs/WGS	NA	3	[108]
B73	diploperennis	BC₂F₈	215					7
Zheng58	parviglumis	BC₂F₈	122					5
W22	parviglumis	BC₂S₃	866	1	产量	SNPs/GBS	19 838	1	[109]
B73	10 parviglumis	BC₄S₂	928	1	病害	SNPs/芯片	728	1	[110]

玉米自交系/农家种 Maize inbred line/landrace	大刍草 Teosinte	群体类型 Population type	群体大小 Population size	性状数目 Number of traits	性状类型 Type of traits	标记类型 Type of markers	标记数目 Number of markers	QTL数目 Number of QTL	参考文献 Reference
Nay 15	parviglumis	F₂	290	9	形态学	RFLPs	82	50	[83]
Sin 2	meixcana	F₂	260	12	形态学	RFLPs	58	64	[84]
W22	parviglumis	BC₁	1 749	22	形态学	SNPs（InDels）/EST	304	59	[85]
A661	parviglumis	F_2:3	165	1	形态学	SNPs/GBS	2 659	2	[86]
B73	diploperennis	BC₂F₁	215	24	农艺和产量	SNPs/WGS	4 964 439	71	[87]
W22	parviglumis	BC₁S₄	223	22	农艺和驯化	SNPs/GBS	13 088	82	[88]
	parviglumis	BC₁S₄	270				16 109	79
	parviglumis	BC₁S₄	219				13 187	75
	parviglumis	BC₁S₄	235				11 395	78
	mexicana	BC₁S₄	310				14 884	150
W22	parviglumis	BC₂S₃	866	6	地下节根数	SNPs/GBS	19 838	133	[89]
W22	parviglumis	BC₂S₃	866	1	源和汇相关性状	SNPs/GBS	19 838	16	[90]
W22	parviglumis	BC₂S₃	866	4	叶片数目，开花期	SNPs/GBS	19 838	73	[91]
Mo17	mexicana	BC₂F₅	191	3	开花期性状	SNPs/芯片	12 390	16	[92]
W22	parviglumis	BC₂S₃	866	5	雄穗	SNPs/GBS	19 838	72	[93]
SICAU1212	mexicana	F₂	409	1	雌穗	SNPs/OPA	3 072	1	[94]
SICAU1212	mexicana	BC₃F₂	~300	1	雌穗	SNPs/WGS	NA	23	[95]
SICAU1212	mexicana	BC₄F₂	651	1	雌穗	SNPs/WGS	NA	23	[95]
Mo17	parviglumis	BC₂F₈	191	3	苞叶	SNPs/芯片	12 390	4	[96]
A158	parviglumis	BC₄F₂	116	3	叶鞘	RFLPs	24	10	[97]
B73	parviglumis	BC₄S₂	58	3	籽粒成份	SNPs/芯片	728	11	[98]
	parviglumis	BC₄S₂	66
	parviglumis	BC₄S₂	92
	parviglumis	BC₄DH	93
	parviglumis	BC₄S₂	99
	parviglumis	BC₄S₂	88
	parviglumis	BC₄S₂	96
	parviglumis	BC₄S₂	79
	parviglumis	BC₄S₂	96
	parviglumis	BC₄S₂	79
	parviglumis	BC₄S₂	82
B73	10 parviglumis	BC₄S₂	58	8	籽粒形态	SNPs/芯片	728	63	[99]
B73	10 parviglumis	BC₄S₂	58	3	产量	SNPs/芯片	728	15	[100]
PH4CV	mexicana	BC₂F₆	206	1	根系	SNPs/WGS	138 208	2	[101]
Mo17	mexicana	BC₂S₇	191	9	根系解剖结构	SNPs/芯片	56 110	16	[102]
Mi29	nicaraguensis	BC₃F₅	45	1	抗涝	SSRs	98	4	[103]
Mi29	nicaraguensis	BC₃F₅	45	3	抗涝	SSRs	98	1	[104]
Mi29	nicaraguensis	BC₃F₅	45	1	抗涝	SSRs	98	4	[105]
Rhee Flint	diploperennis	F₁	3	1	多年生	GBS/ SNPs	10 432	2	[106]
B73
Mo17
W22	parviglumis	BC₂S₃	841	8	顶端分生组织形态	SNPs/GBS	19 838	36	[107]
Mo17	mexicana	BC₂F₇	191	65	初级代谢物	SNPs/芯片	12 390	350	[15]
B73	parviglumis	BC₂F₈	113	1	病害	SNPs/WGS	NA	3	[108]
B73	diploperennis	BC₂F₈	215					7
Zheng58	parviglumis	BC₂F₈	122					5
W22	parviglumis	BC₂S₃	866	1	产量	SNPs/GBS	19 838	1	[109]
B73	10 parviglumis	BC₄S₂	928	1	病害	SNPs/芯片	728	1	[110]

亲本Parent	性状Trait	基因名Gene name	基因号Gene ID	参考文献Reference
W22×parviglumis	分蘖数	tb1	Zm00001d033673	[114]
W22×parviglumis	颖壳	tga1	Zm00001d049822	[115]
W22×parviglumis	繁殖率（雌穗数目）	gt1	Zm00001d028129	[116]
W22×parviglumis	开花期	zagl1	Zm00001d017614	[117]
W22×parviglumis	开花期	ZmCCT10	Zm00001d024909	[118]
W22×parviglumis	营养生长转换	gl15	Zm00001d046621	[119]
W22×parviglumis	叶夹角	UPA1, UPA2	Zm00001d002562, Zm00001d033180	[120]
B73×mexicana	穗行数	KRN2	Zm00001d002641	[121]
W22×parviglumis	开花期	ZCN8	Zm00001d010752	[122]
W22×parviglumis	开花期	ZmMADS69	Zm00001d031625	[123]
W22×parviglumis	开花期	ZmCCT9	Zm00001d000176	[63]
B73×parviglumis	籽粒蛋白含量	TPH9	Zm00001d047736	[124]
W22×parviglumis	醇溶蛋白	pbf1	Zm00001d005100	[125]
Mo17×mexicana	籽粒类胡萝卜素含量	DXS2	Zm00001d019060	[126]
W22×parviglumis	K⁺稳态	ZmHKT2	Zm00001d014680	[127]
Mo17×mexicana	广谱抗性	ZmMM1	Zm00001d018698	[128]

亲本Parent	性状Trait	基因名Gene name	基因号Gene ID	参考文献Reference
W22×parviglumis	分蘖数	tb1	Zm00001d033673	[114]
W22×parviglumis	颖壳	tga1	Zm00001d049822	[115]
W22×parviglumis	繁殖率（雌穗数目）	gt1	Zm00001d028129	[116]
W22×parviglumis	开花期	zagl1	Zm00001d017614	[117]
W22×parviglumis	开花期	ZmCCT10	Zm00001d024909	[118]
W22×parviglumis	营养生长转换	gl15	Zm00001d046621	[119]
W22×parviglumis	叶夹角	UPA1, UPA2	Zm00001d002562, Zm00001d033180	[120]
B73×mexicana	穗行数	KRN2	Zm00001d002641	[121]
W22×parviglumis	开花期	ZCN8	Zm00001d010752	[122]
W22×parviglumis	开花期	ZmMADS69	Zm00001d031625	[123]
W22×parviglumis	开花期	ZmCCT9	Zm00001d000176	[63]
B73×parviglumis	籽粒蛋白含量	TPH9	Zm00001d047736	[124]
W22×parviglumis	醇溶蛋白	pbf1	Zm00001d005100	[125]
Mo17×mexicana	籽粒类胡萝卜素含量	DXS2	Zm00001d019060	[126]
W22×parviglumis	K⁺稳态	ZmHKT2	Zm00001d014680	[127]
Mo17×mexicana	广谱抗性	ZmMM1	Zm00001d018698	[128]