中棉所12及其选系配制的4个杂交棉幼苗期基因差异表达

doi:10.3724/SP.J.1006.2009.01637

摘要/Abstract

摘要：

以与中棉所12及其2个选系为亲本组配的4个杂交棉中棉所28、中棉所29、湘杂棉2号和冀棉18苗期的根和顶端叶为研究材料，采用cDNA-AFLP技术分析苗期杂交棉与亲本的根和叶基因差异表达，并用Quantitative Real-Time技术加以验证。结果表明：(1)在4个杂交组合中，中棉所12选系是营养生长杂种优势高值亲本；(2)杂交种和亲本间存在显著的基因表达差异，可分为杂交种上调、单亲显性、单亲沉默、杂交种下调4种表达型。4个杂交组合在三叶期根和叶中差异表达基因的4种类型比例趋势基本一致，单亲差异表达型(包括显性和沉默表达)在根和叶中所占比例较高，杂种下调表达型所占比例较低，反映出苗期单亲差异表达型在杂种优势形成中起主要作用；叶部差异表达基因数目和比例(29.20%~46.09%)比根(15.65%~22.49%)高的多，说明叶中基因差异表达可能比根中基因差异表达对杂种优势形成作用更大；(3)高值亲本中棉所12选系与杂交棉共同表达的基因多于低值亲本与杂交棉共同表达的基因，从分子水平上证明中棉所12选系在杂交棉冀棉18、中棉所29和中棉所28的苗期营养生长杂种优势产生中起优势亲本的作用；(4) 4种杂交组合差异表达基因(包含叶和根)占总表达基因的27.00%~34.56%，分析差异表达基因类型和4个杂交组合的关系发现，超显性效应占3.30%~7.17%，超低亲效应占2.62%~4.14%，低亲效应占5.65%~13.03%，显性效应和加性效应是主要的杂种优势效应，占79.52%~83.79%。多种杂种优势效应的并存说明杂种优势可能是多基因共同作用产生多种效应的结果；(5)超亲优势组合中棉所28的超显性效应占7.17%，明显高于其他3个表现中亲优势组合，说明杂交种上调表达型可能对苗期杂种优势产生起重要作用。

关键词: 中棉所12, 杂交棉, 基因差异表达

Abstract:

CRI-12, an Upland cotton variety with high yield, elite fiber quality and disease resistance, is characterized by its high heritability, combining ability and genetic stability. CRI-12 and its pedigree-derived lines were used to develop high heterosis cotton hybrids such as Zhongmiansuo 28, CRI-29, XZM2, and Jimian 18. The roots and leaves at seedling stage of these hybrids and their corresponding parents were sampled for cDNA-AFLP analysis and validation by Quantitative Real-Time PCR. The results were as follows: (1) CIR-12 played a predominant role in the heterosis of vegetative growth in CRI-28, CRI-29, and Jimian18 at seedling stage. (2) Four differential expression types were detected between the hybrid and its parents: I. Up expression only showed in hybrid but not in both parents; II. Dominant expression showed in one of the parents but not in F₁ and another parent, including the expression pattern in female parent and hybrid not in male parent, and the expression pattern in male parent and hybrid not in female parent; III. The gene silenced in one of the parents, including the expression pattern in male parent not in hybrid and female parent and the expression pattern in female parent not in hybrid and male parent, IV. Down expression showed in both parents but not in F₁. The tendency of proportion in four types was consistent and showed a high ratio in dominant expression and silencing in single parent, but a low ratio in down expression in roots and leaves of hybrids. The type expressed only in one parent and F1 or only in one parent played main role in heterosis. Differential expression genes in leaves and roots accounted for 29.20–46.09% and 15.65–22.49%, respectively. The differential expression genes in leaves were more than those in roots, indicating that some genes play larger roles for heterosis than these in roots. (3) Genes co-expressed between hybrids and high value parent CRI-12 and/or its derived lines were much more than those between hybrids and the relative low value parents, indicating that CIR-12 plays a predominant role in the expression of genes responsible for heterosis in CRI-28, CRI-29, and Jimian18 at seedling stage. (4) Differentially expressed genes in the four hybrids accounted for 27.00–34.56% of total genes detected. Further analysis revealed that the main modes of gene action involved in hybrids were additive and dominant effects accounting for 79.52–83.79%, and the effect of over-dominance accounting for 3.30–7.17%, under-dominance effects accounting for 2.62–4.14% and low-parent dominance effects accounting for 5.65–13.03%. All possible modes of gene action co-existed supported the hypothesis of multiple gene mechanisms contributed to heterosis. (5) Over-dominance effect in CRI-28 which express high parent heterotic is 7.17%, higher than that in three other middle heterotic crosses at three earlier growing stages, which suggesting the differential expression type expressed only in F₁ play an important role in heterosis of vegetative growth.

Key words: CRI-12, Hybrid Cotton, Differential Expression gene

朱新霞,朱一超,艾尼江,刘任重,张天真. 中棉所12及其选系配制的4个杂交棉幼苗期基因差异表达[J]. 作物学报, 2009, 35(9): 1637-1645.

ZHU Xin-Xia,ZHU Yi-Chao,AI Ni-Jiang,LIU Ren-Zhong,ZHANG Tian-Zhen. Gene Differential Expression at Seedling Stage in Four Cotton Combination Hybridized by CRI-12 and Its Pedigree-Deerived Lines[J]. Acta Agron Sin, 2009, 35(9): 1637-1645.

参考文献

[1] Tasftaris S A. Molecular aspects of heterosis in plants. Plant Physiol, 1995, 94: 362-370

[2] Sun Q X, Wu L M, Ni Z F, Meng F R, Wang Z K, Lin Z. Differential gene expression patterns in leaves between hybrids and their parental inbreds are correlated with heterosis in a wheat diallel cross. Plant Sci, 2004, 166: 651-657

[3] Adams K L, Evolution of duplicate gene expression in polyploid and hybrid plants.J Heredity, 2007, 98: 136-141

[4] Tan L-W(谭联望), Liu Z-D(刘正德). Research on selection and varietal traits of Zhongmian 12. Sci Agric Sin (中国农业科学), 1990, 23(3): 12-19 (in Chinese with English abstract )

[5] Guo X-M(郭香墨), Tan L-W(谭联望), Liu Z-D(刘正德).Evaluating germplasm resource value of Zhongmian 12.China Cotton (中国棉花), 2002, 29(12): 12-14(in Chinese with English abstract)

[6] Bachem C W, van der Hoeven R S, de Bruijn S M, Vreugdenhil D, Zabeau M, Visser R G. Visualization of differential gene expression using a novel method of RNA fingerprinting based on AFLP: Analysis of gene expression during potato tuber development. Plant J, 1996, 9: 745-753

[7] Breyne P, Dreesen R, Cannoot B, Rombaut D, Vandepoele K, Rombauts S, Vanderhaeghen R, Inzé D, Zabeau M. Quantitative cDNA-AFLP analysis for genome-wide expression studies. Mol Genet Genomics, 2003, 269: 173-179

[8] Xing C-Z(邢朝柱), Zhao Y-L(赵云雷), Yu S-X(喻树迅), Zhang X-L(张献龙), Guo L-P(郭立平), Miao C-D(苗成朵). Study on gene differential expression in roots and leaves between hybrid CRI47 and its parents at seedling stage. Sci Agric Sin (中国农业科学), 2005, 38(6): 1275-1281(in Chinese with English abstract)

[9] Huang Z-K(黄滋康) ed. China Cotton Variety and Family Tree (中国棉花品种及系谱). Beijing: Science Press, 2007 (in Chinese)

[10] Jiang J-X(蒋建雄), Zhang T-Z(张天真). Extraction of total RNA in tissues with CTAB- acidic phenolic method. Cotton Sci (棉花学报)，2003, 15(3)：166-167(in Chinese with English abstract)

[11] Sambrook J, Fritsh E F, Maniatis T, eds. Jin D-Y(金冬雁), trans. Molecular Clone Experimental Manual (分子克隆实验指南), 2nd edn. Beijing: Science Press, 1998 (in Chinese)

[12] Livak K J, Schmittgen T D. Analysis of relative gene expression data using real-time quantitative PCR and the 2-ΔΔCtmethod. Methods, 2001, 25: 402-408

[13] Pan Y-X(潘玉欣), Ma J(马骏), Zhang G-Y(张桂寅), Han G-Y(韩改英), Wang X-F(王省芬), Ma Z-Y(马峙英). cDNA-AFLP profiling for the fiber development stage of secondary cell wall synthesis and transcriptome mapping in cotton. Chin Sci Bull (科学通报), 2007, 52(17): 2358-2364

[14] Li G, Gao M, Yang B, Quiros C F. Gene for gene alignment between Brassica and Arabidopsis genomes by direct transcriptome mapping. Theor Appl Genet, 2003, 107: 168-180

[15] Kojima T, Habu Y, Lida S, Ogibara Y. Direct isolation of differentially expressed genes from a specific chromosome region of common wheat-Application the amplified fragment length polymotphism-based messenger-RNA fingerprinting (Amf) method in combination with a deletion line of wheat. Mol Gen Genet, 2000, 263: 635-641

[16] Zhang Y(张一), Ni Z-F(倪中福), Yao Y-Y(姚颖垠), Sun Q-X(孙其信). Differential gene expression in uppermost internode between wheat hybrid and its parents. Acta Agron Sin (作物学报), 2008, 34(5): 770-776 (in Chinese with English abstract)

[17] Hoecker N, Keller B, Piepho H P, Hochholdinger F. Manifestation of heterosis during early maize (Zea mays L.) root development. Theor Appl Genet, 2006, 112: 421-429

[18] Swanson-Wagner R A, Jia Y, DeCook R, Borsuk L A, Nettleton D, Schnable P S. All possible modes of gene action are observed in a global comparison of gene expression in a maize F1-hybrid and its inbred parents. Proc Natl Acad Sci USA, 2006, 103: 6805-6810

[19] Meyer S, Pospisil H, Scholten S. Heterosis associated gene expression in maize embryos 6 days after fertilization exhibits additive, dominant and overdominant pattern. Plant Mol Biol, 2007, 63: 381-391

[20] Hoecker N, Keller B, Muthreich N, Chollet D, Descombes P, Piepho H P, Hochholdinger F. Comparison of maize (Zea mays L.) F1-hybrid and parental inbred line primary root transcriptomes suggests organ-specific patterns of nonadditive gene expression and conserved expression trends. Genetics, 2008, 179: 1275-1283

[21] Sun Q X, Ni Z F, Liu Z Y. Differential gene expression between wheat hybrids and their parental inbreds in seedling leaves. Euphytica, 1999, 106: 117-123

[22] Xie X-D(谢晓东), Ni Z-F(倪中福), Meng F-R(孟凡荣), Wu L-M(吴利民), Wang Z-K(王章奎), Sun Q-X(孙其信). Relationship between difference of gene expression in early developing seed of hybrid versus parents and heterosis in wheat. Acta Genet Sin (遗传学报), 2003, 30(3): 260-266(in Chinese with English abstract)

[23] Wang Z-K(王章奎), Ni Z-F(倪中福), Meng F-R(孟凡荣), Wu L-M(吴利民), Xie X-D(谢晓东), Sun Q-X(孙其信). Primary study on the relationship between differential gene expression pattern in roots at jointing stage and heterosis in agronomic traits in a wheat diallel cross. Sci Agrci Sin (中国农业科学), 2003, 36(5): 473-479 (in Chinese with English abstract)

[24] Tian Z-Y(田曾元), Dai J-R(戴景瑞). Relationship between differential gene expression patterns in functional leaves of maize inbreds and hybrids at spikelet differentiation stage and heterosis. Acta Genet Sin (遗传学报), 2003, 30(2): 154-162 (in Chinese with English abstract)

[25] Xiong L Z, Yang G P, Xu C G, Zhang Q F. Relationships of differential gene expression in leaves with heterosis and heterozygosity in a rice diallel cross. Mol Breed, 1998, 4: 129-136

[26] Xing C-Z(邢朝柱), Yu S-X(喻树迅), Zhao Y-L(赵云雷), Guo L-P(郭立平), Zhang X-L(张献龙), Miao C-D(苗成朵), Wang H-L(王海林). Primary study on gene differential expression of Pest-resistant cotton hybrids between different heterosis crosses. Acta Agron Sin (作物学报), 2007, 33(3): 507-510(in Chinese with English abstract)

[27] Xing C-Z(邢朝柱), Zhao Y-L(赵云雷), Yu S-X(喻树迅), Zhang X-L(张献龙), Guo L-P(郭立平), Wang H-L(王海林). Relationship between gene differential expression of leaves in full opening flower stages of hybrids＆ their parents heterosis in pest-resistant cotton. Acta Genet Sin (遗传学报), 2006, 33(10): 948-956

[28] Wu M-S(吴敏生), Gao Z-H(高志环), Dai J-R(戴景瑞). Studies on differential gene expression of maize (Zea mays L.) by means of cDNA-AFLP. Acta Agron Sin (作物学报), 2001, 27(3): 339-342 (in Chinese with English abstract)

[29] Wu L-M(吴利民), Ni Z-F(倪中福), Wang Z-K(王章奎). Relationship between differential expression patterns of multigene families and heterosis in a wheat diallel crosses. Acta Genet Sin (遗传学报), 2001, 28(3): 256-266 (in Chinese with English abstract)

Wang Z, Ni Z, Wu H, Nie X, Sun Q.Heterosis in root development and differential gene expression between hybrids and their parental inbreds in wheat (Triticum aestivum L.). Theor Appl Genet, 2006, 113: 1283-1294

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