Identification of RcHSF Gene Family in Castor and Analysis of Expression Pattern under Cold Stress

doi:10.7668/hbnxb.20191312

Abstract

Abstract: The purpose of this study was to illustrate the structure traits of HSF genes family in castor and its expression pattern in different tissues. The bioinformatics method was used to analyze the sequence structure, physical and chemical properties, chromosome positioning, and cis-acting elements of promoters, the conserved domains, phylogenetic relationships, and clustering methods of the encoded protein. RNA-Seq and qRT-PCR was used to assess the expression of RcHSFs. The results showed that the castor genome contained 19 members of the RcHSF gene family.Gene structure analysis showed that RcHSFs contained 1-3 exons, and were located on 17 chromosome fragments with uneven distribution; most RcHSFs contained AAGAA-motif, MYB and MYC elements, which indicated that these genes were responsive to plant hormone and stress; Protein analysis showed that RcHSFs were grouped into A, B, and C categories according to motif type and arrangement, which indicated that the protein functions of different types of HSF are different. Although all members have different degrees of motif deletion, the domain is highly conserved;RNA-Seq analysis showed that only RcHSF4 and RcHSF10 were induced by cold stress, which was consistent with qRT-PCR verification results. This result provides an important theoretical basis for the cloning and functional research of RcHSFs, and also provides candidate genes for the establishment of new germplasm resources of castor cold resistance.

Key words: Castor, HSF gene family, Cold stress, Expression pattern

CLC Number:

Q78
S563.03

LIU Xuming, LI Min, DUAN Qiong, ZHANG Hongyu, MENG Di, ZHANG Lixue, ZHANG Jixing, WANG Xiaoyu. Identification of RcHSF Gene Family in Castor and Analysis of Expression Pattern under Cold Stress[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2020, 35(5): 62-71. doi: 10.7668/hbnxb.20191312.

/ / Recommend / Download Citations

URL: http://www.hbnxb.net/EN/10.7668/hbnxb.20191312

http://www.hbnxb.net/EN/Y2020/V35/I5/62

References

[1] 翁锦周, 洪月云. 植物热激转录因子在非生物逆境中的作用[J]. 分子植物育种, 2006, 4(1):88-94. doi:10.3969/j.issn.1672-416X.2006.01.016.
Weng J Z, Hong Y Y. The roles of plant heat shock transcription factors in abiotic stress[J]. Molecular Plant Breeding , 2006, 4(1):88-94.
[2] Ohama N, Sato H, Shinozaki K, Yamaguchi-Shinozaki K. Transcriptional regulatory network of plant heat stress response[J]. Trends in Plant Science ,2017, 22(1):53-65. doi:10.1016/j.tplants.2016.08.015.
[3] Guo M, Liu J H, Ma X, Luo D X, Gong Z H, Lu M H. The plant heat stress transcription factors (HSFs):structure, regulation, and function in response to abiotic stresses[J]. Frontiers in Plant Science , 2016, 7:114. doi:10.3389/fpls.2016.00114.
[4] Bharti K, Koskull-Döring P V, Bharti S, Kumar P, Tintschl-Körbitzer A, Treuter E, Nover L. Tomato heat stress transcription factor HsfB1 represents a novel type of general transcription coactivator with a histone-like motif interacting with the plant CREB binding protein ortholog HAC1[J]. The Plant Cell , 2004, 16(6):1521-1535. doi:10.1105/tpc.019927.
[5] Scharf K D, Rose S, Zott W, Schöff F, Nover L,Schöff F. Three tomato genes code for heat stress transcription factors with a region of remarkable homology to the DNA-binding domain of the yeast HSF[J]. The EMBO Journal , 1990, 9(13):4495-4501. doi:10.1002/j.1460-2075.1990.tb07900.x.
[6] Li P S, Yu T F, He G H, Chen M, Zhou Y B, Chai S C, Xu Z S, Ma Y Z. Genome-wide analysis of the Hsf family in soybean and functional identification of GmHsf-34involvement in drought and heat stresses[J]. BMC Genomics , 2014, 15(1):1009. doi:10.1186/1471-2164-15-1009.
[7] Zhu X Y, Huang C Q, Zhang L, Liu H F, Yu J H, Hu Z Y, Hua W. Systematic analysis of Hsf family genes in the Brassica napus genome reveals novel responses to heat, drought and high CO₂ stresses[J]. Frontiers in Plant Science , 2017, 8:1174. doi:10.3389/fpls.2017.01174.
[8] Scharf K D, Berberich T, Ebersberger I, Nover L. The plant heat stress transcription factor (Hsf) family:structure, function and evolution[J]. Biochimica et Biophysica Acta , 2012, 1819(2):104-119. doi:10.1016/j.bbagrm.2011.10.002.
[9] Chung E, Kim K M, Lee J H. Genome-wide analysis and molecular characterization of heat shock transcription factor family in Glycine max [J]. Journal of Genetics and Genomics , 2013, 40(3):127-135. doi:10.1016/j.jgg.2012.12.002.
[10] Lin Y X, Jiang H Y, Chu Z X, Tang X L, Zhu S W, Cheng B J. Genome-wide identification, classification and analysis of heat shock transcription factor family in maize[J]. BMC Genomics , 2011, 12(1):76-89. doi:10.1186/1471-2164-12-76.
[11] Guo J K, Wu J, Ji Q, Wang C, Luo L, Yuan Y, Wang Y H, Wang J. Genome-wide analysis of heat shock transcription factor families in rice and Arabidopsis [J]. Journal of Genetics and Genomics , 2008, 35(2):105-118. doi:10.1016/s1673-8527(08)60016-8.
[12] Prasinos C, Krampis K, Samakovli D, Hatzopoulos P. Tight regulation of expression of two Arabidopsis cytosolic Hsp90genes during embryo development[J]. Journal of Experimental Botany , 2005, 56(412):633-644. doi:10.1093/jxb/eri035.
[13] Swindell W R, Huebner M, Weber A P. Transcriptional profiling of Arabidopsis heat shock proteins and transcription factors reveals extensive overlap between heat and non-heat stress response pathways[J]. BMC Genomics , 2007, 8(1):125. doi:10.1186/1471-2164-8-125.
[14] Hu W H, Hu G C, Han B. Genome-wide survey and expression profiling of heat shock proteins and heat shock factors revealed overlapped and stress specific response under abiotic stresses in rice[J]. Plant Science , 2009, 176(4):583-590. doi:10.1016/j.plantsci.2009.01.016.
[15] Giorno F, Wolters-Arts M, Grillo S, Scharf K D, Vriezen W H, Mariani C. Developmental and heat stress regulated expression of HsfA2 and small heat shock proteins in tomato anthers[J]. Journal of Experimental Botany , 2010, 61(2):453-462. doi:10.1093/jxb/erp316.
[16] Ishka M R, Brown E, Weigand C, Tillett R L, Schlauch K A, Miller G, Harper J F. A comparison of heat-stress transcriptome changes between wild-type Arabidopsis pollen and a heat-sensitive mutant harboring a knockout of cyclic nucleotide-gated cation channel 16(cngc16) [J]. BMC Genomics , 2018, 19(1):549. doi:10.1186/s12864-018-4930-4.
[17] 朱华生. 玉米热激转录因子ZmHsf04的克隆及抗逆功能研究[D]. 合肥:安徽农业大学, 2016.
Zhu H S. Cloning and stress-resistance study of heat shock transcription factor ZmHsf04 from Zea mays[D]. Hefei:Anhui Agricultural University, 2016.
[18] 余文才, 李言, 吴绍华, 晁金全, 张世鑫, 杨署光, 田维敏. 巴西橡胶树 HbHsfA4a 的克隆及其对低温胁迫的响应[J]. 热带作物学报, 2019, 40(5):898-904. doi:10.3969/j.issn.1000-2561.2019.05.010.
Yu W C, Li Y, Wu S H, Chao J Q, Zhang S X, Yang S G, Tian W M. Cloning of HbHsfA4a and its transcriptional responses to cold stress in Hevea brasiliensis [J]. Chinese Journal of Tropical Crops , 2019, 40(5):898-904.
[19] 李金琴, 朱国立, 吴国林, 何智彪, 李靖霞, 张春华, 田福东, 贾娟霞. 蓖麻种子含油量与主要数量性状的相关及通径分析[J]. 中国油料作物学报, 2004, 26(2):43-46.
Li J Q, Zhu G L, Wu G L, He Z B, Li J X, Zhang C H, Tian F D, Jia J X. Correlation and path analysis beteween seed oil content and major quantitative characters in castor[J]. Chinese Journal of Oil Crop Sciences , 2004, 26(2):43-46.
[20] 王晓宇, 李敏, 刘栩铭, 卜祥琪, 丁雪, 张继星. 蓖麻 RcSEC14p 基因的克隆及低温胁迫下的表达分析[J]. 分子植物育种, 2019, 17(13):4204-4209. doi:10.13271/j.mpb.017.004204.
Wang X Y, Li M, Liu X M, Bu X Q, Ding X, Zhang J X. Cloning of RcSEC14p in Ricinus communis L. and expression analysis under cold stress[J]. Molecular Plant Breeding , 2019, 17(13):4204-4209.
[21] 李家朋. 玉米热激转录因子ZmHsf-17的功能研究[D]. 合肥:安徽农业大学, 2015.
Li J P. Function analysis of heat shock transcription factor ZmHsf-17 of Zea mays [D]. Hefei:Anhui Agricultural University, 2015.
[22] 王云, 彭丽云, 孙雪丽, 高玉莹, 陈晓慧, 陈裕坤, 林玉玲, 赖钟雄. 龙眼Hsf基因家族全基因组鉴定及体胚发生过程中的表达分析[J]. 应用与环境生物学报, 2019, 25(2):420-431. doi:10.19675/j.cnki.1006-687x.2018.06004.
Wang Y, Peng L Y, Sun X L, Gao Y Y, Chen X H, Chen Y K, Lin Y L, Lai Z X. Genome-wide identification of longan Hsf family members and their functional analysis during somatic embryogenesis in longan[J]. Chinese Journal of Applied and Environmental Biology , 2019, 25(2):420-431.
[23] 陈先知, 王燕, 史建磊, 朱隆静, 王克磊, 徐坚. 黄瓜全基因组热激转录因子(HSFs)的鉴定与表达分析[J]. 遗传, 2014, 36(4):376-386.doi:10.3724/SP.J.1005.2014.0376.
Chen X Z, Wang Y, Shi J L, Zhu L J, Wang K L, Xu J. Genome-wide identification, sequence characteristic and expression analysis of heat shock factors (HSFs) in cucumber[J]. Hereditas , 2014, 36(4):376-386.
[24] Gu Z L, Cavalcanti A, Chen F C, Bouman P, Li W H. Extent of gene duplication in the genomes of Drosophila , nematode, and yeast[J]. Molecular Biology and Evolution , 2002, 19(3):256-262. doi:10.1093/oxfordjournals.molbev.a004079.
[25] 雷娟利, 徐志豪. 转座子在植物功能基因组学中的应用[J]. 浙江农业学报, 2002, 14(5):291-296. doi:10.3969/j.issn.1004-1524.2002.05.011.
Lei J L, Xu Z H. Application of transposons in the plant functional genomics[J]. Acta Agriculturae Zhejiangensis , 2002, 14(5):291-296.
[26] Bai J F, Pennill L A, Ning J C, Lee S W, Ramalingam J, Webb C A, Zhao B Y, Sun Q, Nelson J C, Leach J E, Hulbert S H. Diversity in nucleotide binding site-leucine-rich repeat genes in cereals[J]. Genome Research , 2002, 12(12):1871-1884. doi:10.1101/gr.454902.
[27] Zhang S B, Chen C, Li L, Meng L, Singh J, Jiang N, Deng X W, He Z H, Lemaux P G. Evolutionary expansion, gene structure, and expression of the rice wall-associated kinase gene family[J]. Plant Physiology , 2005, 139(3):1107-1124. doi:10.1104/pp.105.069005.
[28] Jain M, Tyagi A K, Khurana J P. Genome-ide analysis, evolutionary expansion, and expression of early auxin-responsive SAUR gene family in rice ( Oryza sativa )[J]. Genomics , 2006, 88(3):360-371. doi:10.1016/j.ygeno.2006.04.008.
[29] 郭丽红, 徐娅, 郤秋霞, 李念, 檀文涛, 张学兰. 拟南芥热激因子AtHsfA1a在低温胁迫下对细胞程序性死亡中Caspase-3活性的影响[J]. 江苏农业科学, 2017, 45(21):24-27. doi:10.15889/j.issn.1002-1302.2017.21.006.
Guo L H, Xu Y, Xi Q X, Li N, Tan W T, Zhang X L. Effect of Arabidopsis heat shock factor AtHsfA1a on Caspase-3 activity in programmed cell death under low temperature stress[J]. Jiangsu Agricultural Sciences , 2017, 45(21):24-27.
[30] 熊洋洋, 顾雅琦, 刘志薇, 李彤, 吴致君, 庄静. 茶树中两个HSF转录因子基因分离与温度胁迫响应的比较分析[J]. 植物生理学报, 2015, 51(12):2143-2151. doi:10.13592/j.cnki.ppj.2015.0532.
Xiong Y Y, Gu Y Q, Liu Z W, Li T, Wu Z J, Zhuang J. Isolation and expression profiles analysis of two HSF transcription factor genes under temperature stress in Camellia sinensis [J]. Plant Physiology Journal, 2015, 51(12):2143-2151.

Please choose a citation manager

Content to export