|
|
|
| Identification and Expression Analysis of PDR Gene Family in Wheat (Triticum aestivum) |
| HE Hao, WANG Zhi-Ming, ZHANG Li-Qiang, TANG Yi-Zhen, XIA Qi, LI Zhong-Yuan, ZHANG Huai-Yu* |
| College of Life Sciences, Sichuan Agricultural University, Ya'an 625014 |
|
|
|
|
Abstract Pleiotropic drug resistance (PDR) is an important subfamily member of the ABC transporter superfamily, which plays important role in response to stress, plant growth and development, but little research has been done in wheat (Triticum aestivum). In order to investigate the response of wheat PDR gene family to stress, genome-wide identification and bioinformatics analysis of TaPDR gene family were performed in this study, and the responses to abiotic stress were verified by qPCR. The results showed that 76 TaPDR genes were mainly distributed on chromosome 3, 5 and 7. The number of coding amino acids was 1 242~1 517, and the molecular weight was 140.69~170.99 kD, pI was between 6.22 and 8.94. According to phylogenetic analysis, TaPDR genes were divided into 5 groups (Class Ⅰ~Ⅴ), most of TaPDRs had highly conserved protein motifs, and TaPDR genes in the same group had more similar gene structure. 10 pairs of tandem repeat genes and 56 pairs of segmental duplication genes were founded with gene duplication analysis method. The tissue-specific analysis showed that TaPDR genes exhibited different expression levels in different tissues. Most TaPDR genes were highly expressed in roots. qPCR results showed that TaPDR genes could respond to salt, drought, cadmium and abscisic acid treatment in different degree. The results provide a reference basis for the mechanism of TaPDR gene family in abiotic stress response.
|
|
Received: 02 April 2022
|
|
|
|
Corresponding Authors:
* zhyu@sicau.edu.cn
|
|
|
|
[1] 崔德周, 樊庆琦, 隋新霞, 等. 2017. 小麦响应逆境胁迫的蛋白质组学研究进展[J]. 麦类作物学报, 37(1): 116-121.
(Cui D Z, Fan Q Q, Sui X X, et al.2017. Advances in wheat proteomics under diverse stresses[J]. Journal of Triticeae Crops, 37(1): 116-121.)
[2] 刘利鹏, 苏鸿雨, 梁寅峰, 等. 2021. 细菌ABC转运蛋白及其抑制剂研究进展[J]. 黑龙江畜牧兽医, 17: 21-25.
(Liu L P, Su H Y, Liang Y F, et al.2021. Research progress on bacterial ABC transporters and their inhibitors[J]. Heilongjiang Animal Science and Veterinary Medicine, 17: 21-25.)
[3] 吕运舟, 董筱昀, 梁珍海, 等. 2021. 转录组的黄山栾树MYB基因家族鉴定及表达[J]. 东北林业大学学报, 49(4): 33-38.
(Lv Y Z, Dong X Y, Liang Z H, et al.2021. Transcriptome-wide ldentification and expression profiling of the MYB gene family in Koelreuteria bipinnata var. integrifoliola[J]. Journal of Northeast Forestry University, 49(4): 33-38.)
[4] 严黎, 张建红, 姜丹, 等. 2020. 植物次生代谢物转运蛋白研究进展[J]. 中草药, 51(19): 5065-5076.
(Yan L, Zhang J H, Jiang D, et al.2020. Recent advances for plant secondary metabolite transporters[J]. Chinese Traditional and Herbal Drugs, 51(19): 5065-5076.)
[5] Ames G F, Mimura C S, Holbrook S R, et al.1992. Traffic ATPases: A superfamily of transport proteins operating from Escherichia coli to humans[J]. Advances in Enzymology and Related Areas of Molecular, 65: 1-47.
[6] Amoako O P, Ayaka M, Mami S, et al.2018. Genome-wide analysis of ATP binding cassette (ABC) transporters in tomato[J]. PLOS ONE, 13(7): 1-26.
[7] Anjard C, Loomis W F.2002. Evolutionary analyses of ABC transporters of dictyostelium discoideum[J]. Eukaryotic Cell, 1(4): 643-652.
[8] Appels R, Eversole K, Feuillet C, et al.2018. Shifting the limits in wheat research and breeding using a fully annotated reference genome[J]. Science, 17(361): 6403-6412.
[9] Babenko V N, Rogozin I B, Mekhedov S L, et al.2004. Prevalence of intron gain over intron loss in the evolution of paralogous gene families[J]. Nucleic Acids Research, 32(12): 3724-3733.
[10] Bienert M D, Siegmund S E, Drozak A, et al.2012. A pleiotropic drug resistance transporter in Nicotiana tabacum is involved in defense against the herbivore Manduca sexta[J]. The Plant Journal, 72(5): 745-757.
[11] Blanc G, Wolfe K H.2004. Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes[J]. Plant Cell, 16(7): 1667-1678.
[12] Chen C J, Chen H, Zhang Y, et al.2020. TBtools: An integrative toolkit developed for interactive analyses of big biological data[J]. Molecular Plant, 13(8): 1194-1202.
[13] Conant G C, Wolfe K H.2008. Turning a hobby into a job: How duplicated genes find new functions[J]. Nature Reviews Genetics, 9(12): 938-950.
[14] Crouzet J, Roland J, Peeters E, et al.2013. NtPDR1, a plasma membrane ABC transporter from Nicotiana tabacum, is involved in diterpene transport[J]. Plant Molecular Biology, 82: 181-192.
[15] Crouzet J, Trombik T, Fraysse A S, et al.2006. Organization and function of the plant pleiotropic drug resistance ABC transporter family[J]. FEBS Letters, 580(4): 1123-1130.
[16] Dean M, Rzhetsky A, Allikmets R.2001. The human ATP-binding cassette (ABC) transporter superfamily[J]. Genome Research, 11(7): 1156-1166.
[17] Devos K, Dubcovsky J, Chinoy C, et al.1995. Structural evolution of wheat chromosomes 4A, 5A, and 7B and its impact on recombination[J]. Theoretical and Applied Genetics, 91(2): 282-288.
[18] Frédéric C, Adriana A, Sébastien T, et al.2014. Structural and functional partitioning of bread wheat chromosome 3B[J]. Science, 345(6194): 285-294.
[19] Fu X Q, Liu H, Hassani D, et al.2020. AaABCG40 enhances artemisinin content and modulates drought tolerance in Artemisia annua[J]. Frontiers in Plant Science, 11: 950-961.
[20] Gasteiger E, Hoogland C, Gattiker A, et al.1999. Protein identification and analysis tools on the ExPASy server[J]. Methods in Molecular Biology, 112(53): 531-552.
[21] Gupta B B, Selter L L, Baranwal V K, et al.2019. Updated inventory, evolutionary and expression analyses of G (PDR) type ABC transporter genes of rice[J]. Plant Physiology and Biochemistry, 142: 429-439.
[22] He Y X, Xu J, Wang X Y, et al.2019. The Arabidopsis pleiotropic drug resistance transporters PEN3 and PDR12 mediate camalexin secretion for resistance to Botrytis cinerea[J]. Plant Cell, 31(9): 2206-2222.
[23] Higgins C F, Linton K J.2004. The ATP switch model for ABC transporters[J]. Nature Structural & Molecular Biology, 11(10): 918-926.
[24] Jian M, Jiri S, Paul J, et al.2013. Sequence-based analysis of translocations and inversions in bread wheat (Triticum aestivum L.)[J]. PLOS ONE, 8(11): e79329-e79334.
[25] Kim D Y, Jin J Y, Alejandro S, et al.2010. Overexpression of AtABCG36 improves drought and salt stress resistance in Arabidopsis[J]. Plant Physiology, 139(2): 170-180.
[26] Konstantinos B.2015. Structural basis for the mechanism of ABC transporters[J]. Biochemical Society Transactions, 43(5): 889-893.
[27] Krattinger S G, Lagudah E S, Spielmeyer W, et al.2009. A putative ABC transporter confers durable resistance to multiple fungal pathogens in wheat[J]. Science, 323(5919): 1360-1363.
[28] Mentewab A, Stewart J C.2005. Overexpression of an Arabidopsis thaliana ABC transporter confers kanamycin resistance to transgenic plants[J]. Nature Biotechnology, 23(9): 1177-1180.
[29] Mishra A K, Choi J, Rabbee M F, et al.2019. In silico Genome-wide analysis of the ATP-binding cassette transporter gene family in soybean (Glycine max L.) and their expression profiling[J]. Biomed Research International, 10: 1155-1170.
[30] Moons A.2003. Ospdr9, which encodes a PDR-type ABC transporter, is induced by heavy metals, hypoxic stress and redox perturbations in rice roots[J]. FEBS Letter, 553(3): 370-376.
[31] Moons A.2008. Transcriptional profiling of the PDR gene family in rice roots in response to plant growth regulators, redox perturbations and weak organic acid stresses[J]. Planta, 229(1): 53-71.
[32] Oda K, Otani M, Uraguchi S, et al.2011. Rice ABCG43 is Cd inducible and confers Cd tolerance on yeast[J]. Japan Society for Bioscience, Biotechnology, and Agrochemistry, 75(6): 1211-1213.
[33] Pang K, Li Y, Liu M, et al.2013. Inventory and general analysis of the ATP-binding cassette (ABC) gene superfamily in maize (Zea mays L.)[J]. Gene, 526: 411-428.
[34] Roy S W, Penny D.2007. On the incidence of intron loss and gain in paralogous gene families[J]. Molecular Biology and Evolution, 24(8): 1579-1581.
[35] Sánchez-fernández R, Davies T G, Coleman J O, et al.2001. The Arabidopsis thaliana ABC protein superfamily, a complete inventory[J]. Journal of Biological Chemistry, 276(32): 20-31.
[36] Shang Y, Xiao J, Ma L L, et al.2009. Characterization of a PDR type ABC transporter gene from wheat (Triticum aestivum L.)[J]. Chinese Science Bulletin, 54(18): 3249-3257.
[37] Sheps J A, Ralph S, Zhao Z, et al.2004. The ABC transporter gene family of Caenorhabditis elegans has implications for the evolutionary dynamics of multidrug resistance in eukaryotes[J]. Genome Biology, 5(3): 15-32.
[38] Stein M, Dittgen J, Sánchez-Rodríguez C, et al.2006. Arabidopsis PEN3/PDR8, an ATP binding cassette transporter, contributes to nonhost resistance to inappropriate pathogens that enter by direct penetration[J]. Plant Cell, 18(3): 731-746.
[39] Timothy L B, Nadya W, Chris M, et al.2006. MEME: Discovering and analyzing DNA and protein sequence motifs[J]. Nucleic Acids Research, 34: 369-373.
[40] van den Brûle S, Müller A, Fleming A J, et al.2002. The ABC transporter SpTUR2 confers resistance to the antifungal diterpene sclareol[J]. The Plant Journal, 30(6): 649-662.
[41] van den Brûle S, Smart C C.2002. The plant PDR family of ABC transporters[J]. Planta, 216(1): 95-106.
[42] Verrier P J, Bird D, Burla B, et al.2008. Plant ABC proteins-a unified nomenclature and updated inventory[J]. Trends in Plant Science, 13(4): 151-159.
[43] Wang G P, Hou W Q, Zhang L, et al.2016. Functional analysis of a wheat pleiotropic drug resistance gene involved in Fusarium head blight resistance[J]. Journal of Integrative Agriculture, 15(10): 2215-2227.
[44] Zhu Y, Wu N, Song W, et al.2014. Soybean (Glycine max) expansin gene superfamily origins: Segmental and tandem duplication events followed by divergent selection among subfamilies[J]. BMC Plant Biology, 14: 93-112. |
|
|
|
