Dissection of the genetic architecture for tassel branch number by QTL analysis in two related populations in maize

doi:10.1016/S2095-3119(16)61538-1

摘要/Abstract

Abstract: Tassel branch number (TBN) is the principal component of maize tassel inflorescence architecture and is a typical quantitative trait controlled by multiple genes. The main objective of this research was to detect quantitative trait loci (QTLs) for TBN. The maize inbred line SICAU1212 was used as the common parent to develop BC₁S₁ and recombinant inbred line (RIL) populations with inbred lines 3237 and B73, respectively. The two related populations consisted of 123 and 238 lines, respectively. Each population was grown and phenotyped for TBN in two environments. Eleven QTLs were detected in the BC₁S₁population, located on chromosomes 2, 3, 5, and 7, accounted for 4.45–26.58% of the phenotypic variation. Two QTLs (qB11Jtbn2-1, qB12Ctbn2-1, qBJtbn2-1; q11JBtbn5-1, qB12Ctbn5-1, qBJtbn5-1) that accounted for more than 10% of the phenotypic variation were identified. Three QTLs located on chromosomes 2, 3 and 5, exhibited stable expression in the two environments. Ten QTLs were detected in the RIL population, located on chromosomes 2, 3, 5, 8, and 10, accounted for 2.69–13.58% of the TBN variation. One QTL (qR14Dtbn2-2) explained >10% of the phenotypic variation. One common QTL (qB12Ctbn2-2, qR14Dtbn2-2, qRJtbn2-2) was detected between the two related populations. Three pairs of epistatic effects were identified between two loci with or without additive effects and accounted for 1.19–4.26% of the phenotypic variance. These results demonstrated that TBN variation was mainly caused by major effects, minor effects and slightly modified by epistatic effects. Thus, identification of QTL for TBN may help elucidate the genetic basis of TBN and also facilitate map-based cloning and marker-assisted selection (MAS) in maize breeding programs.

Key words: QTL , tassel branch number , related populations , epistatic effects

. [J]. Journal of Integrative Agriculture, 2017, 16(07): 1432-1442.

CHEN Zheng-jie, YANG Cong, TANG Deng-guo, ZHANG Lei, ZHANG Ling, QU Jing-tao, LIU Jian. Dissection of the genetic architecture for tassel branch number by QTL analysis in two related populations in maize[J]. Journal of Integrative Agriculture, 2017, 16(07): 1432-1442.

参考文献

Berke T, Rocheford T. 1999. Quantitative trait loci for tassel traits in maize. Crop Science, 39, 1439–1443.

Blanc G, Charcosset A, Mangin B, Gallais A, Moreau L. 2006. Connected populations for detecting quantitative trait loci and testing for epistasis: An application in maize. Theoretical and Applied Genetics, 113, 206–224.

Bortiri E, Chuck G, Vollbrecht E, Rocheford T, Martienssen R, Hake S. 2006. ramosa2 encodes a LATERAL ORGAN BOUNDARY domain protein that determines the fate of stem cells in branch meristems of maize. The Plant Cell, 18, 574–585.

Brewbaker J L. 2015. Diversity and genetics of tassel branch numbers in maize. Crop Science, 55, 65–78.

Brown P J, Upadyayula N, Mahone G S, Tian F, Bradbury P J, Myles S, Holland J B, Flint-Garcia S, McMullen M D, Buckler E S. 2011. Distinct genetic architectures for male and female inflorescence traits of maize. PloS Genetics, 7, e1002383.

Chen Z, Wang B, Dong X, Liu H, Ren L, Chen J, Hauck A, Song W, Lai J. 2014. An ultra-high density bin-map for rapid QTL mapping for tassel and ear architecture in a large F2 maize population. BMC Genomics, 15, 433.

Cui F, Li J, Ding A, Zhao C, Wang L, Wang X, Li S, Bao Y, Li X, Feng D. 2011. Conditional QTL mapping for plant height with respect to the length of the spike and internode in two mapping populations of wheat. Theoretical and Applied Genetics, 122, 1517–1536.

Duvick D, Cassman K G. 1999. Post-green revolution trends in yield potential of temperate maize in the North-Central United States. Crop Science, 39, 1622–1630.

Gallavotti A, Zhao Q, Kyozuka J, Meeley R B, Ritter M K, Doebley J F, Pè M E, Schmidt R J. 2004. The role of barren stalk1 in the architecture of maize. Nature, 432, 630–635.

Gao S, Zhao B, Lan H, Zhang Z M. 2007. Identification of QTL associated with tassel branch number and total tassel length in maize. Hereditas, 29, 1013–1017.

Hallauer A R, Miranda J. 1958. Quantitative Genetics in Maize Breeding. Iowa State University Press, Ames, IA Jenkins.

Hanson C, Robinson H, Comstock R. 1956. Biometrical studies of yield in segregating populations of Korean Lespedeza. Agronomy Journal, 48, 268–272.

Horn F, Habekuß A, Stich B. 2015. Linkage mapping of Barley yellow dwarf virus resistance in connected populations of maize. BMC Plant Biology, 15, 29.

Hunter R, Daynard T, Hume D, Tanner J, Curtis J, Kannenberg L. 1969. Effect of tassel removal on grain yield of corn (Zea mays L.). Crop Science, 9, 405–406.

Jiao Y, Zhao H, Ren L, Song W, Zeng B, Guo J, Wang B, Liu Z, Chen J, Li W. 2012. Genome-wide genetic changes during modern breeding of maize. Nature Genetics, 44, 812–815.

Khedikar Y, Gowda M, Sarvamangala C, Patgar K, Upadhyaya H, Varshney R. 2010. A QTL study on late leaf spot and rust revealed one major QTL for molecular breeding for rust resistance in groundnut (Arachis hypogaea L.). Theoretical and Applied Genetics, 121, 971–984.

Korbie D J, Mattick J S. 2008. Touchdown PCR for increased specificity and sensitivity in PCR amplification. Nature Protocols, 3, 1452–1456.

Kosambi D D. 1943. The estimation of map distances from recombination values. Annals of Eugenics, 12, 172–175.

Lambert R, Johnson R. 1978. Leaf angle, tassel morphology, and the performance of maize hybrids. Crop Science, 18, 499–502.

Lander E S, Green P, Abrahamson J, Barlow A, Daly M J, Lincoln S E, Newburg L. 1987. MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics, 1, 174–181.

Lemmon Z H, Doebley J F. 2014. Genetic dissection of a genomic region with pleiotropic effects on domestication traits in maize reveals multiple linked QTL. Genetics, 198, 345–353.

Lewis M W, Bolduc N, Hake K, Htike Y, Hay A, Candela H, Hake S. 2014. Gene regulatory interactions at lateral organ boundaries in maize. Development, 141, 4590–4597.

Li H, Ribaut J M, Li Z, Wang J. 2008a. Inclusive composite interval mapping (ICIM) for digenic epistasis of quantitative traits in biparental populations. Theoretical and Applied Genetics, 116, 243–260.

Li H, Ye G, Wang J. 2007. A modified algorithm for the improvement of composite interval mapping. Genetics, 175, 361–374.

Li H, Zhao T, Wang Y, Yu D, Chen S, Zhou R, Gai J. 2011. Genetic structure composed of additive QTL, epistatic QTL pairs and collective unmapped minor QTL conferring oil content and fatty acid components of soybeans. Euphytica, 182, 117–132.

Li Y, Dong Y, Niu S, Cui D, Wang Y, Liu Y, Wei M, Li X. 2008b. Identification of agronomically favorable quantitative trait loci alleles from a dent corn inbred Dan232 using advanced backcross QTL analysis and comparison with the F2:3 population in popcorn. Molecular Breeding, 21, 1–14.

Lincoln S, Daly M, Lander E. 1992. Constructing genetics maps with Mapmaker/EXP3.0. In: Whitehead Institute Technical Report. 3rd ed. Whitehead Institute, Massachusetts, Cambridge.

Liu T, Li L, Zhang Y, Xu C, Li X, Xing Y. 2011. Comparison of quantitative trait loci for rice yield, panicle length and spikelet density across three connected populations. Journal of Genetics, 90, 377–382.

McCouch S, Cho Y, Yano M, Paul E, Blinstrub M, Morishima H, Kinoshita T. 1997. Report on QTL nomenclature. Rice Genetics Newsletter, 14, 11–131.

McSteen P, Hake S. 2001. Barren inflorescence2 regulates axillary meristem development in the maize inflorescence. Development, 128, 2881–2891.

Mickelson S, Stuber C, Senior L, Kaeppler S. 2002. Quantitative trait loci controlling leaf and tassel traits in a B73×Mo17 population of maize. Crop Science, 42, 1902–1909.

Mock J, Schuetz S. 1974. Inheritance of tassel branch number in maize. Crop Science, 14, 885–888.

Pan G, Rong T, Liu L. 1996. Preliminary analysis of isozyme on the sister lines of good line S_(37) and their two hybrids in maize. Journal of Sichuan Agricultural University, 2, 187–191. (in Chinese)

Pauly L, Flajoulot S, Garon J, Julier B, Béguier V, Barre P. 2012. Detection of favorable alleles for plant height and crown rust tolerance in three connected populations of perennial ryegrass (Lolium perenne L.). Theoretical and Applied Genetics, 124, 1139–1153.

Peng B, Li Y, Wang Y, Liu C, Liu Z, Tan W, Zhang Y, Wang D, Shi Y, Sun B. 2011. QTL analysis for yield components and kernel-related traits in maize across multi-environments. Theoretical and Applied Genetics, 122, 1305–1320.

Pressoir G, Brown PJ, Zhu W, Upadyayula N, Rocheford T, Buckler E S, Kresovich S. 2009. Natural variation in maize architecture is mediated by allelic differences at the PINOID co-ortholog barren inflorescence2. The Plant Journal, 58, 618–628.

Saghai-Maroof M A, Soliman K M, Jorgensen R A, Allard R. 1984. Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proceedings of the National Academy of Sciences of the United States of America, 81, 8014–8018.

Santos F R, Pena S D, Epplen J T. 1993. Genetic and population study of a Y-linked tetranucleotide repeat DNA polymorphism with a simple non-isotopic technique. Human Genetics, 90, 655–656.

Satoh-Nagasawa N, Nagasawa N, Malcomber S, Sakai H, Jackson D. 2006. A trehalose metabolic enzyme controls inflorescence architecture in maize. Nature, 441, 227–230.

Schuetz S, Mock J. 1978. Genetics of tassel branch number in maize and its implications for a selection program for small tassel size. Theoretical and Applied Genetics, 53, 265–271.

Sigmon B, Vollbrecht E. 2010. Evidence of selection at the ramosa1 locus during maize domestication. Molecular Ecology, 19, 1296–1311.

Skirpan A, Culler A H, Gallavotti A, Jackson D, Cohen J D, McSteen P. 2009. BARREN INFLORESCENCE2 interaction with ZmPIN1a suggests a role in auxin transport during maize inflorescence development. Plant and Cell Physiology, 50, 652–657.

Tian M, Tan G, Liu Y, Rong T, Huang Y. 2009. Origin and evolution of Chinese waxy maize: Evidence from the Globulin-1 gene. Genetic Resources and Crop Evolution, 56, 247–255.

Upadyayula N, Da Silva H, Bohn M, Rocheford T. 2006a. Genetic and QTL analysis of maize tassel and ear inflorescence architecture. Theoretical and Applied Genetics, 112, 592–606.

Upadyayula N, Wassom J, Bohn M, Rocheford T. 2006b. Quantitative trait loci analysis of phenotypic traits and principal components of maize tassel inflorescence architecture. Theoretical and Applied Genetics, 113, 1395–1407.

Uptmoor R, Schrag T, Stützel H, Esch E. 2008. Crop model based QTL analysis across environments and QTL based estimation of time to floral induction and flowering in Brassica oleracea. Molecular Breeding, 21, 205–216.

Veit B, Schmidt R J, Hake S, Yanofsky M F. 1993. Maize floral development: New genes and old mutants. The Plant Cell, 5, 1205–1215.

Vollbrecht E, Springer P S, Goh L, Buckler E S, Martienssen R. 2005. Architecture of floral branch systems in maize and related grasses. Nature, 436, 1119–1126.

Walsh J, Freeling M. 1999. The liguleless2 gene of maize functions during the transition from the vegetative to the reproductive shoot apex. The Plant Journal, 19, 489–495.

Wang D, Li Y, Wang Y, Liu C, Liu Z, Peng B, Tan W, Zhang Y, Sun B, Shi Y. 2011. Major quantitative trait loci analysis of tassel primary branch number and tassel weight in maize (Zea mays). Chinese Bulletin of Botany, 46, 11–20. (in Chinese)

Wang T, Ma J, Zhang H, Chen S. 2012. Genetic analysis of branch number and spindle length of maize tassel by major genes plus polygenes model. Journal of Nuclear Agricultural Sciences, 2, 280–287. (in Chinese)

Wang Y, Li J, Li Y, Wei M, Li X, Fu J. 2010. QTL detection for grain oil and starch content and their associations in two connected F2:3 populations in high-oil maize. Euphytica, 174, 239–252.

Wei M, Fu J, Li X, Wang Y, Li Y. 2009. Influence of dent corn genetic backgrounds on QTL detection for plant-height traits and their relationships in high-oil maize. Journal of Applied Genetics, 50, 225–234.

Wu X, Li Y, Shi Y, Song Y, Zhang D, Li C, Buckler E S, Li Y, Zhang Z, Wang T. 2016. Joint-linkage mapping and GWAS reveal extensive genetic loci that regulate male inflorescence size in maize. Plant Biotechnology Journal, 14, 1551–1562.

Yang C, Tang D, Zhang L, Liu J, Rong T. 2015. Identification of QTL for ear row number and two-ranked versus many-ranked ear in maize across four environments. Euphytica, 206, 33–47.

Yang J, Zhu J, Williams R W. 2007. Mapping the genetic architecture of complex traits in experimental populations. Bioinformatics, 23, 1527–1536.

Yu Y, Zhang J, Shi Y, Song Y, Wang T, Li Y. 2006. QTL analysis for plant height and leaf angle by using different populations of maize. Journal of Maize Sciences, 14, 88–92. (in Chinese)

Zhen S, Qiaocheng M, Beijiu C, Chuanxiao X, Feng L. 2012. Analysis of inheritance, heterosis and parent-off Spring correlation of tassel branch number in maize (Zea mays L.). Crops, 2, 31–35.