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Acta Agronomica Sinica ›› 2022, Vol. 48 ›› Issue (1): 249-258.doi: 10.3724/SP.J.1006.2022.14019

• RESEARCH NOTES • Previous Articles     Next Articles

Genome-wide identification and expression patterns in response to signals from Phytophthora infestans of CrRLK1Ls gene family in potato

YU Hui-Fang(), ZHANG Wei-Na, KANG Yi-Chen, FAN Yan-Ling, YANG Xin-Yu, SHI Ming-Fu, ZHANG Ru-Yan, ZHANG Jun-Lian, QIN Shu-Hao*()   

  1. College of Horticulture, Gansu Agricultural University, Lanzhou 730070, Gansu, China
  • Received:2021-01-31 Accepted:2021-06-18 Online:2022-01-12 Published:2021-07-23
  • Contact: QIN Shu-Hao E-mail:2080277369@qq.com;qinsh@gsau.edu.cn
  • Supported by:
    National Natural Science Foundation of China(32060441);China Agriculture Research System(CARS-09-P14);Discipline Construction Fund Project of Gansu Agricultural University(GAU-XKJS-2018-225)

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Abstract:

Catharanthus roseus receptor-like kinase1-like kinases (CrRLK1Ls), a class of plant-specific protein receptor kinases, play an important role in maintaining cell wall integrity, cell-to-cell communications, and biotic and abiotic stress response. In this study, StCrRLK1Ls family members were identified, and their physical and chemical characteristics, chromosome location, evolutionary characteristics, subcellular location, and the expression patterns were comprehensively analyzed. The results showed that 17 StCrRLK1Ls members were detected, with amino acid size (753-997 aa), molecular weight (83.34-108.69 kD), and isoelectric point (5.30-7.56). Among them, StCrRLK1Ls were mainly predicted on plasma membrane. Evolutionary analysis indicated that CrRLK1Ls from potato, rice, apple, Arabidopsis, and tomato could be divided into seven subgroups, and StCrRLK1Ls were distributed in subgroups III, IV, V, VI, and VII. Moreover, StCrRLK1Ls were distributed on eight chromosomes, and there are three tandem repeat gene clusters, including six members. In addition, there were many cis-elements in the promoter region of StCrRLK1Ls, which mainly responded to hormones, defense, and stress signals. After the inoculation with Phytophthora infestans (Pi), a large number of StCrRLK1Ls were differentially expressed in Atlantic and Longshu 7, and the relative expression levels of StCrRLK1L8 and StCrRLK1L10 were obviously up-regulated during Pi infection. The relative expression levels of StCrRLK1L11 were 9.74 times compared with the control at eight days Atlantic inoculated Pi. We speculated that they could be used as the candidate genes for disease resistance and further functional analysis, which might play an important role in response to pathogenic fungi of potato.

Key words: CrRLK1Ls, bioinformatic analysis, Phytophthora infestans (Pi), the relative expression pattern

Table 1

Characteristics of CrRLK1Ls gene in potato"

基因登录号
Gene ID		 基因名称
Gene name		 氨基酸数
Amino acid number (aa)		 分子量
Molecular
Weight (kD)		 等电点
Isoelectric
point		 不稳定
性系数
Instability
index (II)		 亲水性
指数
GRAVY		 脂溶
指数
Aliphatic
index		 亚细胞定位
Subcellular localization
PGSC0003DMP400037841 StCrRLK1L1 854 95.05 6.39 41.44 -0.282 77.88 PMa, ECb
PGSC0003DMP400065940 StCrRLK1L2 873 96.03 5.67 42.18 -0.207 79.34 PMa,b
PGSC0003DMP400036732 StCrRLK1L3 868 96.30 5.57 37.21 -0.274 83.13 PMa, ECb
PGSC0003DMP400002467 StCrRLK1L4 856 95.43 6.13 42.26 -0.202 85.07 PMa,b
PGSC0003DMP400002464 StCrRLK1L5 873 97.31 6.25 39.14 -0.256 81.41 PMa,b
PGSC0003DMP400026188 StCrRLK1L6 818 91.57 5.80 33.92 -0.200 85.38 PMa,b
PGSC0003DMP400045697 StCrRLK1L7 818 91.27 7.56 31.77 -0.083 89.44 PMa,b
PGSC0003DMP400042695 StCrRLK1L8 753 83.34 6.11 41.43 -0.122 86.33 PMa, Chlob
PGSC0003DMP400040508 StCrRLK1L9 842 92.84 6.59 37.71 0.010 92.46 PMa,b
PGSC0003DMP400040693 StCrRLK1L10 818 91.32 5.55 32.47 -0.068 92.19 PMa,b
PGSC0003DMP400012927 StCrRLK1L11 997 108.69 7.10 36.74 -0.213 84.40 PMa,b
PGSC0003DMP400012941 StCrRLK1L12 889 97.92 5.51 38.65 -0.275 82.35 PM, Chlo
PGSC0003DMP400017117 StCrRLK1L13 829 90.65 5.77 36.39 -0.051 85.68 PMa,b
PGSC0003DMP400052063 StCrRLK1L14 889 97.45 5.93 39.97 -0.211 80.37 PMa,b
PGSC0003DMP400043439 StCrRLK1L15 834 91.29 5.30 37.55 0.018 94.46 PMa,b
PGSC0003DMP400006076 StCrRLK1L16 872 96.70 5.96 38.47 -0.190 81.08 PMa,b
PGSC0003DMP400027254 StCrRLK1L17 834 91.51 5.73 35.37 -0.115 83.78 PMa,b

Fig. 1

Phylogenetic relationships of potato (Solanum tuberosum), thale cress (Arabidopsis thaliana), rice (Oryza sativa), tomato (Solanum lycopersicum), and apple (Malus pumila Mill.)"

Fig. 2

Chromosomal distribution of CrRLK1Ls in potato"

Fig. 3

Phylogenetic relationships, gene structure, and motif analysis of CrRLK1Ls in potato A: phylogenetic relationships of StCrRLK1Ls gene family; B: gene structure of StCrRLK1Ls gene family; C: motif analysis of StCrRLK1Ls gene family."

Fig. 4

Cis-elements in response to hormone and stresses in promoter region of StCrRLK1Ls in potato A: ABRE is the abscisic acid responsive elements; B: CGTCA-motif and TGACG-motif are the methyl jasmonate responsive element; C: TCA-element is the salicylic acid responsive elements; D: P-box and TATC-box are the gibberellin responsive elements; E: TGA-element and AuxRR-core are the auxin responsive elements; F: TC-rich repeats is the defense and Stress responsive elements; G: MBS is the drought responsive elements; H: LTR is the low-temperature responsive elements; I: MBSI is the flavonoid responsive elements; J: AT-rich sequence is the elicitor-mediated activation responsive elements; K: circadian is the circadian control responsive elements; L: ARE is the anaerobic responsive elements; M: O2-site is the regulatory element for zein metabolism."

Fig. 5

Relative expression patterns of six CrRLK1Ls genes in response to ABA and GA3 treatments in potato * and ** mean significant difference at the 0.05 and 0.01 probability levels between the treatments and controls, respectively."

Fig. 6

Relative expression patterns of StCrRLK1Ls in response to Phytophthora infestans (Pi) * and ** mean significant difference at the 0.05 and 0.01 probability levels between the treatments and controls, respectively."

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