作物学报 ›› 2023, Vol. 49 ›› Issue (4): 978-987.doi: 10.3724/SP.J.1006.2023.24071
雷建峰1(
), 李月2, 代培红2, 赵燚2, 尤扬子2, 贾建国1, 赵帅1, 曲延英1,*(
), 刘晓东2,*(
)
LEI Jian-Feng1(
), LI Yue2, DAI Pei-Hong2, ZHAO Yi2, YOU Yang-Zi2, JIA Jian-Guo1, ZHAO Shuai1, QU Yan-Ying1,*(
), LIU Xiao-Dong2,*(
)
摘要:
植物病毒介导sgRNA的传递与表达相比传统转化完整的编辑载体进行基因编辑具有巨大优势, 因为sgRNA的表达可以伴随着病毒的复制和移动而快速扩增、累积, 从而产生高效的基因编辑效率。为在棉花中开发应用更多植物病毒介导的基因编辑系统(virus-induced genome editing, VIGE)。本研究以超表达Cas9 (Cas9-OE)棉花作为VIGE受体, 在棉花中分别建立了棉花叶皱缩病毒(cotton leaf crumple virus, CLCrV)和烟草脆裂病毒(tobacco rattle virus, TRV)介导的VIGE系统。首先CLCrV和TRV介导的VIGE均可以靶向敲除棉花GhBsrk1和GhMAPKKK2基因A亚组和D亚组基因组序列, 验证了这2个系统的可行性和有效性。进一步量化这2个系统对GhBsrk1和GhMAPKKK2基因的编辑效率结果发现, CLCrV和TRV介导的VIGE均能够产生高效的基因编辑效率, 并且2种系统基因编辑效率不存在显著差异。本研究还探究了使用棉花内源U6启动子和拟南芥U6启动子驱动sgRNA对VIGE基因编辑效率的影响。结果显示, 这2个启动子介导的VIGE均能够产生高效的基因编辑效率, 并且基于这2种启动子介导的VIGE系统基因编辑效率不存在显著差异。以上结果预示着可以开发更多的植物病毒载体应用于棉花基因编辑的研究, 进而获得高效的sgRNA筛选体系。
| [1] |
Chen K L, Gao C X. Targeted genome modification technologies and their applications in crop improvements. Plant Cell Rep, 2014, 33: 575-583.
doi: 10.1007/s00299-013-1539-6 pmid: 24277082 |
| [2] |
Zhou H B, Liu B, Weeks D P, Spalding M H, Yang B. Large chromosomal deletions and heritable small genetic changes induced by CRISPR/Cas9 in rice. Nucleic Acids Res, 2015, 42: 10903-10914.
doi: 10.1093/nar/gku806 |
| [3] |
Alok A, Sandhya D, Jogam P, Rodrigues V, Bhati K K, Sharma H, Kumar J. The rise of the CRISPR/Cpf1 system for efficient genome editing in plants. Front Plant Sci, 2020, 11: 264.
doi: 10.3389/fpls.2020.00264 pmid: 32296449 |
| [4] |
Wang C, Liu Q, Shen Y, Hua Y F, Wang J J, Lin J R, Wu M G, Sun T T, Cheng Z K, Mercier R, Wang K J. Clonal seeds from hybrid rice by simultaneous genome engineering of meiosis and fertilization genes. Nat Biotechnol, 2019, 37: 283-286.
doi: 10.1038/s41587-018-0003-0 pmid: 30610223 |
| [5] |
Zhang S J, Zhang R Z, Song G Q, Gao J, Li W, Han X D, Chen M L, Li Y L, Li G Y. Targeted mutagenesis using the Agrobacterium tumefaciens-mediated CRISPR-Cas9 system in common wheat. BMC Plant Biol, 2018, 18: 302.
doi: 10.1186/s12870-018-1496-x |
| [6] |
Wang D D, Samsulrizal N, Yan C, Allcock N S, Craigon J, Blanco-Ulate B, Ortega-Salazar I, Marcus S E, Bagheri H M, Fons L P, Fraser P D, Foster T, Fray R, Knox J P, Seymour G B. Characterization of CRISPR mutants targeting genes modulating pectin degradation in ripening tomato. Plant Physiol, 2019, 179: 544-557.
doi: 10.1104/pp.18.01187 pmid: 30459263 |
| [7] |
Osakabe Y, Liang Z C, Ren C, Nishitani C, Osakabe K, Wada M, Komori S, Malnoy M, Velasco R, Poli M, Jung M H, Koo O J, Viola R, Kanchiswamy C N. CRISPR-Cas9-mediated genome editing in apple and grapevine. Nat Protoc, 2018, 13: 2844-2863.
doi: 10.1038/s41596-018-0067-9 pmid: 30390050 |
| [8] |
Jiang W Z, Zhou H B, Bi H H, Fromm M, Yang B, Weeks D P. Demonstration of CRISPR/Cas9/sgRNA-mediated targeted gene modification in Arabidopsis, tobacco, sorghum and rice. Nucleic Acids Res, 2013, 41: e188.
doi: 10.1093/nar/gkt780 |
| [9] |
Chen X G, Lu X K, Shu N, Wang S, Wang J J, Wang D L, Guo L X, Ye W W. Targeted mutagenesis in cotton (Gossypium hirsutum L.) using the CRISPR/Cas9 system. Sci Rep, 2017, 7: 44304.
doi: 10.1038/srep44304 |
| [10] |
Long L, Guo D D, Gao W, Yang W W, Hou L P, Ma X N, Miao Y C, Botella J R, Song C P. Optimization of CRISPR/Cas9 genome editing in cotton by improved sgRNA expression. Plant Methods, 2018, 14: 85.
doi: 10.1186/s13007-018-0353-0 pmid: 30305839 |
| [11] |
Manghwar H, Lindsey K, Zhang X L, Jin S X. CRISPR/Cas system: recent advances and future prospects for genome editing. Trends Plant Sci, 2019, 24: 1102-1125.
doi: S1360-1385(19)30243-2 pmid: 31727474 |
| [12] |
Li B, Rui H P, Li Y J, Wang Q Q, Alariqi M, Qin L, Sun L, Ding X, Wang F Q, Zou J W, Wang Y Q, Yuan D J, Zhang X L, Jin S X. Robust CRISPR/Cpf1 (Cas12a)-mediated genome editing in allotetraploid cotton (Gossypium hirsutum). Plant Biotechnol J, 2019, 17: 1862-1864.
doi: 10.1111/pbi.13147 pmid: 31055869 |
| [13] |
Qin L, Li J Y, Wang Q Q, Xu Z P, Sun L, Alariqi M, Manghwar H, Wang G Y, Li B, Ding X, Rui H P, Huang H M, Lu T L, Lindsey K, Daniell H, Zhang X L, Jin S X. High-efficient and precise base editing of C•G to T•A in the allotetraploid cotton (Gossypium hirsutum) genome using a modified CRISPR/Cas9 system. Plant Biotechnol J, 2019, 18: 45-56.
doi: 10.1111/pbi.13168 |
| [14] |
Zhao C Z, Wang Y L, Nie X W, Han X S, Liu H L, Li G L, Yang G J, Ruan J X, Ma Y L, Li X Y, Cheng H J, Zhao S H, Fang Y P, Xie S S. Evaluation of the effects of sequence length and microsatellite instability on single-guide RNA activity and specificity. Int J Biol Sci, 2019, 15: 2641-2653.
doi: 10.7150/ijbs.37152 pmid: 31754336 |
| [15] |
Xie S S, Shen B, Zhang C B, Huang X X, Zhang Y L. sgRNAcas9: a software package for designing CRISPR sgRNA and evaluating potential off-target cleavage sites. PLoS One, 2014, 9: e100448.
doi: 10.1371/journal.pone.0100448 |
| [16] |
李继洋, 雷建峰, 代培红, 姚瑞, 曲延英, 陈全家, 李月, 刘晓东. 基于棉花U6启动子的海岛棉CRISPR/Cas9基因组编辑体系的建立. 作物学报, 2018, 44: 227-235.
doi: 10.3724/SP.J.1006.2018.00227 |
|
Li J Y, Lei J F, Dai P H, Yao R, Qu Y Y, Chen Q J, Li Y, Liu X D. Establishment of CRISPR/Cas9 genome editing system based on GbU6 promoters in cotton (Gossypium barbadense L.). Acta Agron Sin, 2018, 44: 227-235. (in Chinese with English abstract)
doi: 10.3724/SP.J.1006.2018.00227 |
|
| [17] |
Gao W, Long L, Tian X Q, Xu F C, Liu J, Singh P K, Botella J R, Song C P. Genome editing in cotton with the CRISPR/Cas9 system. Front Plant Sci, 2017, 8: 1364.
doi: 10.3389/fpls.2017.01364 pmid: 28824692 |
| [18] |
Yin K Q, Han T, Liu G, Chen T Y, Wang Y, Alice Y Y, Liu Y L. A geminivirus-based guide RNA delivery system for CRISPR/Cas9 mediated plant genome editing. Sci Rep, 2015, 5: 14926.
doi: 10.1038/srep14926 pmid: 26450012 |
| [19] |
Hu J C, Li S, Li Z L, Li H Y, Song W B, Zhao H M, Lai J S, Xia L Q, Li D W, Zhang Y L. A barley stripe mosaic virus-based guide RNA delivery system for targeted mutagenesis in wheat and maize. Mol Plant Pathol, 2019, 20: 1463-1474.
doi: 10.1111/mpp.12849 pmid: 31273916 |
| [20] |
Li T D, Hu J C, Sun Y, Li B S, Zhang D L, Li W L, Liu J X, Li D W, Gao C X, Zhang Y L, Wang Y P. Highly efficient heritable genome editing in wheat using an RNA virus and bypassing tissue culture. Mol Plant, 2021, 14: 1787-1798.
doi: 10.1016/j.molp.2021.07.010 pmid: 34274523 |
| [21] |
Luo Y J, Na R, Nowak J S, Qiu Y, Lu Q S, Yang C Y, Marsolais F, Tian L N. Development of a Csy4-processed guide RNA delivery system with soybean-infecting virus ALSV for genome editing. BMC Plant Biol, 2021, 21: 419.
doi: 10.1186/s12870-021-03138-8 |
| [22] |
Lei J F, Dai P H, Li Y, Zhang W Q, Zhou G T, Liu C, Liu X D. Heritable gene editing using FT mobile guide RNAs and DNA viruses. Plant Methods, 2021, 17: 20.
doi: 10.1186/s13007-021-00719-4 |
| [23] |
Gu Z H, Huang C J, Li F F, Zhou X P. A versatile system for functional analysis of genes and microRNAs in cotton. Plant Biotechnol J, 2014, 12: 638-649.
doi: 10.1111/pbi.12169 pmid: 24521483 |
| [24] |
Zhang J X, Wang F R, Zhang C Y, Zhang J H, Chen Y, Liu G D, Zhao Y X, Hao F S, Zhang J. A novel VIGS method by agroinoculation of cotton seeds and application for elucidating functions of GhBI-1 in salt-stress response. Plant Cell Rep, 2018, 37: 1091-1100.
doi: 10.1007/s00299-018-2294-5 |
| [25] |
周冠彤, 雷建峰, 代培红, 刘超, 李月, 刘晓东. 棉花CRISPR/Cas9基因编辑有效sgRNA高效筛选体系的研究. 作物学报, 2021, 47: 427-437.
doi: 10.3724/SP.J.1006.2021.04178 |
|
Zhou G T, Lei J F, Dai P H, Liu C, Li Y, Liu X D. Efficient screening system of effective sgRNA for cotton CRISPR/Cas9 gene editing. Acta Agron Sin, 2021, 47: 427-437 (in Chinese with English abstract)
doi: 10.3724/SP.J.1006.2021.04178 |
|
| [26] |
雷建峰, 李月, 徐新霞, 阿尔祖古丽·塔什, 蒲艳, 张巨松, 刘晓东. 棉花不同GbU6启动子截短克隆及功能鉴定. 作物学报, 2016, 42: 675-683.
doi: 10.3724/SP.J.1006.2016.00675 |
|
Lei J F, Li Y, Xu X X, A’erzuguli T, Pu Y, Zhang J S, Liu X D. Cloning and functional analysis of different truncated GbU6 promoters in cotton. Acta Agron Sin, 2016, 42: 675-683. (in Chinese with English abstract)
doi: 10.3724/SP.J.1006.2016.00675 |
|
| [27] |
Livak K J, Schmittgen T D. Analysis of relative gene expression data using real-time quantitative PCR and the 2-ΔΔCT method. Method, 2001, 25: 402-408.
doi: 10.1006/meth.2001.1262 |
| [28] | Wang W N, Yuan Y L, Yang C, Geng S P, Sun Q, Long L, Cai C W, Chu Z Y, Liu X, Wang G H, Du X M, Miao C, Zhang X, Cai Y F. Characterization, expression, and functional analysis of a novel NAC gene associated with resistance to Verticillium wilt and abiotic stress in cotton. Genes Genom Genet, 2016, 6: 3951-3961. |
| [29] |
Wu H J, Qu X Y, Dong Z C, Luo L J, Shao C, Forner J, Lohmann J U, Su M, Xu M C, Liu X B, Zhu L, Zeng J, Liu S M, Tian Z X, Zhao Z. WUSCHEL triggers innate antiviral immunity in plant stem cells. Science, 2020, 370: 227-231.
doi: 10.1126/science.abb7360 |
| [30] |
Ellison E E, Nagalakshmi U, Gamo M E, Huang P J, Dinesh-Kumar S, Voytas D F. Multiplexed heritable gene editing using RNA viruses and mobile single guide RNAs. Nat Plants, 2020, 6: 620-624.
doi: 10.1038/s41477-020-0670-y pmid: 32483329 |
| [31] |
Li T D, Hu J C, Sun Y, Li B S, Zhang D L, Li W L, Liu J X, Li D W, Gao C X, Zhang Y L, Wang Y P. Highly efficient heritable genome editing in wheat using an RNA virus and bypassing tissue culture. Mol Plant, 2021, 14: 1787-1798.
doi: 10.1016/j.molp.2021.07.010 pmid: 34274523 |
| [1] | 赵佳雪, 周龙昊, 郭岂源, 尚伦霄, 王涵, 刘志涛, 陈曦, 张晓佩, 宋宪亮, 毛丽丽. 长期秸秆还田与深松通过改善土壤环境与棉花光合特性提高滨海盐碱地棉花产量[J]. 作物学报, 2026, 52(5): 1548-1560. |
| [2] | 张曦, 王广恩, 李邵琦, 刘祎, 李俊兰, 钱玉源. 基于转录组测序解析陆海杂交姊妹系马克隆值差异的形成机制[J]. 作物学报, 2026, 52(5): 1442-1458. |
| [3] | 陈伟, 卫万娟, 赵其兵, 常东伟, 余凌波, 翟鹏飞, 冯志明, 陈宗祥, 任仰涛, 杨鹏, 刘海浪, 李珍富, 杨永乐, 金彦刚, 左示敏. 利用CRISPR/Cas9编辑Hd6基因创制优质早熟水稻新种质[J]. 作物学报, 2026, 52(4): 1046-1056. |
| [4] | 周琦翔, 朱艳, 汪楚博, 朱柏林, 李俊博, 宋利兵. 基于DSSAT模型模拟气候变化对新疆棉花物候期及产量的影响[J]. 作物学报, 2026, 52(2): 590-602. |
| [5] | 高源, 王宇琦, 姜佳宁, 赵健雄, 王雪贺缘, 王浩宇, 张芮嘉, 徐晶宇, 贺琳. 玉米低温响应基因ZmNTL1和ZmNTL5的鉴定及功能分析[J]. 作物学报, 2025, 51(9): 2318-2329. |
| [6] | 贺红利, 张雨涵, 杨静, 程云清, 赵杨, 李星诺, 司洪亮, 张兴政, 杨向东. 大豆e1-as基因突变体的创制及生理分析[J]. 作物学报, 2025, 51(8): 2228-2239. |
| [7] | 郭栋财, 吕涛, 蔡永生, 买吾鲁达·艾合买提, 全家, 曲延英, 郑凯. 棉花纤维品质相关性状QTL元分析及候选基因鉴定[J]. 作物学报, 2025, 51(6): 1445-1466. |
| [8] | 王亚雯, 戚正阳, 尤佳琦, 聂新辉, 曹娟, 杨细燕, 涂礼莉, 张献龙, 王茂军. 棉花60K功能位点基因芯片的制备及应用[J]. 作物学报, 2025, 51(5): 1178-1188. |
| [9] | 丁俊沣, 许映飞, 张祥, 陈媛, 陈德华. 生长调节剂吲哚丁酸对移栽棉苗成活及生长发育的影响[J]. 作物学报, 2025, 51(12): 3331-3341. |
| [10] | 哈丽哈什·依巴提, 张炎, 李青军, 徐新朋, 何萍. 基于产量反应和农学效率的棉花智能化推荐施肥方法研究[J]. 作物学报, 2025, 51(11): 3052-3064. |
| [11] | 李亚玮, 徐盈盈, 左春阳, 刘若男, 梁亚军, 孔杰, 张献龙, 闵玲. 棉花减数分裂进程鉴定体系构建及其对高温胁迫的响应分析[J]. 作物学报, 2025, 51(10): 2570-2580. |
| [12] | 陈佳伟, 林艳, 张明星, 周诗晶, 饶力群, 周池, 李鑫. 贝莱斯芽孢杆菌YCH92对棉花根际土壤微生物群落及棉花产量的影响[J]. 作物学报, 2025, 51(10): 2821-2835. |
| [13] | 谢章书, 谢学方, 屠小菊, 刘爱玉, 董合忠, 周仲华. 植物激素对棉花蕾铃脱落的调控研究进展[J]. 作物学报, 2025, 51(1): 1-29. |
| [14] | 辛明华, 秘雅迪, 王国平, 李小飞, 李亚兵, 董合林, 韩迎春, 冯璐. 行距配置和种植密度对棉花干物质生产及产量的影响[J]. 作物学报, 2025, 51(1): 221-232. |
| [15] | 李超, 付小琼. 基于GYT双标图综合评价黄河流域中熟杂交棉花区域试验品种[J]. 作物学报, 2025, 51(1): 30-43. |
|
||