Expression Changes of Genes Related to Germination Based on EST Database under Priming Treatment by Gibberellic Acid in Perilla frutescens (Korean Perilla)

 

Eun Soo Seong1†, Byeong Ju Kang2†, Ji Hye Yoo3, Jae Geun Lee4, Na Young Kim5 and Chang Yeon Yu2*

1Department of Medicinal Plant, Suwon Women’s University, Suwon 16632, Republic of Korea, South Korea

2Department of Bio-Resource Sciences, Kangwon National University, Chuncheon 24341, South Korea

3Bioherb Research Institute, Kangwon National University, Chuncheon 24341, South Korea

4Research Institute of Biotechnology, Hwajin Biocosmetics, Hongcheon 25142, South Korea

5Hotel Culinary Arts, Songho University, Hoengseong 25242, South Korea

*For correspondence: cyyu@kangwon.ac.kr

Contributed equally to this work and are co-first authors

Received 12 January 2021; Accepted 30 April 2021; Published 10 July 2021

 

Abstract

 

It is very important to establish an optimal seed priming process in order to increase the vitality of the seeds and promote the metabolism for the germination of the seeds. The optimum concentrations and species of priming agents to improve seed germination of both medicinal plants were also estimated. To improve the germination rate of Perilla frutescens (Korean perilla) seeds, various seed priming agents were used to analyze seed germination rates in the Saeyeopsil, Okdong and 141 collection Korean perilla cultivars. The agents used for seed priming were CaCl2, Ca(NO3)2, NaCl, K3PO4, polyethylene glycol, and gibberellic acid (GA3). When 0.1 mM GA3 was used for seed priming, germination rates of Okdong, and the 141 collection showed a greater than 70% increase compared to the controls. Nine genes were selected for expression analysis by searching for genes related to seed germination and plant development in the EST (Expressed Sequence Tag) database of the Korean perilla cDNA library. GA3 priming treatment for 1 d induced higher transcriptional levels of genes related to germination and plant development than controls treated with water only. These genes were identified as protochlorophyllide reductase-like, magnesium-chelatase subunit ChlI, heme-binding protein 2-like, glyceraldehyde 3-phosphate dehydrogenase A, Chlorophyll a-b binding protein 6, B2 protein, 2-Cys peroxiredoxin BAS1, and 21 kDa protein. From these results, we suggest that when priming Korean perilla seeds with GA3, a large number of genes involved in plant development at early stages of seed germination play a role in improving the seed germination rate. Also, these induced genes are ideal candidate biomarkers for seed priming of Korean perilla. Specially, protochlorophyllide reductase-like is thought to be a potential gene for future molecular marker. © 2021 Friends Science Publishers

 

Keywords: EST database; GA3; Germination rate; Perilla frutescens; Seed priming

 


Introduction

 

Perilla frutescens is a plant native to regions of Southeast Asia and has various uses such as an ingredient in natural products and food, and as a medicinal pigment (Seong et al. 2009). This plant has long been utilized as a raw material for oil extraction and is commonly known as “Dlggae” in Korea. Recently, consumption of perilla has increased significantly in Korea; more than 60% of the total unsaturated fatty acids (FAs) in perilla seeds comprises α-linolenic acid (Ichikawa 2006), an essential FA required for human growth and development, in addition to its known major role in preventing and treating blood vessel diseases (Shahidi and Miraliakbari 2005). Many flavonoids, sterols, terpenoids and phenolic acids have been extracted from seeds of Korean perilla and studied, with several studies reporting on the importance of flavonoids and phenolic compounds in relation to biological activity (Ozturk et al. 2010; Kim et al. 2019).

Seed priming technology using Ca(NO3)2, KNO3, MgSO4, NaNO3, KCl, K3PO4, NH4NO3 and PEG 6000PEG (polyethylene glycol) involves pretreatment of seeds with different agents with varying concentration, duration, or temperature conditions, with the goal of improving seed production under given environmental conditions (Park et al. 2013). The success of priming is strongly involved in the hydration of the metabolism and process by which the seed absorbs a limited amount of water (Rahimi 2013). The complex network involved in seed metabolism is dependent on the agent used, duration, and temperature of the priming treatment, as well as vigor, dehydration, and storage conditions of primed seeds (Dezfuli et al. 2008). Seeds priming to enhance seed quality show increase pattern of germination rate which result in high levels of abiotic stress resistance. All these characteristics directly correlate to seed vigour, plant genotype and physiology controlled by multiple genetic and environmental factors (Jisha et al. 2013). Priming method is generally used to treat vegetables seeds such as carrot, celery, lettuce, pepper and tomato (Paparella et al. 2015). However, the establishment of seed priming techniques for medicinal crops is extremely limited. Therefore, it is necessary to improve the germination rate, shorten the number of days it takes to germinate, and establish optimal priming conditions for uniform seedling production in medicinal crops.

The effect of priming has been proven to improve seed germination and seedling growth using numerous chemical factors in various crops such as wheat, beans, sunflower, corn, and brassica (Cho et al. 2011a). For instance, the germination characteristics of corn seeds were improved after gibberellic acid (GA3) or hydropriming treatment (Subedi and Ma 2005).

Gibberellic acid (GA3) is essential for seed germination and flower development; for example, Arabidopsis exhibiting a deficiency in GA3 content showed defects in seed germination and organ formation (Kim et al. 2014). In addition, loss-of-function studies have identified many genes involved in GA3-induced seed germination (Cao et al. 2006). Genetic markers responding to GA3 may be used to assess the specificity, which AtGA3ox1(GA4) was downregulated by GA3 activity (Silverstone et al. 2001). Gene expression regulated by GA3 during the germination process has also been studied, helping to explain the GA3 response mechanism (Cao et al. 2006).

The purpose of this study was to establish an optimal germination system for Korean perilla through priming treatment, using various agents such as CaCl2, Ca(NO3)2, NaCl, K3PO4, polyethylene glycol (PEG), and GA3. In this report, we investigated the germination ratios resulting from the application of all the agents used in the seed priming treatments. Furthermore, this study aimed to reveal the genetic relationship between seed germination and GA3 response, using gene expression data from the Perilla frutescens EST database generated in our previous study (Seong et al. 2015).

 

Materials and Methods

 

Priming treatments for Korean perilla seeds using various agents

 

All seeds used in this study were stored at 4°C and the priming conditions were tested on three sources of seed: Saeyeopsil, Okdong, and the 141 line. The agents used for priming treatment were CaCl2, Ca(NO3)2, NaCl, K3PO4, PEG 6000 and GA3. The concentrations of CaCl2, Ca(NO3)2, NaCl and K3PO4 used were 100, 300 and 500 mM, respectively, and 0.6 and -0.9 MPa for PEG 6000. GA3 was used at concentrations of 50, 100, 300 and 500 μM. Among priming techniques, osmotic priming and biopriming are the most widely used. Chemicals related to osmotic priming include CaCl2, Ca(NO3)2, NaCl, K3PO4, and PEG 6000, and GA3, a metabolite related to biopriming, was also selected and applied to the experiment. Treatment for concentrations of priming agents and seeds were preceded at 20°C for 3 days in a dark condition (Park et al. 2013).

 

Germination of primed Korean perilla seeds

 

Korean perilla seeds were sterilized with 70% ethanol for 5 min and 1% hydrogen peroxide for 5 min, and then dried naturally for 1 hour to achieve moisture balance of seeds. Next, 100 mL of priming solution and 5 g of sterilized perilla were placed in an Erlenmeyer flask. Priming treatment with CaCl2, Ca(NO3)2, NaCl, K3PO4 and PEG 6000 was carried out for 3 days, at 20°C in the dark on a shaking incubator. Priming treatment with GA3 was performed under dark condition at 20°C for 1 day.

 

Gene selection and primer design from the EST databases of Korean perilla

 

In our previous study, we analyzed and reported the metabolic classification for genes from the EST database contained in the Korean perilla cDNA library (Seong et al. 2015). As a result of Seong et al. (2015), nine genes related to seed germination were selected for analysis and are shown in Table 1, with numbers and the annotation of the EST database (Seong et al. 2015). To analyze the expression patterns of the 9 selected genes, RT-PCR were performed with 20-mer primers designed using the PICK primer program on the Bioneer homepage (https://www.bioneer.co.kr/index.php/).

 

RNA extraction from Korean perilla treated with GA3

 

The prepared samples were placed in a pre-frozen pestle bowl with liquid nitrogen and ground to a fine powder using a stick. The ground sample was placed in a tube with TRIzol® Reagent (Thermo Fisher Scientific, USA), allowed to stand at room temperature for 5 min, with shaking, for thorough mixing. The samples were separated using a centrifuge at 13000 rpm and the supernatant transferred to a new tube, chloroform was added and left for 10 min, with shaking. The sample was again centrifuged at 13000 rpm and the supernatant transferred to a new tube. The supernatant was slowly mixed with 23 times volume of isopropanol and stored overnight at -20°C. The following day, samples were thawed, centrifuged at 13000 rpm, and the supernatant discarded. The resulting pellets were washed with DEPC-treated 70% alcohol and dried. The total RNA was dissolved in DEPC-treated sterilized water and quantified on an agarose gel.

 

RT-PCR analysis

 

After cDNA synthesis from the quantified total RNA samples, RT-PCR was performed using primers (forward and reverse) for the Korean perilla actin gene. After confirming the expression level of the actin gene, the RT-PCR analysis was performed using primers for genes related to germination (Table 2). PCR conditions were as follows: initial denaturation at 94°C for 5 min; 28 cycles of denaturation at 94°C for 1 min, annealing at 55°C for 1 min and 1 min extension at 72°C, followed by an additional 10 min extension time at 72°C. Aliquots of 12 μL of the reacted samples were loaded and separated by electrophoresis on a 1% agarose gel. The reaction was done in triplicate for clarity of results. The band detected on the agarose gel was cloned into a pGEM T-easy vector, followed by sequencing, and homology was confirmed by aligning with sequences of the original genes.

 

Statistical analysis of germination rates

 

After treatment with the priming reagent, a germination test was carried out by in triplicate with 50 seeds for each treatment at 25°C for 10 days. To investigate the germination characteristics resulting from priming treatments, the average number of germinating seeds was determined after 15 days and was performed in triplicate. Statistical significance was analyzed using Duncan's Multiple Range Test (DMRT) using the IBM SPSS Statistics software (SPSS v. 23, International Business Machines Corp., Armonk, NY, USA). Statistical significance was determined at the 5% level.

 

Results

 

Improvement in germination rates by priming of Korean perilla seeds

 

In this study, the germination rates of Korean perilla were analyzed after treatment with six priming agents viz. CaCl2, Ca(NO3)2, NaCl, K3PO4, PEG and GA3. When seeds were primed with CaCl2 at the concentrations of 100, 300 and 500 mM, the germination rates were 50.00 ± 1.63% for Saeyeopsil and 62.00 ± 1.63% for line 141 with 100 mM, and 68.66 ± 8.99% for Okdong with 300 mM. For priming with Ca(NO3)2, the germination rate was 56.00 ± 2.82% at 100 mM for Saeyeopsil and 72.66 ± 8.37 and 61.33 ± 6.79% at 300 mM for Okdong and line 141, respectively. The germination rate for all Korean perilla seeds primed with 100 mM NaCl ranged from 44.00 ± 3.26 to 53.33 ± 8.21%. However, NaCl treatment resulted in a lower germination rate compared to the control without priming treatment. The germination rate for the priming treatment with -0.96 MPa PEG was 58.00 ± 4.32% for Saeyeopsil and 64.00 ± 4.32% for Okdong, respectively. For the 141 collection, was higher value as 55.33 ± 2.49% in that of -0.6 MPa PEG. Priming with 0.1 mM GA3 showed the best values among the priming treatment agents for all the Korean perilla seeds, presenting values ranging from 62.66 ± 1.88 to 70.66 ± 4.10%. However, no germination was observed with treatment at any concentration of K3PO4. Among various priming agents, 'Saeyeopsil' and 'Okdong' showed a high germination rate of 60~70% or more under GA3 treatment, and '141 collection' showed a high germination rate of 70% or more under treatment with 100 mM CaCl2 or 0.1 mM GA3 (Table 3).

 

Gene expression by GA3-priming treatment in Korean perilla

 

As GA3 proved to be the most effective at increasing germination rates in Korean perilla among all the priming agents used, it was selected as the priming agent for the analysis of the expression patterns of nine genes related to plant development. Gene expression patterns were compared between Korean perilla seeds treated or untreated with 0.1 mM GA3 for 15 d. We found no significant difference in the transcriptional levels of genes between GA3 treated and untreated controls in Saeyeopsil. However, gene expression levels were higher in Okdong seeds treated for 1 d with GA3 than in the water-only controls. The genes showing the greatest induction after GA3 treatment for 1 d, were: protochlorophyllide reductase-like, magnesium chelatase subunit ChlI, heme-binding protein 2-like, glyceraldehyde 3-phosphate dehydrogenase A (GAPDH), Chlorophyll a-b binding protein 6 (LHCP), B2 protein, 2-Cys peroxiredoxin BAS1, and 21 kDa protein (Fig. 1).

Higher transcriptional levels were also observed for 141 collection seeds with GA3 treatment for 1 d compared to controls. The highest expression levels were recorded for protochlorophyllide reductase-like, magnesium chelatase subunit ChlI, heme-binding protein 2-like, GAPDH, 2-Cys peroxiredoxin BAS1 and 21 kDa protein. Gene expression in Korean Table 1: Genes related to germination analyzed from the EST data of Korean perilla cDNA library

 

EST NO.

Annotations by blast results of EST

Perilla-1-1a_pTriplEx2-seq_E22

PREDICTED: 1-aminocyclopropane-1-carboxylate oxidase [Sesamum indicum]

Perilla-1-4a_pTriplEx2-seq_J14

PREDICTED: 21 kDa protein [Sesamum indicum]

Perilla-1-2a_pTriplEx2-seq_M18

PREDICTED: 2-Cys peroxiredoxin BAS1, chloroplastic-like [Sesamum indicum]

Perilla-2-1a_pTriplEx2-seq_I15

PREDICTED: B2 protein [Sesamum indicum]

Perilla-1-1a_pTriplEx2-seq_C22

PREDICTED: chlorophyll a-b binding protein 6, chloroplastic [Sesamum indicum]

Perilla-1-1a_pTriplEx2-seq_A24

PREDICTED: glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic [Sesamum indicum]

Perilla-3-2a_pTriplEx2-seq_G10

PREDICTED: heme-binding protein 2-like [Sesamum indicum]

Perilla-1-1a_pTriplEx2-seq_K12

PREDICTED: magnesium-chelatase subunit ChlI, chloroplastic-like [Sesamum indicum]

Perilla-2-2a_pTriplEx2-seq_C12

PREDICTED: protochlorophyllide reductase-like [Sesamum indicum]

 

Table 2: The primers designed to gene expression of EST selected from Korean perilla cDNA library

 

Actin gene and EST No.

Forward

Reverse

Pfactin

ACAGAGGCACCTCTCAACCC

ATCACGACCAGCAAGATCCA

Perilla-1-1a_pTriplEx2-seq_E22

GCGAAAACTGGGGTTTCTTC

AGGAAGAAGGTGCTCTCCCA

Perilla-1-4a_pTriplEx2-seq_J14

TGGAGGAGCTGTCTGACTCG

CGCCACATTCACAATCTTCC

Perilla-2-2a_pTriplEx2-seq_M18

CTAGTGACCGAGTGCCGAGA

GCTTGCAAGTGCTTCGTTTC

Perilla-2-1a_pTriplEx2-seq_I15

GTGCATGGCAACCTACAAGG

GATGCACGTAAGCACCCATC

Perilla-1-1a_pTriplEx2-seq_C22

CCGTCCTCTCTTCCTCCAAG

GTGGGTCGAATCCGAAATCT

Perilla-1-1a_pTriplEx2-seq_A24

TTGTGATCGAGGGAACTGGA

AGGAAGCGTTGCTGATGATG

Perilla-3-2a_pTriplEx2-seq_G10

TGATTTGGAGGATATCGGCA

CCTCTCTTTGTGAAAGGGGC

Perilla-1-1a_pTriplEx2-seq_K12

GAGCCAGAGGCCAGTTTACC

TCTCCCTCACTTCAGGACCC

Perilla-2-2a_pTriplEx2-seq_C12

CCCCTCTAACAAGGGAGCAG

GTTCGGGTACACTGACACGC

 

perilla seeds treated with GA3 for 5 d showed a similar expression pattern compared to water treatment alone (Fig. 1). These results show that various genes are involved in seed germination metabolism during the early stages in Korean perilla seeds primed with GA3.

 

Discussion

 

In general, priming agents should be free of toxicity and kept under constant water conditions for effective plant growth. Priming treatment agents inhibit cellular osmotic regulation, and high concentrations of ions can inhibit germination by destroying enzymes and membrane (Seo et al. 2009). The ion concentrations of the priming solution can affect germination and seedling appearance, as the agents penetrate into the seeds and may have toxic effects. Additionally, increases in ion accumulation of a priming solution can reduce the priming effect by interfering with metabolism (Seo et al. 2009).

In a previous report, the germination rate of Hippophae rhamnoides seeds was shown to 52.6% of 300 mM and 50.9% of 400 mM under CaCl2 priming treatment, respectively (Choi 2012). On the contrary, in a priming study of Sorbus alnifolia seed, CaCl2 treatment resulted in a reduced germination rate compared to the control (Park et al. 2013). Ca(NO3)2 priming treatments for Saeyeopsil and Okdong produced higher germination rates than with CaCl2. Ca(NO3)2 priming treatment was effective in tomato, but application resulted in a decrease when compared to the control in sesame seeds (Cho et al. 2011b). This indicates that the effect of priming treatment is crop-dependent. In this study, the germination rates with the NaCl priming treatment were lower compared to the non-treated controls, while K3PO4-treatment completely inhibited germination. Inorganic salts such as NaCl and K3PO4 are often used when salt priming is applied. Nitrogen-containing salts are more effective at improving germination rates than salts containing phosphoric acid (Bose et al. 2018). However, in this report, germination rates of Korean perilla seeds did not show any improvement with NaCl priming treatment.

PEG is known to play a role in regulating osmotic equilibrium (Ismail et al. 2005). The germination rates of Korean perilla seeds under PEG priming treatment increased compared to the controls, as was previously reported for germination rates and germinative power of Alnus sibirica (Park et al. 2013). In the case of Zanthoxylum piperitum seeds, GA3 has been reported to increase the germination rate with increasing immersion time and concentration (Lim et al. 2015). The germination rate was significantly improved with GA3 levels of 25 ppm, and the germination rate tended to increase with increasing GA3 concentrations in Lithospermum erythrorhizon seed (Kim et al. 2014). Among all the priming agents tested, the results indicate that GA3 had the greatest effect, showing an increase of over 70% in the germination rates of Okdong and the 141 collection cultivars of Korean perilla.

In the past, many studies on seed priming with GA3 and related genes in various plants such as vegetables or Arabidopsis have been reported, but these results are very limited in medicinal plants (Ogawa et al. 2003). Therefore, in our results, optimal germination conditions of Korean perilla were established during GA3 priming, so we studied to analyze the correlation with genetic changes at the cellular level. DNA repair and antioxidant mechanisms are involved in minimization of growth inhibition for seeds during seedling development. The effects of the priming agent on DNA repair mechanisms are essential to optimize Table 3: Germination rate of three different cultivars depending on priming treatments in Perilla frutescens

 

Seed Treatment

Perilla frutescens

 

Saeyeopsil

Okdong

141 collection

Priming Agents

Concentrations

Germination rate (%)

Control

 

46.67 ± 12.85bcdef

58.00 ± 5.29de

54.67 ± 1.15cdefg

CaCl2

100 mM

50.00 ± 2.00abcef

62.00 ± 3.46cd

75.33 ± 3.06a

300 mM

32.67 ± 5.77g

68.66 ± 11.02abc

49.33 ± 3.06fg

500 mM

42.00 ± 2.00efg

56.67 ± 4.62de

45.33 ± 6.43g

Ca (Na3)2

100 mM

56.00 ± 3.46abcd

69.33 ± 8.33abc

59.33 ± 7.02cdef

300 mM

54.00 ± 6.93abce

72.67 ± 10.26ab

61.33 ± 8.32bcde

500 mM

43.33 ± 12.22defg

60.67 ± 3.06cd

48.67 ± 2.31g

NaCl

100 mM

44.00 ± 4.00cdefg

55.33 ± 5.03de

53.33 ± 10.07defg

300 mM

40.00 ± 4.00fg

50.00 ± 6.00e

48.67 ± 7.02g

500 mM

34.00 ± 3.46g

50.00 ± 2.00e

33.33 ± 6.10h

K3PO4

100 mM

ND

ND

ND

300 mM

ND

ND

ND

500 mM

ND

ND

ND

PEG

-0.6 Mpa

48.67 ± 16.65bcdef

62.00 ± 10.39cd

55.33 ± 3.06cdefg

-0.9 Mpa

58.00 ± 5.29ab

64.00 ± 5.29bcd

51.33 ± 4.16efg

GA3

0.05 mM

62.00 ± 2.00a

74.67 ± 2.31a

59.33 ± 9.02cdef

0.1 mM

62.67 ± 2.31a

78.67 ± 4.16a

70.67 ± 5.03ab

0.3 mM

54.00 ± 7.21abce

74.00 ± 2.00ab

63.33 ± 5.03bcd

0.5 mM

56.66 ± 5.03abc

75.33 ± 1.15a

64.66 ± 4.16bc

 

 

Fig. 1: Expression patterns of genes related to germination from EST analysis data of Korean perilla after seed priming with water and GA3

 

priming methods (Balestrazzi et al. 2015). Therefore, the induced genes according to the establishment of priming optimization during seed germination of Korean perilla were identified. It is expected that these genes can be used as biomarkers to create a cultivation environment that increase the germination rate of Korean perilla by investigating genes induced during seed germination using GA3.

In peas, protochlorophyllide reductase has been shown to play a post-transcriptional regulatory role in protein elongation and conversion. Protein expression patterns differ between monocots and dicots, but protochlorophyllide reductase is present in higher plants (Cahoon and Timko 2000). Magnesium-chelatase subunit ChII is known to be active in plant-cell interactions, chelating magnesium on protoporphyrin IX and mediating plastid-to nucleus retrograde signaling (Papenbrock et al. 2000; Nott et al. 2006). HBP is induced by oxidative stress and is involved in various functions of the protein (Lee et al. 2012). GAPDH catalyzes the conversion of glyceraldehyde-3-phosphate to 1,3-bisphosphoglycerate and has two isoforms, GAPCp1 and GAPCp2, both of which are important for the plastidial glycolytic pathway in plant primary metabolism (Munoz-Bertomeu et al. 2009). The LHCP gene shows an expression pattern specific to chloroplast-containing tissue, and mRNA expression can be determined by its associated factors (Wang and Grimm 2021). The 2-Cys peroxiredoxin BAS1 gene has antioxidant properties that regulate cellular redox states and is associated with the soluble chloroplast fraction function of mesophyll protoplasts in higher plants (Cerveau et al. 2016).

Conclusion

 

In this study, genes from the Korean perilla selected from the EST database that were induced by GA3 treatment are related to oxidative stress, plastidial metabolism, tissue specificity, redox reactions, and chloroplast function in plant cells. It was found that the method to increase the germination rate of Korean perilla is the optimal concentration treatment of GA3. Under this optimal condition, these marker genes such as protochlorophyllide reductase-like, magnesium-chelatase subunit ChlI, heme-binding protein 2-like, glyceraldehyde 3-phosphate dehydrogenase A, and Chlorophyll Since ab binding protein 6, B2 protein, 2-Cys peroxiredoxin BAS1, and 21 kDa protein genes are induced and this pattern is thought to be involved in GA3 priming. We suggest that these genes induce substances related to the initial stages of germination metabolism of Korean perilla seeds under GA3 priming, thus improving the germination rate. In the future, we propose studying the functional relationship between these genes and the germination of Korean perilla seeds.

 

Acknowledgements

 

This study was supported by the Bioherb Research Institute, Kangwon National University, Republic of Korea.

 

Author Contributions

 

ES Seong and BJ Kang performed experiment design and writing of manuscript. CYY supervised the experi ment. JH Yoo, JG Lee and NY Kim performed editing of manuscript.

 

Conflicts of Interest

 

The authors declare that they have no confict of interest.

 

Data Availability

 

Data presented in this study are available with the authors.

 

Ethics Approval

 

There are no researches conducted on animals or human.

 

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