Chinese Journal OF Rice Science >
Phenotypic Analysis and Gene Mapping of a White Stripe Mutant st13 in Rice
Received date: 2016-12-20
Revised date: 2017-02-07
Online published: 2017-07-10
【Objective】Rice leaf color mutation identification and cloning of related genes is helpful to research photosynthesis and further understand the mechanism of chloroplast development and pigment synthesis pathway, providing theoretical basis for the breeding of rice with high photosynthetic efficiency.【Method】A somaclonal mutant (designated as stripe leaf 13, st13) was isolated from tissue-cultured progenies of a japonica rice variety Dongjin. The main agronomic traits of wild type and st13 were determined at maturity, and the pigment contents and ultrastructure of chloroplast were observed at the seedling stage. Dongjin and st13 were reciprocally crossed to observe the phenotype of F1 and genetic analysis was carried out. An F2 population and F2:3 population derived from the cross st13 × Nanjing 11 (an indica rice variety) were used for gene mapping of ST13. Quantitative RT-PCR was carried out to analyze the relative expression of genes associated with chloroplast development and chlorophyll biogenesis in the wild-type Dongjin and st13 mutant. 【Result】Compared to the wild type, the plant height, number of effective panicles, panicle length, seed-setting rate, and 1000-grain weight were all significantly reduced in the mutant. In agreement with leaf color, the pigment content of st13 mutant was reduced at the seedling stage but rose to almost the same level as the wild type at the tillering stage. With a transmission electron microscopy, defective chloroplasts with no thylakoid were observed in the st13 mutant. Genetic analysis indicated the mutant phenotype was controlled by a single recessive nuclear gene. ST13 was restricted to an interval between the InDel (insertion/deletion) markers I3-21 and I3-22 on chromosome 3. Six InDel markers were further developed and the ST13 gene was narrowed down to a 94-kb region, containing eight putative open reading frames. 【Conclusion】These eight candidate genes encode three putative proteins and five functional proteins respectively, while none of them have been reported in rice. Thus, ST13 was an unreported gene in rice. Relative to wild type, the expression levels of genes associated with chloroplast development, chlorophyll biosynthesis, and photosynthetic system were significantly altered in the mutant. So we hypothesized that ST13 might be the key gene for regulating chloroplast development.
Key words： rice; white stripe mutant; chloroplast; fine mapping
Liting SUN, Tianzi LIN, Yunlong WANG, Mei NIU, Tingting HU, Shijia LIU, Yihua WANG, Jianmin WAN . Phenotypic Analysis and Gene Mapping of a White Stripe Mutant st13 in Rice[J]. Chinese Journal OF Rice Science, 2017 , 31(4) : 355 -363 . DOI: 10.16819/j.1001-7216.2017.6165 355
| [1] | Fambrini M, Castagna A, Dalla V F, Degl’Innocenti E, Ranieri A, Vernieri P, Pardossi A, Guidi L, Rascio N, Pugliesi C. Characterization of a pigment-deficient mutant of sunflower (Helianthus annuus L.) with abnormal chloroplast biogenesis, reduced PSII activity and low endogenous level of abscisic acid. Plant Breeding, 2004, 6: 645-650. |
| [2] | Agrawal G K, Yamazaki M, Kobayashi M, Hirochika R, Miyao A, Hirochika H.Screening of the rice viviparous mutants generated by endogenous retrotransposon Tos17 insertion: Tagging of a zeaxanthin epoxidase gene and a novel ostatc gene. Plant Physiol, 2001, 125(3): 1248-1257. |
| [3] | Parks B M, Quail P H.Phytochrome-deficient hy1 and hy2 long hypocotyl mutants of Arabidopsis are defective in phytochrome chromophore biosynthesis. Plant Cell, 1991, 3(11): 1177-1186. |
| [4] | Kusumi K, Sakata C, Nakamura T, Kawasaki S, Yoshimura A, Iba K.A plastid protein NUS1 is essential for build-up of the genetic system for early chloroplast development under cold stress conditions.Plant J, 2011, 68(6): 1039-1050. |
| [5] | Lee S, Kim J H, Yoo E S, Lee C H, Hirochika H, An G.Differential regulation of chlorophyll a oxygenase genes in rice.Plant Mol Biol, 2005 57: 805-818. |
| [6] | Sugimoto H, Kusumi K, Noguchi K, Yano M, Yoshimura A, Iba K.The rice nuclear gene,VIRESCENT 2, is essential for chloroplast development and encodes a novel type of guanylate kinase targeted to plastids and mitochondria. Plant J, 2007, 52: 512-527. |
| [7] | Zhang H, Li J, Yoo J, Yoo S, Cho S, Koh H, Seo H S, Paek N.Rice chlorina-1 and chlorina-9 encode ChlD and ChlI subunits of Mg-chelatase, a key enzyme for chlorophyll synthesis and chloroplast development. Plant Mol Biol, 2006, 62: 325-337. |
| [8] | Jung K H, Hur J, Ryu C H, Choi Y, Chung Y Y, Miyao A, Hirochika H, An G.Characterization of a rice chlorophyll- deficient mutant using the T-DNA gene-trap system.Plant Cell Physiol, 2003, 44: 463-472. |
| [9] | Kong W, Yu X, Chen H, Liu L, Xiao Y, Wang Y, Wang C, Lin Y, Yu Y, Wang C, Jiang L, Zhai H, Zhao Z, Wan J.The catalytic subunit of magnesium-protoporphyrin IX monomethyl ester cyclase forms a chloroplast complex to regulate chlorophyll biosynthesis in rice.Plant Mol Biol, 2016, 92(1-2): 177-191. |
| [10] | Wang P, Gao J, Wan C, Zhang F, Xu Z, Huang X, Sun X, Deng X.Divinyl chlorophyll (ide) a can be converted to monovinyl chlorophyll (ide) a by a divinyl reductase in rice.Plant Physiol, 2010, 153: 994-1003. |
| [11] | Sakuraba Y, Rahman M L, Cho S H, Kim Y S, Koh H J, Yoo S C, Paek N C.The rice faded green leaf locus encodes protochlorophyllide oxidoreductase B and is essential for chlorophyll synthesis under high light conditions. Plant J, 2013, 74: 122-133. |
| [12] | Wu Z M, Zhang X, He B, Diao L, Sheng S, Wang J, Guo X, Su N, Wang L, Jiang L, Wang C, Zhai H, Wan J.A chlorophyll-deficient rice mutant with impaired chlorophyllide esterification in chlorophyll biosynthesis.Plant Physiol, 2007, 145: 29-40. |
| [13] | Yang Y, Xu J, Huang L, Leng Y, Dai L, Rao Y, Chen L, Wang Y, Tu Z, Hu J, Ren D, Zhang G, Zhu L, Guo L, Qian Q, Zeng D.PGL, encoding chlorophyllide a oxygenase 1, impacts leaf senescence and indirectly affects grain yield and quality in rice. J Exp Bot, 2016, 67(5): 1297-1310. |
| [14] | Sato Y, Morita R, Katsuma S, Nishimura M, Tanaka A, Kusaba M.Two short-chain dehydrogenase/reductases, NON-YELLOW COLORING 1 and NYC1-LIKE, are required for chlorophyll b and light-harvesting complex II degradation during senescence in rice.Plant J, 2009, 57: 120-131. |
| [15] | Wang L, Wang C, Wang Y, Niu M, Ren Y, Zhou K, Zhang H, Lin Q, Wu F, Cheng Z, Wang J, Zhang X, Guo X, Jiang L, Lei C, Wang J, Zhu S, Zhao Z, Wan J.WSL3, a component of the plastid-encoded plastid RNA polymerase, is essential for early chloroplast development in rice.Plant Mol Biol, 2016, 92(4-5): 581-595. |
| [16] | Wang Y, Wang C, Zheng M, Lyu J, Xu Y, Li X, Niu M, Long W, Wang D, Wang H Y, William T, Wang Y, Wan J.WHITE PANICLE1, a Val-tRNA synthetase regulating chloroplast ribosome biogenesis in rice, is essential for early chloroplast development.Plant Physiol, 2016, 170(4): 2110-2123. |
| [17] | Lopez-Juez E.Plastid biogenesis between light and shadows.J Exp Bot, 2007, 58: 11-26. |
| [18] | Sakamoto W, Miyagishima S Y, Jarvis P.Chloroplast biogenesis: Control of plastid development, protein import, division and inheritance.Arabidopsis Book, 2008, 6: e110. |
| [19] | Webber A N, Malkin R.Photosystem I reaction-centre proteins contain leucine zipper motifs. A proposed role in dimer formation.FEBS Lett, 1990, 264: 1-4. |
| [20] | Rutherford A W, Faller P.Photosystem II: evolutionary perspectives.Philos Trans R SocLond B Biol Sci. 2003, 358: 245-253. |
| [21] | Santis-Maciossek G D, Kofer W, Bock A, Schoch S, Maier R M, Wanner G, Rüdiger W, Koop Hans-Ulrich, Herrmann R G. Targeted disruption of the plastid RNA polymerase genes rpoA, B and C1: molecular biology biochemistry and ultrastructure. Plant J, 1999, 18: 477-489. |
| [22] | Peng L W, Yamamoto H, Shikanai T.Structure and biogenesis of the chloroplast NAD(P)H dehydrogenase complex.Biochim Biophys Acta, 2011, 1807: 945-953. |
| [23] | Andersson I, Backlund A.Structure and function of Rubisco.Plant Physiol Biochem, 2008, 46: 275-291. |
| [24] | Livak K J, Schmittgen T D.Analysis of relative gene expression data using real-time quantitative PCR and the 2 Delta Delta C (T)] method.Methods, 2001, 25: 402-408. |
| [25] | McCouch S R, Kochert G, Yu Z H, Wang Z Y, Khush G S, Coffman W R, Tanksley S D. Molecular mapping of rice chromosome.Theor Appl Genet, 1998, 76: 815-829. |
| [26] | Shi Y F, Chen J, Liu W Q, Huang Q N, Shen B, Leung H, Wu J L.Genetic analysis and gene mapping of a new rolled-leaf mutant in rice (Oryza sativa L.). Sci China C: Life Sci, 2009, 52: 885-890. |
| [27] | Kusumi K, Chono Y, Shimada H, Shimada H, Gotoh E, Tsuyama M, Iba K.Chloroplast biogenesis during the early stage of leaf development in rice.Plant Biotechnol, 2010, 27: 85-90. |
| [28] | Allen J F, Wilson B M, Puthiyaveetil S, Nield J.A structural phylogenetic map for chloroplast photosynthesis.Trends Plant Sci, 2011, 16: 645-655. |
| [29] | Pakrasi H B.Genetic analysis of the form, function of photosystem I and photosystem II.Annu Rev Genet, 1995, 29: 755-776. |
| [30] | 王兴春, 王敏, 季芝娟, 陈钊, 刘文真, 韩渊怀, 杨长登. 水稻糖苷水解酶基因OsBE1在叶绿体发育中的功能. 作物学报, 2014, 40(12): 2090-2097. |
| [30] | Wang X C, Wang M, Ji Z J, Chen Z, Liu W Z, Han Y H, Yang C D.Functional characterization of the glycoside hydrolase encoding gene OsBE1 during chloroplast development in Oryza sativa. Acta Agron Sin, 2014, 40(12): 2090-2097. (in Chinese with English abstract) |
| [31] | Gothandam K M, Kim E S, Cho H, Chung Y Y.OsPPR1, a pentatricopeptide repeat protein of rice is essential for the chloroplast biogenesis.Plant Mol Biol, 2005, 58(3): 421-433. |
| [32] | Lin D, Jiang Q, Zheng K, Chen S, Zhou H, Gong X, Xu J, Teng S, Dong Y.Mutation of the rice ASL2 gene encoding plastid ribosomal protein L21 causes chloroplast developmental defects and seedling death. Plant Biol (Stuttg), 2015, 17(3): 599-607. |
| [33] | Zhang Z, Tan J, Shi Z, Xie Q, Xing Y, Liu C, Chen Q, Zhu H, Wang J, Zhang J, Zhang G.Albino Leaf1 that encodes the sole octotricopeptide repeat protein is responsible for chloroplast development. Plant Physiol, 2016, 171(2): 1182-1191. |
| [34] | Yoo S C, Cho S H, Sugimoto H, Li J, Kusumi K, Koh H J, Iba K, Paek N C.Rice virescent3 and stripe1 encoding the large and small subunits of ribonucleotide reductase are required for chloroplast biogenesis during early leaf development.Plant Physiol, 2009, 150(1): 388-401. |
| [35] | Wang Y, Zhang J, Shi X, Peng Y, Li P, Lin D, Dong Y, Teng S.Temperature-sensitive albino geneTCD5, encoding a monooxygenase, affects chloroplast development at low temperatures. J Exp Bot, 2016, 67(17): 5187-5202. |
| [36] | Su N, Hu M L, Wu D X, Wu F Q, Fei G L, Lan Y, Chen X L, Shu X L, Zhang X, Guo X P, Cheng Z J, Lei C L, Qi C K, Jiang L, Wang H, Wan J M.Disruption of a rice pentatricopeptide repeat protein causes a seedling- specific albino phenotype and its utilization to enhance seed purity in hybrid rice production.Plant Physiol, 2012, 159(1): 227-238. |
| [37] | Klinghammer M, Tenhaken R.Genome-wide analysis of the UDP-glucose dehydrogenase gene family in Arabidopsis, a key enzyme for matrix polysaccharides in cell walls. J Exp Bot, 2007, 58(13): 3609-3621. |
| [38] | 孙兰茜, 常平安, 曾鑫, 韩丽萍, 冉凤, 王超颖, 王玲, 黄飞飞. 甘油磷酸二酯酶家族蛋白的分子进化. 基因组学与应用生物学, 2015, 34(27): 172-178. |
| [38] | Sun L X, Chang P A, Zeng X, Han L P, Ran F, Wang C Y, Wang L, Huang F F.Molecular evolution of the glycerophospho- diesterase family proteins.Genomics Appl Boil, 2015, 34(27): 172-178. (in Chinese with English abstract) |
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