메뉴 건너뛰기




Volumn 17, Issue 1, 2016, Pages

Genetic architecture of the maize kernel row number revealed by combining QTL mapping using a high-density genetic map and bulked segregant RNA sequencing

Author keywords

Bulked segregant RNA sequencing; Kernel row number; Maize; Specific locus amplified fragment sequencing

Indexed keywords

ARTICLE; CHROMOSOME 1; CHROMOSOME 2; CHROMOSOME 5; CHROMOSOME 8; GENE MAPPING; HIGH THROUGHPUT SEQUENCING; INBRED STRAIN; MAIZE; MAIZE KERNEL ROW NUMBER; NONHUMAN; PLANT GENETICS; PLANT LEAF; QUANTITATIVE TRAIT; QUANTITATIVE TRAIT LOCUS MAPPING; RECOMBINANT INBRED STRAIN; RNA SEQUENCE; BREEDING; CHROMOSOMAL MAPPING; GENETIC ASSOCIATION STUDY; GENETIC LINKAGE; GENETIC POLYMORPHISM; GENETICS; GENOMICS; GENOTYPE; PHENOTYPE; PLANT CHROMOSOME; PROCEDURES; QUANTITATIVE TRAIT LOCUS; REPRODUCIBILITY;

EID: 84995785890     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/s12864-016-3240-y     Document Type: Article
Times cited : (42)

References (52)
  • 2
    • 84963537595 scopus 로고    scopus 로고
    • The genetic basis of natural variation in kernel size and related traits using a four-way cross population in maize
    • Chen J, Zhang L, Liu S, Li Z, Huang R, Li Y, Cheng H, Li X, Zhou B, Wu S, et al. The genetic basis of natural variation in kernel size and related traits using a four-way cross population in maize. PLoS One. 2016;11:e0153428.
    • (2016) PLoS One , vol.11
    • Chen, J.1    Zhang, L.2    Liu, S.3    Li, Z.4    Huang, R.5    Li, Y.6    Cheng, H.7    Li, X.8    Zhou, B.9    Wu, S.10
  • 3
    • 84943820088 scopus 로고    scopus 로고
    • Identification of QTL for ear row number and two-ranked versus many-ranked ear in maize across four environments
    • Yang C, Tang D, Zhang L, Liu J, Rong T. Identification of QTL for ear row number and two-ranked versus many-ranked ear in maize across four environments. Euphytica. 2015;206:33-47.
    • (2015) Euphytica , vol.206 , pp. 33-47
    • Yang, C.1    Tang, D.2    Zhang, L.3    Liu, J.4    Rong, T.5
  • 4
    • 84960891676 scopus 로고    scopus 로고
    • Fine mapping of a QTL associated with kernel row number on chromosome 1 of maize
    • Calderón CI, Yandell BS, Doebley JF. Fine mapping of a QTL associated with kernel row number on chromosome 1 of maize. PLoS One. 2016;11:e0150276.
    • (2016) PLoS One , vol.11
    • Calderón, C.I.1    Yandell, B.S.2    Doebley, J.F.3
  • 6
    • 77950339499 scopus 로고    scopus 로고
    • Mapping QTLs for grain yield and yield components under high and low phosphorus treatments in maize (Zea mays L.)
    • Li M, Guo X, Zhang M, Wang X, Zhang G, Tian Y, Wang Z. Mapping QTLs for grain yield and yield components under high and low phosphorus treatments in maize (Zea mays L.). Plant Sci. 2010;178:454-62.
    • (2010) Plant Sci , vol.178 , pp. 454-462
    • Li, M.1    Guo, X.2    Zhang, M.3    Wang, X.4    Zhang, G.5    Tian, Y.6    Wang, Z.7
  • 8
    • 84874661098 scopus 로고    scopus 로고
    • Quantitative variation in maize kernel row number is controlled by the FASCIATED EAR2 locus
    • Bommert P, Nagasawa NS, Jackson D. Quantitative variation in maize kernel row number is controlled by the FASCIATED EAR2 locus. Nat Genet. 2013;45:334-7.
    • (2013) Nat Genet , vol.45 , pp. 334-337
    • Bommert, P.1    Nagasawa, N.S.2    Jackson, D.3
  • 12
    • 84926314287 scopus 로고    scopus 로고
    • Genetic control of the leaf angle and leaf orientation value as revealed by ultra-high density maps in three connected maize populations
    • Li C, Li Y, Shi Y, Song Y, Zhang D, Buckler ES, Zhang Z, Wang T. Genetic control of the leaf angle and leaf orientation value as revealed by ultra-high density maps in three connected maize populations. PLoS One. 2015;10:e0121624.
    • (2015) PLoS One , vol.10
    • Li, C.1    Li, Y.2    Shi, Y.3    Song, Y.4    Zhang, D.5    Buckler, E.S.6    Zhang, Z.7    Wang, T.8
  • 13
    • 84887613153 scopus 로고    scopus 로고
    • Bridging the genotyping gap: using genotyping by sequencing (GBS) to add high-density SNP markers and new value to traditional bi-parental mapping and breeding populations
    • Spindel J, Wright M, Chen C, Cobb J, Gage J, Harrington S, Lorieux M, Ahmadi N, McCouch S. Bridging the genotyping gap: using genotyping by sequencing (GBS) to add high-density SNP markers and new value to traditional bi-parental mapping and breeding populations. Theor Appl Genet. 2013;126:2699-716.
    • (2013) Theor Appl Genet , vol.126 , pp. 2699-2716
    • Spindel, J.1    Wright, M.2    Chen, C.3    Cobb, J.4    Gage, J.5    Harrington, S.6    Lorieux, M.7    Ahmadi, N.8    McCouch, S.9
  • 14
    • 85007595726 scopus 로고    scopus 로고
    • Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines
    • Zhou Z, Zhang C, Zhou Y, Hao Z, Wang Z, Zeng X, Di H, Li M, Zhang D, Yong H, et al. Genetic dissection of maize plant architecture with an ultra-high density bin map based on recombinant inbred lines. BMC Genomics. 2016;17:178.
    • (2016) BMC Genomics , vol.17 , pp. 178
    • Zhou, Z.1    Zhang, C.2    Zhou, Y.3    Hao, Z.4    Wang, Z.5    Zeng, X.6    Di, H.7    Li, M.8    Zhang, D.9    Yong, H.10
  • 16
    • 84963963427 scopus 로고    scopus 로고
    • Mapping QTLs for salt tolerance in rice (Oryza sativa L.) by bulked segregant analysis of recombinant inbred lines using 50K SNP chip
    • Tiwari S, Sl K, Kumar V, Singh B, Rao AR, Mithra Sv A, Rai V, Singh AK, Singh NK. Mapping QTLs for salt tolerance in rice (Oryza sativa L.) by bulked segregant analysis of recombinant inbred lines using 50K SNP chip. PLoS One. 2016;11:e0153610.
    • (2016) PLoS One , vol.11
    • Tiwari, S.1    Sl, K.2    Kumar, V.3    Singh, B.4    Rao, A.R.5    Mithra Sv, A.6    Rai, V.7    Singh, A.K.8    Singh, N.K.9
  • 17
    • 0037898491 scopus 로고    scopus 로고
    • Identification of AFLP markers closely linked to the rhm gene for resistance to southern corn leaf blight in maize by using bulked segregant analysis
    • Cai H, Gao Z, Yuyama N, Ogawa N. Identification of AFLP markers closely linked to the rhm gene for resistance to southern corn leaf blight in maize by using bulked segregant analysis. Mol Genet Genomics. 2003;269:299-303.
    • (2003) Mol Genet Genomics , vol.269 , pp. 299-303
    • Cai, H.1    Gao, Z.2    Yuyama, N.3    Ogawa, N.4
  • 19
    • 84962053013 scopus 로고    scopus 로고
    • Mapping of a novel race specific resistance gene to phytophthora root rot of pepper (Capsicum annuum) using bulked segregant analysis combined with specific length amplified fragment sequencing strategy
    • Xu X, Chao J, Cheng X, Wang R, Sun B, Wang H, Luo S, Wu T, Li Y. Mapping of a novel race specific resistance gene to phytophthora root rot of pepper (Capsicum annuum) using bulked segregant analysis combined with specific length amplified fragment sequencing strategy. PLoS One. 2016;11:e0151401.
    • (2016) PLoS One , vol.11
    • Xu, X.1    Chao, J.2    Cheng, X.3    Wang, R.4    Sun, B.5    Wang, H.6    Luo, S.7    Wu, T.8    Li, Y.9
  • 20
    • 84958769658 scopus 로고    scopus 로고
    • Genetic mapping and molecular marker development for Pi65(t), a novel broad-spectrum resistance gene to rice blast using next-generation sequencing
    • Zheng W, Wang Y, Wang L, Ma Z, Zhao J, Wang P, Zhang L, Liu Z, Lu X. Genetic mapping and molecular marker development for Pi65(t), a novel broad-spectrum resistance gene to rice blast using next-generation sequencing. Theor Appl Genet. 2016;129:1035-44.
    • (2016) Theor Appl Genet , vol.129 , pp. 1035-1044
    • Zheng, W.1    Wang, Y.2    Wang, L.3    Ma, Z.4    Zhao, J.5    Wang, P.6    Zhang, L.7    Liu, Z.8    Lu, X.9
  • 21
    • 84875117473 scopus 로고    scopus 로고
    • SLAF-seq: an efficient method of large-scale de novo SNP discovery and genotyping using high-throughput sequencing
    • Sun X, Liu D, Zhang X, Li W, Liu H, Hong W, Jiang C, Guan N, Ma C, Zeng H, et al. SLAF-seq: an efficient method of large-scale de novo SNP discovery and genotyping using high-throughput sequencing. PLoS One. 2013;5:e58700.
    • (2013) PLoS One , vol.5
    • Sun, X.1    Liu, D.2    Zhang, X.3    Li, W.4    Liu, H.5    Hong, W.6    Jiang, C.7    Guan, N.8    Ma, C.9    Zeng, H.10
  • 22
    • 0000569160 scopus 로고
    • Confidence interval estimators for heritability for several mating and experiment designs
    • Knapp SJ, Bridges WC. Confidence interval estimators for heritability for several mating and experiment designs. Theor Appl Genet. 1987;73:759-63.
    • (1987) Theor Appl Genet , vol.73 , pp. 759-763
    • Knapp, S.J.1    Bridges, W.C.2
  • 23
    • 0019321718 scopus 로고
    • Rapid isolation of high molecular weight plant DNA
    • Murray MG, Thompson WF. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res. 1980;8:4321-5.
    • (1980) Nucleic Acids Res , vol.8 , pp. 4321-4325
    • Murray, M.G.1    Thompson, W.F.2
  • 25
    • 0036226603 scopus 로고    scopus 로고
    • BLAT - the BLAST-like alignment tool
    • Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002;12:656-64.
    • (2002) Genome Res , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 27
    • 33846494048 scopus 로고    scopus 로고
    • A modified algorithm for the improvement of composite interval mapping
    • Li H, Ye G, Wang J. A modified algorithm for the improvement of composite interval mapping. Genetics. 2007;175:361-74.
    • (2007) Genetics , vol.175 , pp. 361-374
    • Li, H.1    Ye, G.2    Wang, J.3
  • 28
    • 8844230989 scopus 로고    scopus 로고
    • LUCY2: an interactive DNA sequence quality trimming and vector removal tool
    • Li S, Chou HH. LUCY2: an interactive DNA sequence quality trimming and vector removal tool. Bioinformatics. 2004;20:2865-6.
    • (2004) Bioinformatics , vol.20 , pp. 2865-2866
    • Li, S.1    Chou, H.H.2
  • 29
    • 77951820899 scopus 로고    scopus 로고
    • Fast and SNP-tolerant detection of complex variants and splicing in short reads
    • Wu TD, Nacu S. Fast and SNP-tolerant detection of complex variants and splicing in short reads. Bioinformatics. 2010;26:873-81.
    • (2010) Bioinformatics , vol.26 , pp. 873-881
    • Wu, T.D.1    Nacu, S.2
  • 31
    • 84865438759 scopus 로고    scopus 로고
    • Identification of a major quantitative trait locus for resistance to maize rough dwarf virus in a Chinese maize inbred line X178 using a linkage map based on 514 gene-derived single nucleotide polymorphisms
    • Shi LY, Hao ZF, Weng JF, Xie CX, Liu CL, Zhang DG, Li MS, Bai L, Li XH, Zhang SH. Identification of a major quantitative trait locus for resistance to maize rough dwarf virus in a Chinese maize inbred line X178 using a linkage map based on 514 gene-derived single nucleotide polymorphisms. Mol Breeding. 2012;30:615-25.
    • (2012) Mol Breeding , vol.30 , pp. 615-625
    • Shi, L.Y.1    Hao, Z.F.2    Weng, J.F.3    Xie, C.X.4    Liu, C.L.5    Zhang, D.G.6    Li, M.S.7    Bai, L.8    Li, X.H.9    Zhang, S.H.10
  • 32
    • 0027278088 scopus 로고
    • Detecting marker-QTL linkage and estimating QTL gene effect and map location using a saturated genetic map
    • Darvasi A, Weinreb A, Minke V, Weller JI, Soller M. Detecting marker-QTL linkage and estimating QTL gene effect and map location using a saturated genetic map. Genetics. 1993;134:943-51.
    • (1993) Genetics , vol.134 , pp. 943-951
    • Darvasi, A.1    Weinreb, A.2    Minke, V.3    Weller, J.I.4    Soller, M.5
  • 33
    • 84939883907 scopus 로고    scopus 로고
    • Identification of a new maize inflorescence meristem mutant and association analysis using SLAF-seq method
    • Xia C, Chen LL, Rong TZ, Li R, Xiang Y, Wang P, Liu CH, Dong XQ, Liu B, Zhao D, et al. Identification of a new maize inflorescence meristem mutant and association analysis using SLAF-seq method. Euphytica. 2014;202:35-44.
    • (2014) Euphytica , vol.202 , pp. 35-44
    • Xia, C.1    Chen, L.L.2    Rong, T.Z.3    Li, R.4    Xiang, Y.5    Wang, P.6    Liu, C.H.7    Dong, X.Q.8    Liu, B.9    Zhao, D.10
  • 34
    • 84924340040 scopus 로고    scopus 로고
    • Construction of a high-density genetic map based on large-scale markers developed by specific length amplified fragment sequencing (SLAF-seq) and its application to QTL analysis for isoflavone content in Glycine max
    • Li B, Tian L, Zhang J, Huang L, Han F, Yan S, Wang L, Zheng H, Sun J. Construction of a high-density genetic map based on large-scale markers developed by specific length amplified fragment sequencing (SLAF-seq) and its application to QTL analysis for isoflavone content in Glycine max. BMC Genomics. 2014;15:1086.
    • (2014) BMC Genomics , vol.15 , pp. 1086
    • Li, B.1    Tian, L.2    Zhang, J.3    Huang, L.4    Han, F.5    Yan, S.6    Wang, L.7    Zheng, H.8    Sun, J.9
  • 35
    • 84884486009 scopus 로고    scopus 로고
    • Construction of a high-density genetic map for sesame based on large scale marker development by specific length amplified fragment (SLAF) sequencing
    • Zhang Y, Wang L, Xin H, Li D, Ma C, Ding X, Hong W, Zhang X. Construction of a high-density genetic map for sesame based on large scale marker development by specific length amplified fragment (SLAF) sequencing. BMC Plant Biol. 2013;13:141.
    • (2013) BMC Plant Biol , vol.13 , pp. 141
    • Zhang, Y.1    Wang, L.2    Xin, H.3    Li, D.4    Ma, C.5    Ding, X.6    Hong, W.7    Zhang, X.8
  • 37
    • 53649106195 scopus 로고    scopus 로고
    • Next-generation DNA sequencing
    • Shendure J, Ji H. Next-generation DNA sequencing. Nat Biotechnol. 2008;26:1135-45.
    • (2008) Nat Biotechnol , vol.26 , pp. 1135-1145
    • Shendure, J.1    Ji, H.2
  • 39
    • 46249108515 scopus 로고    scopus 로고
    • Mapping quantitative trait loci for oil, starch, and protein concentrations in grain with high-oil maize by SSR markers
    • Zhang J, Lu XQ, Song XF, Yan JB, Song TM, Dai JR, Rocheford T, Li JS. Mapping quantitative trait loci for oil, starch, and protein concentrations in grain with high-oil maize by SSR markers. Euphytica. 2007;162:335-44.
    • (2007) Euphytica , vol.162 , pp. 335-344
    • Zhang, J.1    Lu, X.Q.2    Song, X.F.3    Yan, J.B.4    Song, T.M.5    Dai, J.R.6    Rocheford, T.7    Li, J.S.8
  • 40
    • 50249156854 scopus 로고    scopus 로고
    • QTL mapping of resistance to Fusarium ear rot using a RIL population in maize
    • Ding JQ, Wang XM, Chander S, Yan JB, Li JS. QTL mapping of resistance to Fusarium ear rot using a RIL population in maize. Mol Breeding. 2008;22:395-403.
    • (2008) Mol Breeding , vol.22 , pp. 395-403
    • Ding, J.Q.1    Wang, X.M.2    Chander, S.3    Yan, J.B.4    Li, J.S.5
  • 42
    • 67651108806 scopus 로고    scopus 로고
    • The genetics of quantitative traits: challenges and prospects
    • Mackay TF, Stone EA, Ayroles JF. The genetics of quantitative traits: challenges and prospects. Nat Rev Genet. 2009;10:565-77.
    • (2009) Nat Rev Genet , vol.10 , pp. 565-577
    • Mackay, T.F.1    Stone, E.A.2    Ayroles, J.F.3
  • 43
    • 84939884542 scopus 로고    scopus 로고
    • Identification of large-effect QTL for kernel row number has potential for maize yield improvement
    • Cai L, Li K, Yang X, Li J. Identification of large-effect QTL for kernel row number has potential for maize yield improvement. Mol Breeding. 2014;34:1087-96.
    • (2014) Mol Breeding , vol.34 , pp. 1087-1096
    • Cai, L.1    Li, K.2    Yang, X.3    Li, J.4
  • 44
    • 0025943740 scopus 로고
    • Genetic analysis of the morphological differences between maize and teosinte
    • Doebley J, Stec A. Genetic analysis of the morphological differences between maize and teosinte. Genetics. 1991;129:285-95.
    • (1991) Genetics , vol.129 , pp. 285-295
    • Doebley, J.1    Stec, A.2
  • 47
    • 84879520811 scopus 로고    scopus 로고
    • Bulk segregant RNA-seq reveals expression and positional candidate genes and allele-specific expression for disease resistance against enteric septicemia of catfish
    • Wang R, Sun L, Bao L, Zhang J, Jiang Y, Yao J, Song L, Feng J, Liu S, Liu Z. Bulk segregant RNA-seq reveals expression and positional candidate genes and allele-specific expression for disease resistance against enteric septicemia of catfish. BMC Genomics. 2013;14:1-18.
    • (2013) BMC Genomics , vol.14 , pp. 1-18
    • Wang, R.1    Sun, L.2    Bao, L.3    Zhang, J.4    Jiang, Y.5    Yao, J.6    Song, L.7    Feng, J.8    Liu, S.9    Liu, Z.10
  • 48
    • 84874844031 scopus 로고    scopus 로고
    • Grass meristems II: inflorescence architecture, flower development and meristem fate
    • Tanaka W, Pautler M, Jackson D, Hirano HY. Grass meristems II: inflorescence architecture, flower development and meristem fate. Plant Cell Physiol. 2013;54:313-24.
    • (2013) Plant Cell Physiol , vol.54 , pp. 313-324
    • Tanaka, W.1    Pautler, M.2    Jackson, D.3    Hirano, H.Y.4
  • 50
    • 84860227008 scopus 로고    scopus 로고
    • A sequential quantitative trait locus fine-mapping strategy using recombinant-derived progeny
    • Yang Q, Zhang D, Xu M. A sequential quantitative trait locus fine-mapping strategy using recombinant-derived progeny. J Integr Plant Biol. 2012;54:228-37.
    • (2012) J Integr Plant Biol , vol.54 , pp. 228-237
    • Yang, Q.1    Zhang, D.2    Xu, M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.