Identified and Candidate Gene Analysis of a White Stripe Leaf Mutant wsl2 in Foxtail Millet

doi:10.7668/hbnxb.20190654

Abstract

Abstract: Leaf color mutant is one of the ideal materials to explore the development mechanism of chloroplast and the utilization of C4 light energy in foxtail millet. To study the molecular mechanism of leaf color mutant in foxtail millet,we screened and identified a stripe leaf mutant wsl2 from the EMS mutagenesis library of the main variety Changnong 35. The mutant was studied through phenotype identification,genetic background detection and genetic analysis,location of the mutant gene rapidly and precisely with MutMap method and developing co-isolated molecular markers according to the mutation site. The results showed that wsl2 showed stripe leaf phenotype at seedling stage,but returned to normal leaf phenotype from jointing stage. wsl2 had the same genetic background as the wild type by detecting the genetic background. And wsl2 was controlled by a recessive nuclear gene with genetic analysis. The association interval contained 9 non-synonymous mutant genes by MutMap method. Seita.9G561800 encoded a PsbP-like protein associated with chloroplast,containing 6 exons and 5 introns. A G/T base mutation occured at 77 bp in the first exon,resulting in an arginine(R)becoming leucine(L). The mutation site of candidate gene in wsl2 mutant was further verified by the dCAPS marker MRI498-1(Cac8 Ⅰ)and the co-isolation marker MRI501-3. This study identified a new stripe leaf mutant wsl2, which laid a theoretical foundation for further study on the mechanism of photosynthesis reaction of PsbP gene,enriched the resources of leaf color mutant,and verified the effectiveness of MutMap method in cloning mutant gene in foxtail millet.

Key words: Foxtail millet, White stripe leaf mutant wsl2, MutMap, Candidate gene analysis

CLC Number:

S515
Q78

WANG Qiulan, WANG Zhilan, HAN Fang, DU Xiaofen, LIAN Shichao, HAN Kangni, ZHOU Xue, LI Huijuan, ZHANG Linyi, WANG Jun, GUO Erhu. Identified and Candidate Gene Analysis of a White Stripe Leaf Mutant wsl2 in Foxtail Millet[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2020, 35(1): 214-221. doi: 10.7668/hbnxb.20190654.

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References

[1] Zhao S L,Long W H,Wang Y H,Liu L L,Wang Y L,Niu M,Zheng M,Wang D,Wan J M. A rice White-stripe leaf3 (wsl3)mutant lacking an HD domain-containing protein affects chlorophyll biosynthesis and chloroplast development[J]. Journal of Plant Biology,2016,59(3):282-292.doi:10.1007/s12374-016-0459-8.
[2] van Rooijen R, Kruijer W, Boesten R, van Eeuwijk F A, Harbinson J, Aarts M G M.Natural variation of YELLOW SEEDLING 1 affects photosynthetic acclimation of Arabidopsis thaliana[J]. Nature Communications,2017,8(1):1424.doi:10.1038/s41467-017-01576-3.
[3] Wang N,Liu Z Y,Zhang Y,Li C Y,Feng H. Identification and fine mapping of a stay-green gene(Brnye1)in pakchoi(Brassica campestris L. ssp. chinensis)[J]. Theoretical and Applied Genetics,2018,131(3):673-684.doi:10.1007/s00122-017-3028-8.
[4] 邹金财,张维林,夏明辉,邱洋松,王长春,杨玲,张小明.水稻阶段性温敏白化转绿突变体 stgra254 的特征和基因定位[J].华北农学报,2017,32(3):1-6.doi:10.7668/hbnxb.2017.03.001.
Zou J C,Zhang W L,Xia M H,Qiu Y S,Wang C C,Yang L,Zhang X M. Characterization and gene mapping of stage thermo-sensitive green-revertible albino mutant stgra254 in rice[J].Acta Agriculturae Boreali-Sinica,2017,32(3):1-6.
[5] Junqueira N E G, Ortiz-Silva B, Leal-Costa M V, Alves-Ferreira M, Dickinson H G, Langdale J A, Reinert F.Anatomy and ultrastructure of embryonic leaves of the C4 species Setaria viridis[J]. Annals of Botany,2018,121(6):1163-1172.doi:10.1093/aob/mcx217.
[6] Jia G Q,Huang X H,Zhi H,Zhao Y,Zhao Q,Li W J,Chai Y,Yang L F,Liu K Y,Lu H Y,Zhu C R,Lu Y Q,Zhou C C,Fan D L,Weng Q J,Guo Y L,Huang T,Zhang L,Lu T T,Feng Q,HaO H F,Liu H K,Lu P,Zhang N,Li Y H,Guo E H,Wang S J,Wang S Y,Liu J R,Zhang W F,Chen G Q,Zhang B J,Li W, Wang Y F,Li H Q,Zhao B H,Li J Y,Diao X M,Han B. A haplotype map of genomic variations and genome-wide association studies of agronomic traits in foxtail millet(Setaria italica)[J]. Nature Genetics,2013,45(8):957-961.doi:10.1038/ng.2673.
[7] 贾冠清,刁现民.谷子(Setaria italica (L.)P. Beauv.)作为功能基因组研究模式植物的发展现状及趋势[J].生命科学,2017,29(3):292-301.doi:10.13376/j.cbls/2017039.
Jia G Q,Diao X M. Current status and perspectives of researches on foxtail millet(Setaria italica (L.)P. Beauv):A potential model of plant functional genomics studies[J]. Chinese Bulletin of Life Sciences,2017,29(3):292-301.
[8] Luo M Z,Zhang S,Tang C J,Jia G Q,Tang S,Zhi H,Diao X M.Screening of mutants related to the C4 photosynthetic kranz structure in foxtail millet[J]. Frontiers in Plant Science,2018,9:1650.doi:10.3389/fpls.2018.01650.
[9] Li W,Tang S,Zhang S,Shan J G,Tang C J,Chen Q N,Jia G Q,Han Y H,Zhi H,Diao X M. Gene mapping and functional analysis of the novel leaf color gene SiYGL1 in foxtail millet(Setaria italica (L.)P. Beauv)[J]. Physiologia Plantarum,2016,157(1):24-37.doi:10.1111/ppl.12405.
[10] Tang C J,Tang S,Zhang S,Luo M Z,Jia G Q,Zhi H,Diao X M. SiSTL1 encoding a large subunit of ribonudeotide reductase,is crucial for plant growth,chloroplast biogenesis,and cell cycle progression in Setaria italica[J]. Journal of Experimental Botany,2019,70(4):1167-1182.doi:10.1093/jxb/ery429.
[11] Zhang S, Tang S, Tang C J, Luo M Z, Jia G Q, Zhi H, Diao X M. SiSTL2 is required for cell cycle,leaf organ development,chloroplast biogenesis,and has effects on C₄ photosynthesis in Setaria italica (L.)P. Beauv[J]. Frontiers in Plant Science,2018,9:1103.doi:10.3389/fpls.2018.01103.
[12] Yoo S C,Cho S H,Sugimoto H,Li J 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[J]. Plant Physiol,2009,150(1):388-401.doi:10.1104/pp.109.136648.
[13] Kusumi K,Mizutani A,Nishimura M,Iba K. A virescent gene V1 determines the expression timing of plastid genes for transcription/translation apparatus during early leaf development in rice[J]. The Plant Journal,1997,12(6):1241-1250.doi:10. 1046/j.1365-313x. 1997. 12061241.
x.
[14] Sugimoto H,Kusumi K,Tozawa Y,Yazaki J,Kishimoto N,Kikuchi S,Iba K. The virescent-2 mutation inhibits translation of plastid transcripts for the plastid genetic system at an early stage of chloroplast differentiation[J]. Plant and Cell Physiology,2004,45(8):985-996.doi:10.1093/pcp/pch111.
[15] 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[J]. The Plant Journal,2007,52(3):512-527.doi:10.1111/j.1365-313X.2007.03251.
x.
[16] Dong H,Fei G L,Wu C Y,Wu F Q,Sun Y Y,Chen M J,Ren Y L,Zhou K N,Cheng Z J,Wang J L,Jiang L,Zhang X,Guo X P,Lei C L,Su N,Wang H Y,Wan J M. A rice virescent-yellow leaf mutant reveals new insights into the role and assembly of plastid caseinolytic protease in higher plants[J]. Plant Physiol,2013,162(4):1867-1880.doi:10.1104/pp.113.217604.
[17] Tan J J,Tan Z H,Wu F Q,Sheng P K,Heng Y Q,Wang X H,Ren Y L,Wang J L,Guo X P,Zhang X,Cheng Z J,Jiang L,Liu X M,Wang H Y,Wan J M. A novel chloroplast-localized pentatricopeptide repeat protein involved in splicing affects chloroplast development and abiotic stress response in rice[J]. Molecular Plant,2014,7(8):1329-1349.doi:10.1093/mp/ssu054.
[18] Wang Y,Ren Y L,Zhou K N,Liu L L,Wang J L,Xu Y,Zhang H,Zhang L,Feng Z M,Wang L W,Ma W W,Wang Y L,Guo X P,Zhang X,Lei C L,Cheng Z J,Wan J M. WHITE STRIPE LEAF4 encodes a novel P-Type PPR protein required for chloroplast biogenesis during early leaf development[J]. Frontiers in Plant Science,2017,8:1116.doi:10.3389/fpls.2017.01116.
[19] Liu X,Lan J,Huang Y S,Cao P H,Zhou C L,Ren Y K,He N Q,Liu S J,Tian Y L,Thanhliem N,Jiang L,Wan J M. WSL5,a pentatricopeptide repeat protein,is essential for chloroplast biogenesis in rice under cold stress[J]. Journal of Experimental Botany,2018,69(16):3949-3961.doi:10.1093/jxb/ery259.
[20] Lü Y S,Shao G N,Qiu J H,Jiao G A,Sheng Z H,Xie L H,Wu Y W,Tang S Q,Wei X J,Hu P S. White Leaf and Panicle 2,encoding a PEP-associated protein,is required for chloroplast biogenesis under heat stress in rice[J]. J Exp Bot,2017,68(18):5147-5160.doi:10.1093/jxb/erx332.
[21] Wang L W,Wang C M,Wang Y H,Niu M,Ren Y L,Zhou K N,Zhang H,Lin Q B,Wu F Q,Cheng Z J,Wang J L,Zhang X,Guo X P,Jiang L,Lei C L,Wang J,Zhu S S,Zhao Z C,Wan J M. WSL3,a component of the plastid-encoded plastid RNA polymerase,is essential for early chloroplast development in rice[J]. Plant Molecular Biology,2016,92(4-5):581-595.doi:10.1007/s11103-016-0533-0.
[22] Zhou K N, Ren Y L, Zhou F, Wang Y, Zhang L, Lyu J, Zhao S L, Ma W W, Zhang H, Wang L W, Wang C M, Wu F Q, Zhang X, Guo X P, Cheng Z J, Wang J L, Lei C L, Jiang L, Li Z F, Wan J M. Young Seedling Stripe1 encodes a chloroplast nucleoid-associated protein required for chloroplast development in rice seedlings[J]. Planta,2017,245(1):45-60.doi:10.1007/s00425-016-2590-7.
[23] Song J,Wei X J,Shao G N,Sheng Z H,Chen D B,Liu C L,Jiao G A,Xie L H,Tang S Q,Hu P S. The rice nuclear gene WLP1 encoding a chloroplast ribosome L13 protein is needed for chloroplast development in rice grown under low temperature conditions[J].Plant Molecular Biology,2014,84(3):301-314.doi:10.1007/s11103-013-0134-0.
[24] Wang Y L,Wang C M,Zheng M,Lyu J,Xu Y,Li X H,Niu M,Long W H,Wang D,Wang H Y,Terzaghi W,Wang Y H,Wan J M. WHITE PANICLE1,a Val-tRNA synthetase regulating chloroplast ribosome biogenesis in rice,is essential for early chloroplast development[J]. Plant Physiology,2016,170(4):2110-2123.doi:10.1104/pp.15.01949.
[25] Zhou K N,Xia J F,Wang Y L,Ma T C,Li Z F. A Young Seedling Stripe2 phenotype in rice is caused by mutation of a chloroplast-localized nucleoside diphosphate kinase 2 required for chloroplast biogenesis[J]. Genetics and Molecular Biology,2017,40(3):630-642.doi:10.1590/1678-4685-GMB-2016-0267.
[26] Ye W J,Hu S K,Wu L W,Ge C W,Cui Y T,Chen P,Wang X Q,Xu J,Ren D Y,Dong G J,Qian Q,Guo L B. White stripe leaf 12 (WSL12),encoding a nucleoside diphosphate kinase 2(OsNDPK2),regulates chloroplast development and abiotic stress response in rice(Oryza sativa L.)[J]. Molecular Breeding:New Strategies in Plant Improvement,2016,36:57.doi:10. 1007/s11032-016-0479-6.
[27] Sheng P K,Tan J J,Jin M N,Wu F Q,Zhou K N,Ma W W,Heng Y Q,Wang J L,Guo X P,Zhang X,Cheng Z J,Liu L L,Wang C M,Liu X M,Wan J M. Albino midrib 1,encoding a putative potassium efflux antiporter,affects chloroplast development and drought tolerance in rice[J]. Plant Cell Reports,2014,33(9):1581-1594.doi:10.1007/s00299-014-1639-y.
[28] Wang J,Yuan F,Yang H Q,Li Y H,Fan H P,Wang L X,Zhang A Y,Guo R H. Identification and analysis of mature plant type mutants of M₁ generation of foxtail millet Changnong 35 treated with EMS mutagenesis[J]. Agricultural Science & Technology,2011,12(11):1628-1632.doi:10.6175/j.cnki.1009-4229.2011.11.032.
[29] Abe A, Kosugi S, Yoshida K, Natsume S, Takagi H, Kanzaki H, Matsumura H, Yoshida K, Mitsuoka C, Tamiru M, Innan H, Cano L, Kamoun S, Terauchi R. Genome sequencing reveals agronomically important loci in rice using MutMap[J]. Nature Biotechnology,2012,30(2):174-178.doi:10.1038/nbt.2095.
[30] James G V, Patel V, Nordström K J, Klasen J R, Salomé P A, Weigel D, Schneeberger K.User guide for mapping-by-sequencing in A rabidopsis[J].Genome Biology,2013,14(6):R61.doi:10.1186/gb-2013-14-6-r61.
[31] You Q,Zhang L W,Yi X,Zhang Z H,Xu W Y,Su Z. SIFGD: Setaria italica functional genomics database[J]. Molecular Plant,2015,8(6):967-970.doi:10.1016/j.molp.2015.02.001.
[32] 陈竹锋,严维,王娜,张文辉,谢刚,卢嘉威,简智华,刘东风,唐晓艳.利用改进的MutMap方法克隆水稻雄性不育基因[J].遗传,2014,36(1):85-93.doi:10.3724/SP.J.1005.2014.00085.
Chen Z F,Yan W,Wang N,Zhang W H,Xie G,Lu J W,Jian Z H,Liu D F,Tang X Y. Cloning of a rice male sterility gene by a modified MutMap method[J]. Hereditas,2014,36(1):85-93.
[33] 袁金红,李俊华,袁娇娇,贾克利,李书粉,邓传良,高武军.基于全基因组测序的MutMap方法在正向遗传学研究中的应用[J].遗传,2017,39(12):1168-1177.doi:10.16288/j.yczz.17-095.
Yuan J H,Li J H,Yuan J J,Jia K L,Li S F,Deng C L,Gao W J. The application of MutMap in forward genetic studies based on whole-genome sequencing[J]. Hereditas,2017,39(12):1168-1177.
[34] 郭广君,刁卫平,刘金兵,潘金宝,戈伟,王述彬.辣椒抗黄瓜花叶病毒病研究进展[J].华北农学报,2014,29(S1):77-84.doi:10.7668/hbnxb2014.
S1.017.
Guo G J,Diao W P,Liu J B,Pan J B,Ge W,Wang S B. Research process of resistance to Cucumber mosaic virus in pepper[J]. Acta Agriculturae Boreali-Sinica,2014,29(S1):77-84.
[35] Ifuku K,Ishihara S,Shimamoto R,Ido K,Sato F. Structure,function,and evolution of the PsbP protein family in higher plants[J]. Photosynthesis Research,2008,98(1-3):427-437.doi:10.1007/s11120-008-9359-1.
[36] Bricker T M,Roose J L,Zhang P P,Frankel L K.The PsbP family protiens[J].Photosynthesis Research,2013,116(2-3):235-250.doi:10.1007/s11120-013-9820-7.
[37] Tsai C C,Wu Y J,Sheue C R,Liao P C,Chen Y H,Li S J,Liu J W,Chang H T,Liu W L,Ko Y Z,Chiang Y C. Molecular basis underlying leaf variegation of a moth orchid mutant(Phalaenopsis aphrodite subsp. formosana)[J]. Frontiers in Plant Science,2017,8:1333.doi:10.3389/fpls.2017.01333.
[38] Ifuku K,Yamamoto Y,Ono T A,Ishihara S,Sato F. PsbP protein,but not PsbQ protein,is essential for the regulation and stabilization of photosystem Ⅱ in higher plants[J]. Plant Physiology,2005,139(3):1175-1184.doi:10.1104/pp.105.068643.
[39] Ishihara S, Takabayashi A, Ido K, Endo T, Ifuku K, Sato F.Distinct functions for the two PsbP-like proteins PPL1 and PPL2 in the chloroplast thylakoid lumen of Aarabidopsis[J]. Plant Physiology,2007,145(3):668-679.doi:10.1104/pp.107.105866.
[40] Ishihara S,Takabayashi A,Endo T,Ifuku K,Sato F. Functional analysis of two PsbP-like(PPL)proteins in Arabidopsis thaliana[M]//Allen J F,Gantt E,Golbeck J H,Osmond B.Photosynthesis. Energy from the Sun Dordrech:Springer,2008:1091-1094.doi:10.1007/978-1-4020-6709-9_237.
[41] Liu J,Yang H X,Lu Q T,Wen X G,Chen F,Peng L W,Zhang L X,Lu C M. PsbP-domain protein1,a nuclear-encoded thylakoid lumenal protein,is essential for photosystem I assembly in Arabidopsis[J]. The Plant Cell,2012,24(12):4992-5006.doi:10.1105/tpc.112.106542.
[42] Ifuku K,Yamamoto Y,Sato F. Specific RNA interference in psbP genes encoded by a multigene family in Nicotiana tabacum with a short 3'untranslated sequence[J]. Bioscience,Biotechnology,and Biochemistry,2003,67(1):107-113.doi:10.1271/bbb.67.107.
[43] Ishihara S,Yamamoto Y,Ifuku K,Sato F. Functional analysis of four members of the PsbP family in photosystem Ⅱ in Nicotiana tabacum using differential RNA interference[J]. Plant and Cell Physiology,2005,46(12):1885-1893.doi:10.1093/pcp/pci207.

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