Molecular Evolution of FUL Family Genes and Identification of Gene Editing Targets in Soybean

LI Yong-li,DU Hao,LI Tai,GAN Zhuo-ran,HOU Zhi-hong,DONG Li-dong,LIU Bao-hui and CHENG Qun

PDF(22188 KB)
PDF(22188 KB)
Journal of Plant Genetic Resources ›› 2021, Vol. 22 ›› Issue (4) : 1120-1132. DOI: 10.13430/j.cnki.jpgr.20201230001
Research Articles

Molecular Evolution of FUL Family Genes and Identification of Gene Editing Targets in Soybean

  • LI Yong-li, DU Hao, LI Tai, GAN Zhuo-ran, HOU Zhi-hong, DONG Li-dong, LIU Bao-hui, CHENG Qun
Author information +
History +

Abstract

Cultivated soybean originated from temperate regions of China, and has a long history of planting in the country, with rich genetic resources. In recent years, however, the high degree of dependance on imported soyabean is a serious potential threat to the food security in China. Therefore, it is crucial to breed high-yield and high-quality soybean varieties, for which the exploration of genes that regulate major yield-correlated agronomic traits such as plant height and bean size, and the analysis of their molecular mechanisms are highly significant. FRITFULL (FUL) genes belong to the MADS box transcription factor, which play important roles in flowering, growth, development, and fruit ripening of plants. By bioinformatics analysis we found six FUL genes in soybean, all of which had a conservative MADS-box and a relatively conservative K-Box domain, and were mainly expressed in the pod, indicating that the gene family might be able to regulate seed-related traits of soybean. Among them, only GmFUL3b gene was highly expressed in the leaves, indicating that its function might have been differentiated in the process of evolution. In addition, we found that the six FUL genes followed different evolutionary rules. In order to further study their biological functions, knockout mutant vectors of the six FUL genes were constructed by CRISPR/Cas9 technology. Positive clones were transformed into soybean hairy roots for test target verification, and five of them were successfully identified as effective targets. It provided an important theoretical basis for obtaining stable soybean mutant materials and analyzing the function of GmFUL family genes.

Key words

soybean / FUL genes / bioinformatics analysis / CRISPR/Cas9 technology

Cite this article

Download Citations
LI Yong-li,DU Hao,LI Tai,GAN Zhuo-ran,HOU Zhi-hong,DONG Li-dong,LIU Bao-hui and CHENG Qun. Molecular Evolution of FUL Family Genes and Identification of Gene Editing Targets in Soybean. Journal of Plant Genetic Resources. 2021, 22(4): 1120-1132 https://doi.org/10.13430/j.cnki.jpgr.20201230001

References

高运来, 姚丙晨, 刘春燕, 李文福, 蒋洪蔚, 李灿东, 张闻博, 胡国华, 陈庆山. 黑龙江省主栽大豆品种遗传多样性的SSR分析. 植物学报, 2009, 44(5): 556-561.
Mohanty BP, Ganguly S, Mahanty A, et al. DHA and EPA content and fatty acid profile of 39 food fishes from india. BioMed Research International, 2016, 4027437.
赵团结, 盖均镒. 栽培大豆起源与演化研究进展. 中国农业科学, 2004, 37 (7): 954-962.
周新安. 我国大豆生产与科研现状及其发展对策. 作物杂志, 2007(6): 1-4.
郑键, 谢长城. 2020年全球大豆生产形势及中国市场趋势分析. 中国畜牧杂志, 2020, 56(7): 188-190.
Becker A, Theissen G. The major clades of MADS-box genes and their role in the development and evolution of flowering plants. Molecular Phylogenetics and Evolution, 2003, 29(3): 464-489.
Heard J, Caspi M, Dunn K. Evolutionary diversity of symbiotically induced nodule MADS box genes: characterization of nmhC5, a member of a novel subfamily. Molecular Plant-microbe Interactions, 1997, 10 (5) : 665-676.
Cunxiang W,SQibin M,SKwan-Mei Y, et al. In situ expression of the GmNMH7 gene is photoperiod-dependent in a unique soybean (Glycine max [L.]Merr.) flowering reversion system. Planta, 2006, 223(4):725-735.
Joseph C Zucchero, Caspi M, Dunn K. ngl9: A third MADS box gene expressed in alfalfa root nodules.Molecular Plant-microbe Interactions, 2001, 14(12): 1463-1467.
Thei?en G. Development of floral organ identity: stories from the MADS house. Current Opinion in Plant Biology, 2001, 4(1):75-85.
Ferrándiz C, Gu Q, Martienssen R, et al. Redundant regulation of meristem identity and plant architecture by FRUITFULL, APETALA1 and CAULIFLOWER. Development, 2000, 127(4):725-34.
Melzer S, Lens F, Gennen J, et al. Flowering-time genes modulate meristem determinacy and growth form in Arabidopsis thaliana. Nature Genetics, 2008, 40(12): 1489-1492.
Pabón-Mora N, Sharma B, Holappa LD, et al. TheSAquilegia FRUITFULL-likeSgenes play key roles in leaf morphogenesis and inflorescence development. TheSPlantSJournal, 2013, 74(2): 197-212.
Gu Q, Ferrándiz C, Yanofsky M F, et al. The FRUITFULL MADS-box gene mediates cell differentiation during Arabidopsis fruit development. Development, 1998, 125(8): 1509-17.
Ferrándiz C, Liljegren S J, Yanofsky M F. Negative regulation of the SHATTERPROOF genes by FRUITFULL during Arabidopsis fruit development. Science, 2000, 289(5478): 436-438.
Busi MV, Bustamante C, D’Angelo C, et al. MADS-box genes expressed during tomato seed and fruit development. PlantSMolecularSBiology, 2003, 52(4):801–15.
Litt A, Irish VF. Duplication and diversification in the APETALA1/FRUITFULL floral homeotic gene lineage: implications for the evolution of floral development. Genetics, 2003, 165(2):821–33.
Hileman LC, Sundstrom JF, Litt A, et al, Irish VF. Molecular and phylogenetic analyses of the MADS-box gene family in tomato, Molecular Biology and Evolution, 2006, 23(11): 2245-2258.
Leseberg C H,Eissler C L, Wang X, et al. Interaction study of MADS-domain proteins in tomato. Journal of Experimental Botany, 2008, 59(8): 2253-2265.
Masiero S, Imbriano C, Ravasio F, et al. Ternary complex formation between MADS-box transcription factors and the histone fold protein NF-YB. The Journal of Biological Chemistry, 2002, 277(29): 26429–26435.
Yamaguchi T, Hirano HY. Function and diversification of MADS-Box genes in rice. The Scientific World Journal, 2006, 6:1923–1932.
Pelucchi N, Fornara F, Favalli C, et al. Comparative analysis of rice MADS-box genes expressed during flower development. Sex Plant Reprod, 2002, 15: 113-122.
Zhang W, Fan S, Pang C, et al. Molecular cloning and function analysis of two SQUAMOSA-Like MADS-Box genes from Gossypium hirsutum L. Journal of IntegrativeSPlantSBiology 2013, 55(7): 597-607.
Zhao J, Jiang L, Che G, et al. A functional allele ofSCsFUL1Sregulates fruit length through repressingSCsSUPSand inhibiting auxin transport in cucumber. The Plant Cell. 2019, 31(6): 1289-1307.
Fauser F, Schiml S, Puchta H. Both CRISPR/Cas-based nucleases and nickases can be used efficiently for genome engineering in Arabidopsis thaliana. TheSPlantSJournal, 2014, 79 (2): 348-359.
Li JF, Norville JE, Aach J, et al. Multiplex and homologous recombination–mediated genome editing in Arabidopsis and Nicotiana benthamiana using guide RNA and Cas9. Nature Biotechnology, 2013, 31(8): 688-691.
Zhang H, Zhang J, Wei P, et al. The CRISPR/Cas9 system produces specific and homozygous targeted gene editing in rice in one generation. Plant Biotechnology Journal, 2014, 12(6): 797-807.
Shan Q, Wang Y, Li J, et al. Targeted genome modification of crop plants using a CRISPR-Cas system. Nature Biotechnology, 2013, 31(8): 686-688.
Cheng Q, Dong L, Su T, et al. CRISPR/Cas9-mediated targeted mutagenesis of GmLHY genes alters plant height and internode length in soybean. BMCSPlantSBiology, 2019, 19(1):562.S
Chen L, Nan H, Kong L, et al. SoybeanSAP1Shomologs control flowering time and plant height. Journal of Integrative Plant Biology. 2020, 62(12): 1868-1879.
Liang Z, Zhang K, Chen K, et al. Targeted Mutagenesis in Zea mays Using TALENs and the CRISPR/Cas System. Journal of Genetics and Genomics, 2014, 41(2): 63-68.
Ron M, Kajala K, Pauluzzi G, et al. Hairy root transformation using Agrobacterium rhizogenes as a tool for exploring cell type-specific gene expression and function using tomato as a model. Plant Physiology, 2014, 166(2): 455-69.
Chen C, Chen H, Zhang Y, et al. TBtools: An integrative toolkit developed for interactive analyses of big biological data. Molecular Plant, 2020, 13, 1194-1202.
Machado FB, Moharana KC, Fabricio AS,et al. Systematic analysis of 1,298 RNA-Seq samples and construction of a comprehensive soybean (Glycine max) expression atlas. The Plant Journal, 2020, 103, 1894-1909.
曾栋昌, 马兴亮, 谢先荣, 祝钦泷, 刘耀光. 植物 CRISPR/Cas9 多基因编辑载体构建和突变分析的操作方法. 中国科学: 生命科学, 2018, 48(7): 783-794.
Cheng Q, Dong L, Gao T, et al. The bHLH transcription factor GmPIB1 facilitates resistance to Phytophthora sojae in Glycine max. Journal of Experimental Botany, 2018, 69(10): 2527-2541.
Alvarez-Buylla ER,Pelaz S,Liljegren SJ,et al. An ancestral MADS-box gene duplication occurred before the divergence of plants and animals. Proceedings of the National Academy of Sciences of the United States of America , 2000,97: 5328- 5333.
Litt Amy, Irish Vivian F. Duplication and eiversification in the APETALA1/FRUITFULL floral homeotic gene lineage: implications for the evolution of floral development. Genetics, 2003, 165(2):821-33.
Shan H, Zhang N, Liu C, et al. Patterns of gene duplication and functional diversification during the evolution of the AP1/SQUA subfamily of plant MADS-box genes. Molecular Phylogenetics and Evolution, 2007, 44(1):26-41.
Jaudal M, Zhang L, Che C, et al. Three Medicago MtFUL genes have distinct and overlapping expression patterns during vegetative and reproductive development and 35S:MtFULb accelerates flowering and causes a terminal flower phenotype in Arabidopsis. Frontiers in Genetics, 2015, 6:50.
Kinjo H, Shitsukawa N, Takumi S,Set al.SDiversification of threeSAPETALA1/FRUITFULL-like genes in wheat. Molecular Genetics and Genomics ,2012, 287(4):S283-294.
Peng PF, Li YC, Mei DS, et al. Expression divergence of FRUITFULL homeologs enhanced pod shatter resistance in Brassica napus. Genetics and Molecular Research, 2015, 14(1):871-885.
Nekrasov V, Staskawicz B, Weigel D, et al. Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease. Nature Biotechnology, 2013, 31(8): 691-693.

Funding

National Natural Science Foundation of China (31901568, 32001508)
Share on Mendeley
PDF(22188 KB)

34

Accesses

0

Citation

Detail

Sections
Recommended

/