A complex network of QTL for thousand-kernel weight in the rye genome
Tóm tắt
Here, QTL mapping for thousand-kernel weight carried out within a 541 × Ot1-3 population of recombinant inbred lines using high-density DArT-based map and three methods (single-marker analysis with F parametric test, marker analysis with the Kruskal–Wallis K* nonparametric test, and the recently developed analysis named genes interaction assorting by divergent selection with χ2 test) revealed 28 QTL distributed over all seven rye chromosomes. The first two methods showed a high level of consistency in QTL detection. Each of 13 QTL revealed in the course of gene interaction assorting by divergent selection analysis coincided with those detected by the two other methods, confirming the reliability of the new approach to QTL mapping. Its unique feature of discriminating QTL classes might help in selecting positively acting QTL and alleles for marker-assisted selection. Also, interaction among seven QTL for thousand-kernel weight was analyzed using gene interaction assorting by the divergent selection method. Pairs of QTL showed a predominantly additive relationship, but epistatic and complementary types of two-loci interactions were also revealed.
Tài liệu tham khảo
Aida M, Ishida T, Tasaka M (1999) Shoot apical meristem and cotyledon formation during Arabidopsis embryogenesis: interaction among the CUP-SHAPED COTYLEDON and SHOOT MERYSTEMLESS genes. Development 126:1563–1570
Bezant J, Laurie D, Pratchett N, Chojecki J, Kearsey M (1997) Mapping QTL controlling yield and yield components in a spring barley (Hordeum vulgare L.) cross using marker regression. Molecular Breed 3:29–38
Börner A, Schumann E, Fürste A, Cöster H, Leithold B, Röder MS, Weber WE (2002) Mapping of quantitative trait loci determining agronomic important characters in hexaploid wheat (Triticum aestivum L.). Theor Appl Genet 105:921–936
Cui F, Ding A, Li J, Zhao C, Li X, Feng D, Wang X, Gao J, Wang H (2011) Wheat kernel dimensions: how do they contribute to kernel weight at an individual QTL level? J Genet 90:409–425
Cuthbert JL, Somers D, Brúlé-Babel AL, Brown PD, Crow GH (2008) Molecular mapping of quantitative trait loci for yield and yield components in spring wheat (Triticum aestivum L.). Theor Appl Genet 117:595–608. https://doi.org/10.1007/s00122-008-0804-5
Deng Z, Chen F, Hu S, Han Q, Chen J, Sun C, Zhang Y, Wang S, Song X, Tjan J (2014) Inheritance and QTL analysis of flour falling number using recombinant inbred lines derived from strong gluten wheat “Gaocheng 8901” and waxy wheat “Nuomai 1”. Australian J Crop Science 8(4):468–474
Falke KC, Wilde P, Wortmann H, Geiger HH, Miedaner T (2009) Identification of genomic regions carrying QTL for agronomic and quality traits in rye (Secale cereale) introgression libraries. Plant Breed 128:615–623
Farkhari M, Krivanek A, Xu Y, Rong T, Naghavi MR, Samadi BY, Lu Y (2013) Root-lodging resistance in maize as an example for high-throughput genetic mapping via single nucleotide polymorphism-based selective genotyping. Plant Breed 132:90–98
Gallais A, Moreau L, Charcosset A (2007) Detection of marker-QTL associations by studying change in marker frequencies with selection. Theor Appl Genet 114:669–681
Groos C, Robert N, Bervas E, Charmet G (2003) Genetic analysis of grain protein-content, grain yield and thousand-kernel weight in bread wheat. Theor Appl Genet 106:1032–1040
Hackauf B, Haffke S, Fromme FJ, Roux SR, Kusterer B, Musmann D, Kilian A, Miedaner T (2017) QTL mapping and comparative genome analysis of agronomic traits including grain yield in winter rye. Theor Appl Genet 130:1801–1817
Lehmann EL (1975) Nonparametrics. McGraw-Hill, New York
Long Y, Zhao L, Niu B, Su J, Wu H, Chen Y, Zhang Q, Guo J, Zhuang C, Mei M, Xia J, Wang L, Wu H, Lin Y-G (2008) Hybrid male sterility in rice controlled by interaction between divergent alleles of two adjacent genes. PNAS 105:18871–18876
Masojć P, Milczarski P (2009) Relationship between QTL for pre-harvest sprouting and alpha-amylase activity in rye grain. Mol Breed 23:75–84
Masojć P, Lebiecka K, Milczarski P, Wiśniewska M, Łań A, Owsianicki R (2009) Three classes of loci controlling pre-harvest sprouting in rye (Secale cereale L.) discerned by means of bidirectional selective genotyping (BSG). Euphytica 170:123–129
Masojć P, Wiśniewska M, Łań A, Milczarski P, Berdzik M, Pędziwiatr D, Pol-Szyszko M, Gałęza M, Owsianicki R (2011) Genomic architecture of alpha-amylase activity in mature rye grain relative to that of pre-harvest sprouting. J Appl Genet 52:153–160. https://doi.org/10.1007/s13353-010-0025-x
Masojć P, Bienias A, Berdzik M, Kruszona P (2016) Genetic analysis carried out in population tails reveals diverse two-loci interactions as a basic factor of quantitative traits variation in rye. J Appl Genet 57:165–173
Masojć P, Milczarski P, Kruszona P (2017) Comparative analysis of genetic architectures for nine developmental traits of rye. J Appl Genet 58:297–305. https://doi.org/10.1007/s13353-017-0396-3
Miedaner T, Hübner M, Korzun V, Schmiedchen B, Bauer E, Haseneyer G, Wilde P, Reif JC (2012) Genetic architecture of complex agronomic traits examined in two testcross populations of rye (Secale cereale L.). BMC genomics 13:706. https://doi.org/10.1186/1471-2164-13-706
Milczarski P, Masojć P (2003) Interval mapping of genes controlling growth of rye plants. Plant Breeding and Seed Sci 48:135–142
Milczarski P, Bolibok-Brągoszewska H, Myśków B, Stojałowski S, Heller-Uszyńska K, Góralska M, Brągoszewski P, Uszyński G, Kilian A, Rakoczy-Trojanowska M (2011) A high den sity consensus map of rye (Secale cereale L.) based on DArT markers. PloS ONE 6(12):e28495
Mohler V, Albrecht T, Castell A, Diethelm M, Schweizer G, Hartl L (2016) Considering causal genes in the genetic dissection of kernel traits in common wheat. J Appl Genet 57:467–476
Myśków B, Stojałowski S (2016) Bidirectional selective genotyping approach for the identification of quantitative trait loci controlling earliness per se in winter rye (Secale cereale L.). J Appl Genet 57:45–50
Myśków B, Hanek M, Banek-Tabor A, Maciorowski R, Stojałowski S (2014) The application of high-density genetic maps of rye for the detection of QTLs controlling morphological traits. J Appl Genet 55:15–26
Navabi A, Mather DE, Bernier J, Spaner DM, Atlin GN (2009) QTL detection with bidirectional and unidirectional selective genotyping: marker-based and trait-based analyses. Theor Appl Genet 118:347–358
Ramya P, Chaubal A, Kulkarni K, Gupta L, Kadoo N, Dhaliwal HS, Chhuneya P, Lagu M, Gupta V (2010) QTL mapping of 1000-kernel weight, kernel length and kernel width in bread wheat (triticum aestivum L.). J Appl Genet 51:421–429
Smith HMS, Hake S (2003) The interaction of two homeobox genes, BREVIPEDICELLUS and PENNYWISE, regulates internode pattering in the Arabidopsis inflorescence. Plant Cell 15:1717–1727
Sun X-Y, Wu K, Zhao Y, Kong F-M, Han G-Z, Jiang H-M, Huang X-J, Li R-J, Wang H-G, Li S-S (2009) QTL analysis of kernel shape and weight using recombinant inbred lines in wheat. Euphytica 165:615–624
Sun Y, Wang J, Crouch JH, Xu Y (2010) Efficiency of selective genotyping for genetic analysis of complex traits and potential applications in crop improvement. Mol Breed 26:93–511
Teulat B, Merah O, Souyris I, This D (2001) QTLs for agronomic traits from a Mediterranean barley progeny grown in several environments. Theor Appl Genet 103:774–787
Tranquilli S, Dubcovsky J (2000) Epistatic interaction between vernalization genes Vrn-Am1 and Vrn-Am2 in diploid wheat. The Journal of Heredity 91:304–306
Tsilo TJ, Hareland GA, Simsek S, Chao S, Anderson JA (2010) Genome mapping of kernel characteristics in hard red spring wheat breeding lines. Theor Appl Genet 121:717–730. https://doi.org/10.1007/s00122-010-1343-4
Van Ooijen JW (2004) MapQTL®5, software for the mapping of quantitative trait loci in experimental populations. Kyazma B.V, Wageningen, Netherlands
Wang Z, Wu X, Ren Q, Chang X, Li R, Jing R (2010) QTL mapping for developmental behavior of plant height in wheat (Triticum aestivum L.). Euphytica 174:447–458
Wang S, Basten CJ, Zeng Z-B (2012) Windows QTL cartographer 2.5. Department of Statistics, North Carolina State University, Raleigh (http://statgen.ncsu.edu/qtlcart/WQTLCart.htm)
Wricke G (2002) Two major genes for kernel weight in rye. Plant Breed 121:26–28
Xing YZ, Tan YF, Hua JP, Sun XL, Xu CG, Zhang Q (2002) Characterization of the main effects, epistatic effects and their environmental interaction of QTLs on the genetic basis of yield traits in rice. Theor Appl Genet 105:248–257