Comparative Analysis of Transcriptome of Caucasian Clover Trifolium ambiguum Bieb. under Different Cooling Modes

doi:10.11733/j.issn.1007-0435.2021.07.002

Acta Agrestia Sinica ›› 2021, Vol. 29 ›› Issue (7): 1386-1396.DOI: 10.11733/j.issn.1007-0435.2021.07.002

Previous Articles Next Articles

Comparative Analysis of Transcriptome of Caucasian Clover Trifolium ambiguum Bieb. under Different Cooling Modes

MOU Dan¹, MA Ge-liang², KAZHUO Cai-rang², LI Zong-ren¹, ZHONG Ke-ji², XIE Jiu-xiang¹, LI Xi-lai¹

1. College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai Province 810016, China;
2. Natural Resources Bureau of Henan Mongolian Autonomous County, Huangnan, Qinghai Province 811599, China

Received:2021-02-17 Revised:2021-03-19 Online:2021-07-15 Published:2021-07-31

不同降温模式下高加索三叶草的转录组比较分析

牟丹¹, 马戈亮², 卡着才让², 李宗仁¹, 忠克吉², 谢久祥¹, 李希来¹

1. 青海大学农牧学院, 西宁青海 810016;
2. 河南蒙古族自治县自然资源局, 黄南青海 811599

通讯作者: 李希来,E-mail:xilai-li@163.com;谢久祥,E-mail:xiejiuxiangqh@163.com
作者简介:牟丹(1989-),女,四川绵阳人,博士研究生,主要从事草地植物资源方面研究,E-mail:moudan1761@163.com
基金资助:
青海省科技计划项目（2017-ZJ-733）；青海省2018年县域创新驱动建设项目子任务二“乡土牧草与优良牧草培育基地建设”；高等学校学科创新引智计划项目（D18013）资助

Abstract

Abstract: To explore the response mechanisms of Caucasian clover (Trifolium ambiguum Bieb.) to low temperature stresses under different cooling modes,gradual cooling (GC) and sudden cooling (SC) were used in this study. Through transcriptome sequencing,the transcriptome differences between two treatment groups and a control group (CK) were compared,and genes and transcription factors related to cold resistance were also screened. Compared to CK,there were 8 020 and 6 289 differentially expressed genes (DEGs) in GC and SC,respectively. The DEGs in GC were mainly enriched in photosynthesis,photosynthesis-antenna proteins and starch and sucrose metabolism. The DEGs in SC were mainly enriched in starch and sucrose metabolism,sesquiterpenoid and triterpenoid biosynthesis,and flavonoid biosynthesis. In addition,the DEGs shared in two treatment groups were only significantly enriched in starch and sucrose metabolism. The expression levels of some genes involved in starch and sucrose metabolism and plant hormone signal transduction pathways were up-regulated in two cooling modes. Genes such as BAM3,BFRUCT1,SUS,GH3.1,SAPK2 were identified as potential cold resistance genes. Further analysis showed the transcription factors that respond to low temperature stress were mainly distributed in AP2/ERF,ZFP,MYB and other families.

Key words: Caucasian clover, Low temperature, Transcriptome, Transcription factors

摘要： 为探讨高加索三叶草（Trifolium ambiguum Bieb.）对不同降温模式低温胁迫的响应机制，本试验以缓慢降温（Gradual cooling，GC）和骤然降温（Sudden cooling，SC）处理对其进行了胁迫处理。通过转录组测序，比较了2个低温处理组与常温对照组（CK）间的转录组差异，并筛选了抗寒相关的基因和转录因子。结果表明：与CK相比，GC组和SC组中分别有8 020个和6 289个差异表达基因（DEGs）；GC组的DEGs主要在光合作用、光合作用天线蛋白、淀粉和蔗糖代谢等通路显著富集，SC组的DEGs主要在淀粉和蔗糖代谢、倍半萜和三萜生物合成、类黄酮生物合成等通路显著富集。此外，2处理组共有的DEGs仅在淀粉和蔗糖代谢通路显著富集；一些涉及淀粉和蔗糖代谢与植物激素信号转导通路的基因在2种降温模式下均上调表达，可作为潜在的抗寒基因，如BAM3，BFRUCT1，SUS，GH3.1，SAPK2等。进一步分析发现响应低温胁迫的转录因子主要分布在AP2/ERF，ZFP，MYB等家族。

关键词: 高加索三叶草, 低温, 转录组, 转录因子

CLC Number:

Q342.3

MOU Dan, MA Ge-liang, KAZHUO Cai-rang, LI Zong-ren, ZHONG Ke-ji, XIE Jiu-xiang, LI Xi-lai. Comparative Analysis of Transcriptome of Caucasian Clover Trifolium ambiguum Bieb. under Different Cooling Modes[J]. Acta Agrestia Sinica, 2021, 29(7): 1386-1396.

牟丹, 马戈亮, 卡着才让, 李宗仁, 忠克吉, 谢久祥, 李希来. 不同降温模式下高加索三叶草的转录组比较分析[J]. 草地学报, 2021, 29(7): 1386-1396.

0
/ / Recommend

Add to citation manager EndNote|Ris|BibTeX

URL: https://manu40.magtech.com.cn/Jweb_cdxb/EN/10.11733/j.issn.1007-0435.2021.07.002

https://manu40.magtech.com.cn/Jweb_cdxb/EN/Y2021/V29/I7/1386

References

[1] 殷秀杰. 高加索三叶草在内蒙古地区适应性和利用价值研究[D]. 呼和浩特:内蒙古农业大学,2004:1
[2] Speer G S,Allinson D W. Kura clover (Trifolium ambiguum):Legume for forage and soil conservation[J]. Economic Botany,1985,39(2):165-176
[3] Bryant W G. Caucasian clover (Trifolium ambiguum Bieb.):a review[J]. Journal of the Australian Institute of Agricultural Science,1974,40:11-19
[4] 赵春旭,马祥,董文科,等. 低温胁迫下不同青海野生草地早熟禾的转录组比较分析[J]. 草地学报,2020,028(2):305-318
[5] 赵春旭,张然,牛奎举,等. 青海野生草地早熟禾响应低温胁迫的代谢组学研究[J]. 草地学报,2020,28(4):904-914
[6] Hao X Y,Tang H,Wang B,et al. Integrative transcriptional and metabolic analyses provide insights into cold spell response mechanisms in young shoots of the tea plant[J]. Tree Physiology,2018,11:1-17
[7] 蒲小朋,董世魁,阎宝生,等. 高寒地区豆科牧草引种试验[J]. 中国草地,2001,23(3):18-22,26
[8] 花木嵯. 世界最大生态系统青藏高原高寒草地退化原因最新解密[N]. 青海日报,2017-11-15(1)
[9] 黄涵,李亚光. 中外专家认为:种植豆科植物有助应对高寒草地退化问题[N]. 新华网,2017-12-01(1)
[10] Xu J,Chen Z,Wang F,et al. Combined transcriptomic and metabolomic analyses uncover rearranged gene expression and metabolite metabolism in tobacco during cold acclimation[J]. Scientific Reports,2020,10(1):1-13
[11] Deng S,Ma J,Zhang L,et al. De novo transcriptome sequencing and gene expression profiling of Magnolia wufengensis in response to cold stress[J]. BMC Plant Biology,2019,19(1):321
[12] Pu Y,Liu L,Wu J,et al. Transcriptome Profile Analysis of Winter Rapeseed (Brassica napus L.) in Response to Freezing Stress,Reveal Potentially Connected Events to Freezing Stress[J]. International Journal of Molecular Sciences,2019,20(11):1-24
[13] Chen S,Zhou Y,Chen Y,et al. Fastp:an ultra-fast all-in-one FASTQ preprocessor[J]. Bioinformatics,2018,34(17):884-890
[14] Grabherr M G,Haas B J,Yassour M,et al. Full-length transcriptome assembly from RNA-Seq data without a reference genome[J]. Nature Biotechnology,2011,29(7):644-652
[15] Love M I,Huber W,Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2[J]. Genome biology,2014,15(12):550
[16] Ashburner M,Ball C A,Blake J A,et al. Gene Ontology:tool for the unification of biology[J]. Nature Genetics,2000,25(1):25-29
[17] Kanehisa M,Goto S. KEGG:kyoto encyclopedia of genes and genomes[J]. Nucleic acids research,2000,28(1):27-30
[18] Livak K J,Schmittgen T D. Analysis of relative gene expression data using real-time quantitative PCR and the 2^?ΔΔCT method[J]. Methods,2001,25(4):402-408
[19] Shi Y,Ding Y,Yang S. Cold signal transduction and its interplay with phytohormones during cold acclimation[J]. Plant and Cell Physiology,2015,56(1):7-15.
[20] 崔英. 三种三叶草的耐盐性和抗寒性研究[D]. 呼和浩特:内蒙古农业大学,2006:31-33
[21] Margaret Z,Hely F W. Importance of homologous straind of rhizobium trifolium in the domestlcaion of hexaploid Trifolium ambiguum Bieb.[J]. Fifth Australian legume nodulation nodulation conference,1975,16-19
[22] Wang K,Bai Z Y,Liang Q Y,et al. Transcriptome analysis of chrysanthemum (Dendranthema grandiflorum) in response to low temperature stress[J]. BMC Genomics,2018,19(1):319
[23] Öquist G,Huner N P A. Photosynthesis of overwintering evergreen plants[J]. Annual Review of Plant Biology,2003,54(1):329
[24] 余翠翠,魏建和. 环境因子对植物萜类化合物生物合成的影响研究进展[J]. 西北植物学报,2019,39(9):1701-1710
[25] Xu Q,Yin X R,Zeng J K,et al. Activator- and repressor-type MYB transcription factors are involved in chilling injury induced flesh lignification in loquat via their interactions with the phenylpropanoid pathway[J]. Journal of Experimental Botany,2014,65(15):4349-4359
[26] Li L,Ban J,Li X H,et al. Differential expression of anthocyanin biosynthetic genes and transcription factor PcMYB10 in pears (Pyrus communis L.)[J]. PLoS One,2012,7:e46070
[27] 孙永梅,刘丽杰,冯明芳,等. 植物在低温胁迫下的糖代谢研究进展[J]. 东北农业大学学报,2015,46(7):95-102
[28] Liu W Y,Liu J X,Han B,et al. Determination of reduced sugar content in potatoes[J]. Agriculture & Technology,2013,1(26):33
[29] Xu C X. Research progress on the mechanism of improving plant cold hardiness[J]. Acta Ecologica Sinica,2012,32:7966-7980
[30] Weise S E,Kim K S,Stewart R P,et al. β-Maltose is the metabolically active anomer of maltose during transitory starch degradation[J]. Plant Physiology,2005,137:756-761
[31] Kaplan F,Guy C L. Beta-Amylase induction and the protective role of maltose during temperature shock[J]. Plant Physiology,2004,135:1674-1684
[32] Ruan Y L. Sucrose metabolism:gateway to diverse carbon use and sugar signaling[J]. Annual Review of Plant Biology,2014,65:33-67
[33] Gibeaut D M,Karuppiah N,Chang S R,et al. Cell wall and enzyme changes during the graviresponse of the leaf-sheath pulvinus of oat (Avena sativa)[J]. Plant Physiology,1990,94(2):411-416
[34] Long J C,Zhao W,Rashotte A M,et al. Gravity-Stimulated changes in auxin and invertase gene expression in maize pulvinal cells[J]. Plant Physiology,2002,128:591-602
[35] Stein O,Granot D. An overview of sucrose synthase in plant[J]. Frontiers in Plant Science,2019,10:95
[36] Wang Z,Wei P,Wu M,et al. Analysis of the sucrose synthase gene family in tobacco:structure,phylogeny,and expression patterns[J]. Planta,2015,242:153-166
[37] Miura K,Furumoto T. Cold signaling and cold response in plants[J]. International Journal of Molecular Sciences,2013,14(3):5312-5337
[38] 胡潇婕,毛东海. 基于RNA-Seq技术分析植物激素信号途径在水稻幼苗中对低温胁迫的应答规律[J]. 农业现代化研究,2019,40(5):878-890
[39] Park J E,Park J Y,Kim Y S,et al. GH3-mediated auxin homeostasis links growth regulation with stress adaptation response in Arabidopsis[J]. Journal of Biological Chemistry,2007,282(13):10036-10046
[40] Furihata T,Maruyama K,Fujita Y,et al. Abscisic acid-dependent multisite phosphorylation regulates the activity of a transcription activator AREB1[J]. Proceedings of the National Academy of Sciences,2006,3(6):1988-1993
[41] Kobayashi Y,Murata M,Minami H,et al. Abscisic acid-activated SNRK2 protein kinases function in the gene-regulation pathway of ABA signal transduction by phosphorylating ABA response element-binding factors[J]. Plant Journal,2005,44(6):939-949
[42] 李红霞,汪妤,张战凤,等. 植物转录因子与作物抗逆胁迫关系的研究进展[J]. 麦类作物学报,2013,33(3):613-618
[43] 刘辉,李德军,邓治. 植物应答低温胁迫的转录调控网络研究进展[J]. 中国农业科学,2014,47(18):3523-3533
[44] Fowler S,Thomashow M F. Arabidopsis transcriptome profiling indicates that multiple regulatory pathways are activated during cold acclimation in addition to the CBF cold response pathway[J]. The Plant Cell,2002,14(8):1675-1690
[45] Gilmour S J,Zarka D G,Stockinger E J,et al. Low temperature regulation of the Arabidopsis CBF family of AP2 transcriptional activators as an early step in cold-induced COR gene expression[J]. The Plant Journal,1998,16(4):433-442
[46] Liu Q,Kasuga M,Sakuma Y,et al. Two transcription factors,DREB1 and DREB2,with an EREBP/AP2 DNA binding domain separate two cellular signal transduction pathways in drought- and low-temperature-responsive gene expression,respectively,in Arabidopsis[J]. The Plant Cell,1998,10(8):1391-1406
[47] 刘蕾,杜海,唐晓凤,等. MYB转录因子在植物抗逆胁迫中的作用及其分子机理[J]. 遗传,2008,30(10):1265-1271
[48] Dubos C,Stracke R,Grotewold E,et al. MYB transcription factors in Arabidopsis[J]. Trends in Plant Science,2010,15(10):573-581
[49] Yang A,Dai X,Zhang W H. A R2R3-type MYB gene,OsMYB2,is involved in salt,cold,and dehydration tolerance in rice[J]. Journal of Experimental Botany,2012,63(7):2541-2556

Comparative Analysis of Transcriptome of Caucasian Clover Trifolium ambiguum Bieb. under Different Cooling Modes

不同降温模式下高加索三叶草的转录组比较分析

PDF

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Recommended Articles

Metrics

Comments

[1]	MOU Dan, YANG Fan, KAZHUO Cai-rang, QI Xue-zhong, GU Zhi-hui, XIE Jiu-xiang, LI Xi-lai. Metabonomic Analysis of Caucasian Clover in Response to Low-Temperature Stress of Different Cooling Modes [J]. Acta Agrestia Sinica, 2021, 29(9): 1877-1884.
[2]	LI Bo, LI Chen-yang, LI Hong, YANG Zhao. Effects of Short-term Low Temperature Stress on Physiological Metabolism in ‘Longmu 807’ Alfalfa Seedlings [J]. Acta Agrestia Sinica, 2021, 29(3): 515-521.
[3]	ZHANG Yu-xia, CONG Bai-ming, WANG Xian-guo, ZHANG Qing-xin, DU Xiao-yan, TIAN Yong-lei. Correlation Analysis of Cold Resistance and Antioxidant Enzyme Activities in Alfalfa Roots [J]. Acta Agrestia Sinica, 2021, 29(2): 244-249.
[4]	ZHOU Ling-fang, SHANG Xiao-yao, ZHANG Tie-jun, CHAO Yue-hui. Transcriptome Analysis of Leaf Senescence in Medicago truncatula [J]. Acta Agrestia Sinica, 2021, 29(10): 2158-2168.
[5]	LI Ying, YU Xiao-jun, ZHAO Yi-shan, WANG Lin, PENG Zhen, FAN Li-hua, WANG Yu-xia, MA Xiao-dong. Effects of Seed Soaking with Salicylic Acid and Abscisic Acid on Seed Germination and Seedling Growth of Medicago ruthenica at Low Temperature [J]. Acta Agrestia Sinica, 2021, 29(1): 174-181.
[6]	ZHANG Ran, MA Xiang, ZHU Rui-ting, NIU Kui-ju, ZHAO Chun-xu, MA Hui-ling. Metabolic Pathway and Transcriptional Regulation of Qinghai Wild Poa pratensis in Response to Drought Stress [J]. Acta Agrestia Sinica, 2020, 28(6): 1508-1518.
[7]	YU Xin-rong, ZHANG Zhi-wei, ZHOU Yu, LIU Peng, YAO Hong-bin, MIAO Yan-jun, FU Juan-juan. Effects of Melatonin on Growth and Antioxidant System of Perennial Ryegrass Seedlings Under Cold and Drought Stresses [J]. Acta Agrestia Sinica, 2020, 28(5): 1337-1345.
[8]	JIA Xiang, DUOJI Ge-sang, ZHAO Ai-min, ZHANG Wen-cai, QUNI Jia-cuo, LABA Zhuo-ma, PUBU Ci-reng, MIAO Yan-jun. Comprehensive Evaluation of Cold resistance of 4 Species of Gramineae at Seedling Stage [J]. Acta Agrestia Sinica, 2020, 28(5): 1372-1378.
[9]	ZHAO Chun-xu, ZHANG Ran, NIU Kui-ju, ZHU Rui-ting, WANG Yong, MA Xiang, MA Hui-ling. Metabonomics Study of Qinghai Wild Poa pratensis in Response to Low Temperature Stress [J]. Acta Agrestia Sinica, 2020, 28(4): 904-914.
[10]	PUBU Zhuo-ma, QIMEI La-mu, LI Dan-dan, DUOJI Dun-zhu, ZHANG Jing, SUN Yun-fu, MIAO Yan-jun, FU Juan-juan, HU Tian-ming. Effects of Exogenous Proline on Growth and Antioxidant Enzyme Related Gene Expression of Elymus nutans under Low Temperature Stress [J]. Acta Agrestia Sinica, 2020, 28(3): 589-596.
[11]	ZHAO Chun-xu, MA Xiang, Dong Wen-ke, Niu Kui-ju, Zhang Ran, MA Hui-ling. Transcriptome Comparative Analysis of Different Qinghai Wild Poa pratensis Under Low Temperature Stress [J]. Acta Agrestia Sinica, 2020, 28(2): 305-318.
[12]	ZHAO Na, XU Qing-guo, SU Peng, LIANG Dong-ming, TANG Yao. Resistance to Low Temperature of 7 Warm-season Turfgrass Varieties [J]. Acta Agrestia Sinica, 2020, 28(2): 375-382.
[13]	HU Ai-Min, HAN Guo-Dong, ZHANG Yu-Xia, WANG Xian-Guo, TIAN Yong-Lei, CONG Bai-Ming. Influence and Analysis of Different Sowing Time on Overwintering Rate of Alfalfa [J]. Acta Agrestia Sinica, 2020, 28(2): 446-453.
[14]	XIAN Jing-ping, WANG Yong, MA Hui-ling. Transcriptome Analysis of Exogenous Nitric oxide on Alleviating Cadmium Stress in Kentucky Bluegrass [J]. Acta Agrestia Sinica, 2019, 27(6): 1467-1476.
[15]	DONG Wen-ke, MA Xiang, ZHANG Yu-juan, GUO Rui, ZHANG Zhao-heng, ZHANG Yan, MA Hui-ling. Effects of Low-temperature Stress on Glycolysis Metabolism and Related Gene Expression of Different Poa pratensis Varieties [J]. Acta Agrestia Sinica, 2019, 27(6): 1503-1510.