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Article

Transcriptome and Metabonomic Analysis of Tamarix ramosissima Potassium (K+) Channels and Transporters in Response to NaCl Stress

by
Yahui Chen
1,2,†,
Shiyang Zhang
2,†,
Shanfeng Du
1,
Jiang Jiang
1,* and
Guangyu Wang
2,*
1
Collaborative Innovation Center of Sustainable Forestry in Southern China of Jiangsu Province, Nanjing Forestry University, Nanjing 210037, China
2
Faculty of Science and Department of Forest Resources Management, University of British Columbia, Vancouver, BC V6T 1Z4, Canada
*
Authors to whom correspondence should be addressed.
†
These authors contributed equally to this work.
Genes 2022, 13(8), 1313; https://doi.org/10.3390/genes13081313
Submission received: 2 July 2022 / Revised: 14 July 2022 / Accepted: 20 July 2022 / Published: 23 July 2022
(This article belongs to the Section Plant Genetics and Genomics)
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Abstract

:
Potassium ion (K+) channels and transporters are key components of plant K+ absorption and transportation and play an important role in plant growth and development. This study revealed that K+ channels and transporters are involved in the salt tolerance molecular mechanism and metabolites of the halophyte representative plant Tamarix ramosissima (T. ramosissima) in response to NaCl stress, providing a theoretical basis for the mitigation of salt stress using halophytes. Through transcriptome sequencing and metabolite detection analysis of 0 h, 48 h and 168 h by applying exogenous K+ to the roots of T. ramosissima under NaCl stress, 15 high-quality Clean Data bases were obtained, Q20 reached more than 97%, Q30 reached more than 92%, and GC content reached 44.5%, which is in line with further bioinformatics analysis. Based on the Liquid chromatography–mass spectrometry (LC-MS) analysis, the roots of T. ramosissima were exposed to exogenous potassium for 48 h and 168 h under NaCl stress, and 1510 and 1124 metabolites were identified in positive and negative ion mode, respectively. Through orthogonal projections to latent structures discriminant analysis (OPLS-DA) model analysis, its metabolomic data have excellent predictability and stability. The results of this study showed that there were 37 differentially expressed genes (DEGs) annotated as Class 2 K+ channels (Shaker-like K+ channel and TPK channel) and Class 3 K+ transporters (HAK/KUP/KT, HKT and CPAs transporter families). Among them, 29 DEGs were annotated to the gene ontology (GO) database, and the most genes were involved in the GO Biological Process. In addition, the expression levels of Unigene0014342 in the HAK/KUP/KT transporter and Unigene0088276 and Unigene0103067 in the CPAs transporter both first decreased and then increased when treated with 200 mM NaCl for 48 h and 168 h. However, when treated with 200 mM NaCl + 10 mM KCl for 48 h and 168 h, a continuous upward trend was shown. Notably, the expression level of Unigene0016813 in CPAS transporter continued to increase when treated with 200 mM NaCl and 200 mM NaCl + 10 mM KCl for 48 h and 168 h. 3 DEGs, Unigene0088276, Unigene0016813 and Unigene0103067, were dominated by the positive regulation of their related metabolites, and this correlation was significant. The results showed that these DEGs increased the absorption of K+ and the ratio of K+/Na+ under NaCl stress at 48 h and 168 h after adding exogenous potassium and enhanced the salt tolerance of T. ramosissima. Notably, the expression level of Unigene0103067 in the CPAs transporter was consistently upregulated when 200 mM NaCl + 10 mM KCl was treated for 48 h and 168 h. The positive regulatory metabolites were always dominant, which better helped T. ramosissima resist salt stress. Unigene0103067 plays an important role in enhancing the salt tolerance of T. ramosissima and reducing the toxicity of NaCl in roots. Additionally, phylogenetic tree analysis showed that Unigene0103067 and Reaumuria trigyna had the closest genetic distance in the evolutionary relationship. Finally, 9 DEGs were randomly selected for quantitative real-time PCR (qRT-PCR) verification. Their expression trends were completely consistent with the transcriptome sequencing analysis results, proving that this study’s data are accurate and reliable. This study provides resources for revealing the molecular mechanism of NaCl stress tolerance in T. ramosissima and lays a theoretical foundation for cultivating new salt-tolerant varieties.

1. Introduction

K+, the most abundant cation in plant cells, is also one of the three essential mineral nutrients for plant growth and development [1]. It is involved in many important physiological and biochemical pathways in plants, such as promoting plant fat metabolism and water metabolism, promoting assimilation transformation and nutrient transport in phloem, controlling cell membrane polarization, regulating stomatal movement and promoting photosynthesis, functioning as an activator of enzymes, maintaining anion and cation balance, adjusting osmotic pressure, etc. [2,3,4]. Simultaneously, K+ can improve plants’ tolerance to abiotic stresses such as drought, salt and heavy metals. Furthermore, it can also resist biotic stresses such as fungi [5]. Potassium deficiencies in the soil will directly affect the growth and development of plants, such as by accelerating the yellowing of old leaves, short roots and easy lodging, etc. [2]. About one-third of the world’s irrigated land is affected by soil salinization. In saline soil, a high concentration of Na+ competes with plants to absorb K+, K+ leakage through outwardly rectifying K+ channels, decreases the K+/Na+ ratio, and causes Na+ poisoning and biochemical metabolic disorders in plants, resulting in inhibitions in plant growth or even death [6,7]. Therefore, increasing K+ uptake and reducing Na+ accumulation in plants is one of the main strategies for resisting salt stress [6,8].
Plants take up K+ in the root epidermis through K+ transporters and K+ channels [9,10]. In the early 1960s, Epstein et al. [11] proposed 2 K+ transmembrane absorption mechanisms, a high-affinity transport system (HATS) and a low-affinity transport system (LATS). HATS is in the range of external K+ concentration < 0.2 mM, completed by H+/K+ co-transport, and can start quickly when the outside world is low in potassium [11,12]. LATS occurs when the external K+ concentration is ≥0.3 mM, acts through ion channels and is insensitive to external K+ concentration [13,14,15]. The concentration of K+ in the soil solution is variable (0.01–1 mM) to maintain a relatively high and stable K+ content (100–150 mM) in the plant cytoplasm [16]. The acquisition of K+ from the soil by plant roots depends on the transport of K+ in plant cells, which is a combination of HATS and LATS [17]. To date, in the model plant Arabidopsis thaliana, more than 70 K+ transporters and K+ channels have been involved in the plant potassium nutrition’s uptake and transport mechanism. According to the structure and function of K+ transporters and K+ channel proteins, these can mainly be divided into three types of K+ channels and three types of K+ transporters, namely, Shaker-like K+ Channel (Shaker channel), Tandem-Pore K+ (TPK Channel) channel, K+ Inward Rectifier-Like Channel (Kir-like Channel), high-affinity K+ transporter/K+ uptake permease/K+ transporter (HAK/KUP/KT), high-affinity K+ transporter (HKT) and cation–protein antiporters (CPAs) transporters [4,18,19]. Generally, plants adapt to saline environments by maintaining the K+/Na+ ratio in the cytoplasm. Ma et al. [20] found that the Shaker channel AKT1 can respond to salt stress in plants, and the AKT1 protein just maintains this ratio, thereby enhancing the salt tolerance of plants. In the HAK/KUP/KT transporter, both Cluster III and Cluster IV family proteins are expressed in the roots of plants. This helps high-affinity K+ absorption and transportation, and it can also participate in Na+ transport. Chen et al. [21] reported that AtHAK11 is a member of Cluster III of HAK/KUP/KT. Under salt stress, its expression in Arabidopsis roots is significantly upregulated, and it may be involved in the regulation mechanism of plant salt tolerance. HKT1 is one of the most important Na+ transporters, which is usually expressed in xylem parenchyma cells, and HKT1 plays an integral role in the salt tolerance mechanism of both monocotyledonous and dicotyledonous plants [22,23,24]. Chen [25] and Li [26] et al. found that, under saline–alkali stress, soybean GmHKT1 and GmHKT4 can mediate K+ uptake in plant roots. While the overexpression of GmHKT1 and GmHKT4 can make transgenic soybeans accumulate more K+ and exclude excess Na+, which significantly improved the salinity tolerance of transgenic soybean, it plays an extremely important role in maintaining the dynamic balance between K+/Na+ ratio and osmotic potential in soybean plants. The CPAs transporter forms a large family including cation/proton reverse transport in plants. For example, antiporters such as Na+/H+ and K+/H+ are essential to maintaining Na+/H+ homeostasis in plants and improving plant salt tolerance [27]. According to differences in K+ transporter protein structure and transport function, the CPAs transporter can be divided into three subfamilies: Na+/H+ exchanger (NHX), Cation/H+ exchanger (CHX), K+ exchanger antiporter (KEA) [28]. In Arabidopsis, 8 NHX family genes have successfully been cloned. Among them, AtNHX1 is located in the plant tonoplast. It has Na+/H+ reverse transport functions, and the overexpression of AtNHX1 can improve the salt tolerance of transgenic plants. AtNHX1 also plays an important role in regulating pH and osmotic potential in plant cells [29]. The research results of Zhizhong Song et al. [30,31] found that the addition of exogenous 10 mM KCl could effectively alleviate the toxic effect of drought stress on the growth of Alternanthera philoxeroides and enhanced K+ enrichment level in plants. They also found that the overexpression of ApKUP4 in Arabidopsis significantly enhanced the K+ enrichment level and ROS scavenging ability of transgenic plants under NaCl stress conditions, thereby improving the tolerance of transgenic plants to NaCl stress.
Tamarix ramosissima (T. ramosissima) is a halophyte that secretes halophytes and has developed an efficient abiotic stress tolerance system to adapt to unfavorable environments for its long-term survival and evolution [32]. It has been reported that halophytes have the ability to retain more K+ under salt stress conditions, and their absorption and transportation of K+ depend on a variety of K+ transporters that can adapt to different saline-alkali conditions [33]. Simultaneously, the K+ requirements of halophytes can efficiently be taken up from soil solutions by the roots and further transferred to the aerial parts, before being intracellularly distributed to different compartments and satisfied by various K+ (Na+) transport systems. In addition, Lu Yan et al. [34] found that low concentration (≤100 mM) NaCl stress can promote the growth of T. ramosissima, while high concentration (≥200 mM) NaCl inhibits its growth. In this study, T. ramosissima was used as the research object, and 200-mM NaCl and 200-mM NaCl + 10 mM KCl treatments were set. Samples were taken at 0h, 48 h and 168 h, respectively, and transcriptomic and metabolomic analysis methods were used to mine of K+ channel and transporter genes in response to NaCl stress in T. ramosissima. The application of exogenous K+ alleviated the change patterns of response genes and their metabolites under NaCl stress and was combined with quantitative real-time PCR (qRT-PCR) to verify the expression levels of differentially expressed genes (DEGs). This study provides a foundation for revealing the molecular mechanisms of applying exogenous K+ to alleviate NaCl toxicity in Tamarix plants and lays a theoretical foundation for cultivating new salt-tolerant varieties.

2. Materials and Methods

2.1. Plant Material

Plant T. ramosissima seedlings were supplied by the Dongying Experimental Base of the Shandong Academy of Forestry Sciences. From October 2019 to May 2021, the experiment was conducted and completed at the Key Laboratory of the Ministry of Education, School of Forestry, Nanjing Forestry University. Five-month-old T. ramosissima seedlings with similar growth were selected and transferred to a 24-hole hydroponic box (40 cm × 30 cm × 16 cm) filled with 1/2 Hoagland nutrient solution. Then, they were placed in a greenhouse with a temperature of 26 ± 2 °C and relative humidity of 40% to 55%, and cultivated for 2 months. The culture solution was replaced every 3 days.

2.2. Plant Material Treatment

Control and treatment groups were set in each experiment, with 8 plants in each group. The experiment was repeated 3 times in total and cultured with 1/2 Hoagland nutrient solution as the control group (CK), and 1/2 Hoagland nutrient solution supplemented with 200 mM NaCl and 1/2 Hoagland nutrient solution cultured with 200 mM NaCl + 10 mM KCl as treatment groups, changing the culture medium every 3 days T. ramosissima root samples were collected at 0h, 48 h, and 168 h of treatment, respectively, and immediately placed in liquid nitrogen for processing and then transferred to a −80 °C refrigerator for storage.

2.3. Transcriptome Sequencing and Differentially Expressed Genes (DEGs) Screening

After treatment with liquid nitrogen, the T. ramosissima root samples were sent to Guangzhou GENE Denovo Company for 3-generation high-throughput transcriptome sequencing. Referring to the transcriptome sequencing method of Chen et al. [35], Illumina raw sequencing data were submitted to the National Center for Biotechnology Information (NCBI) Short Reads Archive (SRA) database; the SRP number is SRP356215. The reads count data obtained by sequencing were analyzed according to DESeq2 software [36] to obtain the final correct FDR value (FDR value is the p-value value after BH correction), and a corrected p < 0.05 was considered significantly enriched. We screened genes with FDR < 0.05 and |log2FC| > 1 as significant DEGs based on the differential analysis results. Finally, the DEGs for gene ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis were obtained using the GO database [37] and Release 93.0 [38], respectively.

2.4. Metabolic Extraction, Detection and Differential Metabolite Screening

After treatment with liquid nitrogen, T. ramosissima root samples were sent to Guangzhou GENE Denovo Company for metabolite extraction and detection. A total of 0.1 g of T. ramosissima root samples ground in liquid nitrogen were selected as experimental samples. These were put in an EP tube and 500 μL of 80% methanol in water was added and oscillated with a vortex. After standing in an ice bath for 5 min, this was centrifuged at 15,000× g for 20 min at 4 °C. Then, a certain amount of supernatant was taken and mass spectrometer-grade water was added to dilute the solution to a methanol content of 53%. Finally, this was centrifuged at 15,000× g for 20 min at 4 °C; then, the supernatant was collected and injected into Liquid chromatography–mass spectrometry (LC-MS) for analysis. An equal volume of sample was taken from each experimental sample and mixed as QC samples; 53% methanol aqueous solution was used instead of an experimental sample as a blank sample. Baseline filtering, peak identification, integration, retention time correction, peak alignment and normalization were obtained using Progenesis QI (http://www.nonlinear.com/progenesis/qi/, accessed on 7 January 2021) software from raw data after mass spectrometry, the final result is a data matrix containing retention times, mass-to-charge ratios and peak intensities. The obtained peaks were analyzed with progenesis QI software and database; all normalized data were log-transformed into the centralized format, and orthogonal projections to latent structures discriminant analysis (OPLS-DA) was analyzed using Simca software. Differential metabolites were screened according to the VIP value of the first principal component of the OPLS-DA model > 1.0 and p < 0.05 of the t-test [39].

2.5. Quantitative Real-Time PCR (qRT-PCR) Validation

9 DEGs were randomly selected to verify the accuracy of RNA-Seq results. Omega kit (Beinuo Bio, Shanghai, China) was used to extract the total RNA from root samples of control and treatment groups. RNA was reverse-transcribed into cDNA using the PrimerScriptTM RT Master Mix (Perfect Real Time) kit (Bao Bio, Dalian, China). Primers were designed for key DEGs and detected by qRT-PCR (Table 1). The cDNA of root tissue samples obtained by reverse transcription was used as a template, and PowerUpTM SYBR Green Master mix reagent (Thermo Fisher, Shanghai, China) was used as a template. The target gene qRT-PCR detection was carried out on using platform of the ABI ViiA™ 7 Real-time PCR system (ABI, Carlsbad, CA, USA). Each gene was biologically replicated 3 times, with Tubulin as the internal reference gene, and the relative expression was calculated by the 2−ΔΔCt method [35].

3. Results

3.1. Transcriptional Sequencing Quality Analysis of T. ramosissima Roots under NaCl Stress with Exogenous Potassium

15 high-quality Clean Data bases were obtained by IlluminaHiSeqTM4000 (Illumina, Inc., San Diego, CA, USA) transcriptome sequencing (5524761130—6617359533bp). Moreover, the Q20 reached more than 97%, the Q30 reached more than 92%, and the GC content reached more than 44.5%, indicating that the quality of transcriptome sequencing is reliable and in line with further bioinformatics analyses (Supplementary Table S1).

3.2. Mining and Expression Level Analysis of K+ Channel and Transporter-Related Genes

According to the transcriptional data of T. ramosissima roots treated with exogenous potassium for 0 h, 48 h and 168 h under NaCl stress, 37 related genes were found in Class 2 K+ channels and Class 3 K+ transporters (Table 2). The results showed (Figure 1) that the expression levels of 5 genes, including Unigene0029015, Unigene0029016, Unigene0090597, Unigene0073015 and Unigene0048967, showed a decreasing trend at 48 h and 168 h when treated with 200 mM NaCl. The expression levels of 17 genes, including Unigene0041061, Unigene0081104, Unigene0066388, Unigene0098818, Unigene0014282, Unigene0032884, Unigene0028875, Unigene0052021, Unigene0077507, Unigene0088276, Unigene0091435, Unigene0034942, Unigene0035730, Unigene0003428, Unigene0003429, Unigene0060774 and Unigene0104936, first increased and then decreased at 48 h and 168 h when treated with 200 mM NaCl. The expression levels of Unigene0076704 and Unigene0016813 showed a rising trend at 48 h and 168 h when treated with 200 mM NaCl. The expression levels of 13 genes, including Unigene0033066, Unigene0079952, Unigene0080475, Unigene0083511, Unigene0050867, Unigene0014342, Unigene0090596, Unigene0016812, Unigene0069097, Unigene0103067, Unigene0017440, Unigene0077742 and Unigene0086768 first decreased and then increased at 48 h and 168 h when treated with 200 mM NaCl. The expression levels of 7 genes, including Unigene0029015, Unigene0029016, Unigene0079952, Unigene0014282, Unigene0032884, Unigene0028875 and Unigene0086768 showed a decreasing trend at 48 h and 168 h when treated with 200 mM NaCl + 10 mM KCl. The expression levels of 16 genes, including Unigene0041061, Unigene0081104, Unigene0066388, Unigene0076704, Unigene0080475, Unigene0098818, Unigene0090597, Unigene0052021, Unigene0069097, Unigene0077507, Unigene0091435, Unigene0017440, Unigene0077742, Unigene0003428, Unigene0003429 and Unigene0048967 first increased and then decreased at 48 h and 168 h after 200 mM NaCl + 10 mM KCl treatment. The expression levels of 4 genes including, Unigene0014342, Unigene0016813, Unigene0088276 and Unigene0103067, showed a rising trend at 48 h and 168 h when treated with 200 mM NaCl + 10 mM KCl. Ten expressed genes, including Unigene0033066, Unigene0083511, Unigene0050867, Unigene0090596, Unigene0016812, Unigene0034942, Unigene0035730, Unigene0073015, Unigene0060774 and Unigene0104936 first decreased and then increased at 48 h and 168 h when treated with 200 mM NaCl + 10 mM KCl. Notably, the expression levels of 3 genes, including Unigene0014342, Unigene0088276 and Unigene0103067, first decreased and then increased at 48 h and 168 h when treated with 200 mM NaCl, but 200 mM NaCl + 10 mM KCl treatment for 48 h and 168 h led to a rising trend. This showed that they had an improved K+ uptake and K+/Na+ ratio, and the salt tolerance of T. ramosissima was enhanced. The expression levels of 4 expressed genes, including Unigene0083511, Unigene0050867, Unigene0090596 and Unigene0016812, decreased with 200 mM NaCl and 200 mM NaCl + 10 mM KCl treatment for 48 h. However, the expression levels at 168 h showed an upward trend, indicating that they played a role at 168 h, and the addition of exogenous potassium could better help the roots of T. ramosissima to resist NaCl stress. The expression level of Unigene0016813 showed an increasing trend at 48 h and 168 h after 200 mM NaCl and 200 mM NaCl + 10 mM KCl treatment, which played a role in improving the salt tolerance of T. ramosissima.
Finally, the obtained 37 expressed genes in K+ channels and transporters were annotated into GO and KEGG databases. It was found that 29 expressed genes in K+ channels and transporters were annotated in the GO database but not in KEGG data.

3.3. GO Enrichment and Expression Changes of DEGs in K+ Channels and Transporters

Only 1 expressed gene (Unigene0081104) was enriched to GO in Shaker channel; 4 expressed genes (Unigene0033066, Unigene0066388, Unigene0080475 and Unigene0098818) were enriched to GO in TPK channel; 5 expressed genes (Unigene0014282, Unigene0032884, Unigene0028875, Unigene0050867 and Unigene0014342) were enriched to GO in HAK/KUP/KT transporter; no expressed gene was enriched to GO in HKT transporter. 19 genes (Unigene0016812, Unigene0016813, Unigene0052021, Unigene0069097, Unigene0077507, Unigene0088276, Unigene0091435, Unigene0103067, Unigene0017440, Unigene0034942, Unigene0035730, Unigene0073015, Unigene0077742, Unigene0003428, Unigene0003429, Unigene0048967, Unigene0060774, Unigene0086768 and Unigene0104936) were enriched to GO in CPAs transporters (Table 3). The results showed that the roots of T. ramosissima were treated with exogenous potassium for 48 h and 168 h under NaCl stress. A large number of genes in K+ channels and transporters are involved in the GO Biological Process, which can resist NaCl stress and Na+ poisoning by regulating the Biological Process.
According to the GO enrichment results (Figure 2), the top 20 GO enrichments in comparison groups 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h and 200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h all have expressed genes that are involved in GO0009719. According to the enrichment results for 37 K+ channel and transporter-related genes to GO, in the 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h comparison group, Unigene0081104 and Unigene0014342 participated in the GO Biological Process GO:0001101, Unigene0052021 participated in GO:0065007 in GO Biological Process, and Unigene0073015 participates in GO:0007275 in GO Molecular Function. Among them, the most expressed genes were involved in the GO Biological Process; however, no expressed genes were enriched to GO in the 200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h comparison group. Moreover, among the 37 K+ channel- and transporter-related genes that were screened, 8 DEGs, including Unigene0029016 and Unigene0081104 in the Shaker channel, Unigene0090597 in the HKT transporter, and Unigene0088276, Unigene0091435, Unigene0035730, Unigene0060774 and Unigene0104936 in the CPAs transporter, were downregulated in the 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h comparison group, but upregulated in the 200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h comparison group. 9 DEGs, including Unigene0083511 and Unigene0098818 in the TPK channel, Unigene0014342 in the HAK/KUP/KT transporter, Unigene0090596 in the HKT transporter, Unigene0069097, Unigene0077507, Unigene0103067, Unigene0034942 and Unigene0048967 in the CPAs transporter, were consistently upregulated in the 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h and 200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h comparison group (Table 4). This indicates that these 17 DEGs played an important role in the response of T. ramosissima roots to exogenous potassium for 48 h and 168 h in response to NaCl stress. They improve the salt tolerance of T. ramosissima to reduce the Na+ poisoning of T. ramosissima and maintain growth.

3.4. OPLS-DA Model Analysis

T. ramosissima roots were treated with 200 mM NaCl and 200 mM NaCl + 10 mM KCl for 48 h and 168 h. A total of 1510 metabolites were identified in positive-ion mode, and 1124 metabolites were identified in negative-ion mode. In an OPLS-DA analysis of metabolomic data using Simca software, the results showed that differential metabolites existed in 200 mM NaCl and 200 mM NaCl + 10 mM KCl treatment for 48 h and 168 h in T. ramosissima roots, and the OPLS-DA model has excellent predictability and stability (Supplementary Figure S1).

3.5. Correlation Analysis of DEGs and Metabolites in K+ Channels and Transporters

According to the requirements of the absolute value of Person correlation coefficient |Corr| > 0.8, 37 DEGs and the metabolomic data of K+ channels and transporters in transcriptome data were screened and correlated in this study.
Firstly, Person correlation analysis was performed on the DEGs and metabolome data related to 17 important K+ channels and transporters involved in the application of exogenous potassium for 48 h and 168 h (Section 3.2 above) under NaCl stress in T. ramosissima. The results showed (Supplementary Figure S2) that, in the Shaker channel, Unigene0029016 was correlated with 258 metabolites and Unigene0029016 was significantly positively correlated with 4 metabolites and significantly negatively correlated with 254 metabolites; a correlation analysis of Unigene0081104 and 52 metabolites found that Unigene0081104 was significantly positively correlated with 47 metabolites, and significantly negatively correlated with 5 metabolites. In the TPK channel, the correlation analysis of Unigene0083511 and 29 metabolites found that Unigene0083511 was significantly positively correlated with 13 metabolites, and significantly negatively correlated with 16 metabolites; the correlation analysis of Unigene0098818 and 78 metabolites found that Unigene0098818 was significantly positively correlated with 27 metabolites and significantly negatively correlated with 51 metabolites. For the HAK/KUP/KT transporters, the correlation analysis of Unigene0014342 and 32 metabolites found that Unigene0014342 was significantly positively correlated with 9 metabolites and significantly negatively correlated with 23 metabolites. Among HKT transporters, the correlation analysis of Unigene0090596 and 42 metabolites found that Unigene0090596 was significantly positively correlated with 30 metabolites and significantly negatively correlated with 12 metabolites; correlation analysis of Unigene0090597 and 155 metabolites found that Unigene0090597 was significantly positively correlated with 147 metabolites, and significantly negatively correlated with 8 metabolites. Among CPA transporters, the correlation analysis of Unigene0069097 and 109 metabolites found that Unigene0069097 was significantly positively correlated with 61 metabolites, and significantly negatively correlated with 48 metabolites; correlation analysis of Unigene0077507 and 12 metabolites found that Unigene0077507 was significantly positively correlated with 12 metabolites; correlation analysis of Unigene0088276 and 59 metabolites found that Unigene0088276 was significantly positively correlated with 46 metabolites, and significantly correlated with 13 metabolites Negative correlation; correlation analysis of Unigene0091435 and 37 metabolites found that Unigene0091435 was significantly positively correlated with 28 metabolites, and significantly negatively correlated with 9 metabolites; correlation analysis of Unigene0103067 and 29 metabolites found that Unigene0103067 was significantly positively correlated with 17 metabolites, and significantly negatively correlated with 12 metabolites; correlation analysis of Unigene0048967 and 206 metabolites found that Unigene0048967 was significantly positively correlated with 8 metabolites, and significantly negatively correlated with 198 metabolites; correlation analysis of Unigene0060774 and 68 metabolites found that Unigene0060774 was significantly positively correlated with 41 metabolites, and significantly negatively correlated with 27 metabolites; correlation analysis of Unigene0104936 and 80 metabolites found that Unigene0104936 was significantly positively correlated with 71 metabolites, and significantly negatively correlated with 9 metabolites. Furthermore, Unigene0034942 and Unigene0035730 had no metabolites with their Person correlation coefficient absolute values |Corr| > 0.8.
Secondly, according to the requirement of the absolute value of Person correlation coefficient |Corr| > 0.8, the remaining 20 DEGs and metabolome data related to K+ channels and transporters were screened and correlated. The results showed that in the Shaker channel, Unigene0029015 was correlated with 46 metabolites and correlation analysis found that Unigene0029015 was significantly positively correlated with 24 metabolites and significantly negatively correlated with 22 metabolites; correlation analysis of Unigene0041061 and 71 metabolites found that Unigene0041061 was significantly positively correlated with 62 metabolites, and significantly negatively correlated with 9 metabolites (Supplementary Figure S3). In the TPK channel, the correlation analysis of Unigene0033066 and 3 metabolites found that Unigene0033066 was significantly positively correlated with 2 metabolites and significantly negatively correlated with 1 metabolite; correlation analysis of Unigene0076704 and 27 metabolites found that Unigene0076704 was significantly positively correlated with 7 metabolites, and significantly negatively correlated with 20 metabolites; correlation analysis of Unigene0079952 and 85 metabolites found that Unigene0079952 was significantly positively correlated with 77 metabolites, and significantly negatively correlated with 8 metabolites; correlation analysis of Unigene0080475 and 108 metabolites found that Unigene0080475 was significantly positively correlated with 85 metabolites, and significantly negatively correlated with 23 metabolites. Additionally, Unigene0066388 has no metabolite and its Person correlation coefficient absolute value |Corr| > 0.8 (Supplementary Figure S4). Among the HAK/KUP/KT transporters, the correlation analysis of Unigene0014282 and 34 metabolites found that Unigene0014282 was significantly positively correlated with 33 metabolites and significantly negatively correlated with 1 metabolite; correlation analysis of Unigene0032884 and 28 metabolites found that Unigene0032884 was significantly positively correlated with 27 metabolites, and significantly negatively correlated with 1 metabolite; correlation analysis of Unigene0028875 and 73 metabolites found that Unigene0028875 was significantly positively correlated with 66 metabolites, and significantly negatively correlated with 7 metabolites; correlation analysis of Unigene0050867 and 78 metabolites found that Unigene0050867 was significantly positively correlated with 68 metabolites, and significantly negatively correlated with 10 metabolites (Supplementary Figure S5). Among CPAs transporters, the correlation analysis of Unigene0016812 and 65 metabolites found that Unigene0016812 was significantly positively correlated with 34 metabolites, and significantly negatively correlated with 31 metabolites; correlation analysis of Unigene0016813 and 180 metabolites found that Unigene0016813 was significantly positively correlated with 159 metabolites, and significantly negatively correlated with 21 metabolites; correlation analysis of Unigene0052021 and 32 metabolites found that Unigene0052021 was significantly positively correlated with 22 metabolites, and significantly negatively correlated with 11 metabolites; correlation analysis of Unigene0017440 and 538 metabolites found that Unigene0017440 was significantly positively correlated with 387 metabolites, and significantly negatively correlated with 151 metabolites; correlation analysis of Unigene0073015 and 97 metabolites found that Unigene0073015 was significantly positively correlated with 76 metabolites, and significantly negatively correlated with 21 metabolites; correlation analysis of Unigene0077742 and 31 metabolites found that Unigene0077742 was significantly positively correlated with 10 metabolites, and significantly negatively correlated with 21 metabolites; correlation analysis of Unigene0003428 and 19 metabolites found that Unigene0003428 was significantly positively correlated with 15 metabolites, and significantly negatively correlated with 4 metabolites; correlation analysis of Unigene0003429 and 49 metabolites found that Unigene0003429 was significantly positively correlated with 45 metabolites, and significantly negatively correlated with 4 metabolites; correlation analysis of Unigene0086768 and 59 metabolites found that Unigene0086768 was significantly positively correlated with 46 metabolites, and significantly negatively correlated with 13 metabolites (Supplementary Figure S6).
To summarize, except Unigene0029016, Unigene0083511, Unigene0098818, Unigene0014342, Unigene0048967, Unigene0076704 and Unigene0077742, 7 DEGs in K+ channels and transporters negatively regulate their related metabolites. The remaining 30 DEGs and their metabolites were all positively correlated. The results showed that a high number of DEGs of K+ channels and transporters were found to positively regulated their related metabolites to resist salt stress in the roots of T. ramosissima with exogenous potassium application under NaCl stress for 48 h and 168 h, mitigating NaCl poisoning. However, the regulatory mechanism between these DEGs and metabolites needs further study.

3.6. Phylogenetic Tree Analysis of Key DEGs

The expression levels of key genes in K+ channels and transporters in response to exogenous potassium in T. ramosissima roots, and the correlation between DEGs and metabolites, were analyzed under NaCl stress. Unigene0103067 was sensitive to the addition of exogenous potassium under NaCl stress in the CPAs transporter of T. ramosissima. Its expression level first decreased and then increased in 200 mM NaCl treatment for 48 h and 168 h, while its expression level showed an upward trend in 200 mM NaCl + 10 mM KCl treatment for 48 h and 168 h. The correlation analysis between Unigene0103067 and its 29 related metabolites found that it was significantly positively correlated with 17 metabolites and negatively correlated with 12 metabolites. The results showed that Unigene0103067 played an important role in T. ramosissima under NaCl stress by applying exogenous potassium for 48 h, which lasted until 168 h, and was dominated by positive regulation metabolites, thus enhancing the salt tolerance of T. ramosissima and playing an important role in reducing NaCl toxicity. Therefore, the protein amino acid sequence of Unigene0103067 was selected for alignment on NCBI using BLAST. A total of 15 homologous gene species were selected (Table 5). Then, MEGA software was used to construct a phylogenetic tree by combining the amino acid sequence of Unigene0103067 protein of T. ramosissima and the protein amino acid sequence of these 15 homologous gene species. The results showed that Unigene0103067 was closely related to Reaumuria trigyna (Figure 3).

3.7. Quantitative Real-Time PCR (qRT-PCR) Validation of DEGs

Referring to the method of Chen et al. [35] 9 DEGs (Unigene0029016, Unigene083511, Unigene0090596, Unigene0048967, Unigene0103067, Unigene0014843, Unigene0057090, Unigene0050867 and Unigene0051554) were randomly selected for qRT-PCR verification. The results showed that the qRT-PCR verification results were entirely consistent with the expression trends of the transcriptome sequencing analysis results (Figure 4). This demonstrates that the transcriptome data obtained in this study are accurate and reliable. It can provide a theoretical basis for excavating the roots of T. ramosissima to promote K+ absorption, alleviate NaCl stress damage, and improve key salt tolerance genes.

4. Discussion

Under salt stress, a high amount of Na+ accumulates in plants; on the one hand, this inhibits the absorption of K+, and on the other hand, it competes with K+ for some enzymatic binding sites, affecting protein synthesis and ribosome function and resulting in Na+ toxicity [24,40,41,42]. It is generally believed that maintaining a high K+/Na+ ratio in the cytoplasm is one of the important measures by which plants adapt to salt stress [15,24,41].
K+ is a regular nutrient, and is involved in photosynthesis, the regulation of photosynthetic product transport, enzyme activation and Na+ uptake under salinity conditions. It can also enable plants to survive under stress conditions by regulating plant physiological processes, and plays an especially important role in improving tolerance to salt stress [42]. Halophytes have a strong competitive advantage in maintaining K+ stability under high Na+ stress [43]. The high absorption of K+ by the salt-tolerant genotype may be related to its selectivity for Na+. Salt-tolerant plants selectively absorb K+ and preferentially deliver K+ to the xylem over Na+, thereby accumulating more K+. Numerous studies have shown that adding potassium alleviates the adverse effects of Na+, improves the absorption of K+, and increases the K+/Na+ ratio under NaCl stress [44]. In this study, the expression levels of Unigene0014342, Unigene0088276, and Unigene0103067 first decreased and then increased at 48 h and 168 h with 200 mM NaCl treatment. However, 200 mM NaCl + 10 mM KCl treatment for 48 h and 168 h showed a rising trend, and they all positively regulated their respective metabolites. This shows that they play an important role when adding exogenous potassium for 48 h, improving the salt tolerance of T. ramosissima and maintaining its growth, which is consistent with the previous research results [45,46]. In addition, the HKT transporter is activated in the plasma membrane [24], which plays an important role in K+ and Na+ transportation in higher plants. This can alleviate plant salt stress [47,48,49]. HKT transporters can take up K+ in culture environments with high NaCl or low K+ concentrations [43], have the ability to transport K+ through Na+ [50], and are involved in the recovery of sodium ions from the transpiration stream, preventing the further transportation of sodium ions to the leaves [51]. It can also increase root length and fresh weight and enhance salt tolerance [52]. In this study, Unigene0090596 of the HKT transporter showed an upregulation trend in 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h and 200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h expression levels at 48 h and 168 h after exogenous potassium was added. Unigene0090597 was first downregulated at 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h, but upregulated at 200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h expression levels. From the above, it can be seen that Unigene0090596 and Unigene0090597 in the HKT transporter are involved in NaCl stress and resist salt stress by positively regulating autocorrelated metabolites, especially 48 h and 168 h after the addition of exogenous potassium. Unigene0090596 plays a role by resisting NaCl stress, similar to the results of previous studies [53]. Simultaneously, the root uptake of K+ in plants is partially dependent on the contribution of the HAK/KUP/KT transporter Cluster I [54], and Na+ has a weak competitive effect on the transport of K+, which is mediated by these transporters [55]. It has been reported that the overexpression of OsHAK16 in rice increases the K+/Na+ ratio in the roots and shoots of transgenic rice, mainly due to the increased K+ concentration in the roots, but Na+ remained unchanged, which improved the salt tolerance of rice [56]. In this study, the expression of Unigene0050867 in the HAK/KUP/KT transporter initially decreased and then increased in 200 mM NaCl and 200 mM NaCl + 10 mM KCl treatment for 48 h and 168 h. The results showed that Unigene0050867 was activated within 48 h of treatment. The expression level of Unigene0050867 was upregulated in the 200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h comparison group. Its related metabolites were positively regulated to rapidly respond to NaCl. Na+, K+/H+ antiporters (NHX) belong to the CPAs I subfamily of the monovalent cation/H+ antiporter CPAs gene family, which are widely present in plants. According to subcellular distribution, plant NHX gene family members can be divided into three types: plasma membrane NHX, vacuolar NHX and endosomal NHX. In this study, the related genes of vacuolar NHX that existed in the roots of T. ramosissima with the application of exogenous potassium under NaCl stress were Unigene0069097 and Unigene0103067, respectively. The expression level of Unigene0103067 first decreased and then increased under 200 mM NaCl stress at 48 h and 168 h, while the expression level of Unigene0103067 showed a continuously increasing trend at 48 h and 168 h under 200 mM NaCl + 10 mM KCl treatment. At the same time, Unigene0103067 was upregulated in 200 mM NaCl-48 h vs. 200 mM NaCl 10 mM KCl-48 h and 200 mM NaCl-168 h vs. 200 mM NaCl 10 mM KCl-168 h comparison groups, indicating that the addition of K+ increases Unigene0103067 expression levels under NaCl stress. The results indicate that NHX in the roots of T. ramosissima is involved in cell expansion, pH adjustment, the protection of K+ homeostasis and resistance to salt stress. It can discharge the excess absorbed Na+ in the cell to the outside or regionalize Na+ in the vacuole to control the damage in Na+ accumulation to the membrane system, thus reducing salt poisoning, which is similar to the results of previous studies [57,58,59,60]. Therefore, under NaCl stress, Unigene0103067 responded to the application of exogenous K+, increased the absorption of K+ by T. ramosissima, and alleviated the toxic effect of NaCl. The expression level of Unigene0016813 shows a continuously increasing trend under the treatment of 200 mM NaCl and 200 mM NaCl + 10 mM KCl at 48 h and 168 h. Related metabolites were positively regulated; however, the mechanism of action needs to be further studied or justified.

5. Conclusions

This study utilizes metabolomic and transcriptomic analyses of 37 DEGs of K+ channel and transporter genes and their metabolites in response to NaCl stress and 30 DEGs to positively regulate their related metabolites, which were excavated in T. ramosissima. Under NaCl stress, 17 DEGs persisted in response to exogenous K+ application. Unigene0103067 belongs to Vacuolar NHX, and its metabolites are predominant in positive regulation and play an important role in responding to exogenous K+, promoting K+ absorption and alleviating the toxic effect of NaCl. The application of exogenous potassium under NaCl stress helps T. ramosissima overcome oxidative damage to cells, improves the absorption of K+ by the roots, and relieves the toxicity of NaCl. Still, it cannot completely eliminate Na+ toxicity.

Supplementary Materials

The following supporting information can be downloaded at: https://www.mdpi.com/article/10.3390/genes13081313/s1, Supplementary Table S1: Filtered reads quality statistics. Supplementary Figure S1: OPLS-DA and model validation of the roots’ metabolites of T. ramosissima under 2 treatments. Supplementary Figure S2: Heatmap of correlations between major DEGs and metabolites in K+ channels and transporters. Supplementary Figure S3: Heatmap of correlations between major DGEs and metabolites in the Shaker channel. Supplementary Figure S4: Heatmap of correlations between major DGEs and metabolites in the TPK channel. Supplementary Figure S5: Heatmap of correlations between major DGEs and metabolites in the HAK/KUP/KT transporter family. Supplementary Figure S6: Heatmap of correlations between major DGEs and metabolites in the CPAs transporter family.

Author Contributions

Y.C. and S.Z. are co-first authors that contribute equally to this work. Conceptualization, J.J.; Data curation, Y.C. and S.Z.; Formal analysis, S.Z. and J.J.; Investigation, Y.C.; Methodology, Y.C. and S.D.; Project administration, J.J.; Writing—original draft, Y.C. and S.Z.; Writing—review and editing, J.J. and G.W. All authors have read and agreed to the published version of the manuscript.

Funding

This research was funded by the development and demonstration of key technologies for ecological restoration of rivers and lakes in the Yangtze River Delta Integration Demonstration Area (grant number 2021SY03) and China Scholarship Council (grant number 202108320311).

Institutional Review Board Statement

Not applicable.

Informed Consent Statement

Not applicable.

Data Availability Statement

Not applicable.

Acknowledgments

This work was jointly supported by grants from “Development and demonstration of key technologies for ecological restoration of rivers and lakes in the Yangtze River Delta Integration Demonstration Area” (2021SY03) and China Scholarship Council (202108320311).

Conflicts of Interest

The authors declare no conflict of interest.

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Genes 13 01313 g001a 550Genes 13 01313 g001b 550
Figure 1. Changes in the expression of K+ channel and transporter-related genes in the roots of T. ramosissima with exogenous potassium application under NaCl stress (changes in expression levels of 37 K+ channel and transporter-related genes. Note: (A) represents the changes in the expression levels of 37 expressed genes in T. ramosissima under NaCl stress for 48 h; (B) represents the changes in the expression levels of 37 expressed genes in T. ramosissima under NaCl stress for 168 h; 0.01 < p < 0.05 is marked as *; 0.001 < p < 0.01 is marked as **; p ≤ 0.001 is marked as ***).
Figure 1. Changes in the expression of K+ channel and transporter-related genes in the roots of T. ramosissima with exogenous potassium application under NaCl stress (changes in expression levels of 37 K+ channel and transporter-related genes. Note: (A) represents the changes in the expression levels of 37 expressed genes in T. ramosissima under NaCl stress for 48 h; (B) represents the changes in the expression levels of 37 expressed genes in T. ramosissima under NaCl stress for 168 h; 0.01 < p < 0.05 is marked as *; 0.001 < p < 0.01 is marked as **; p ≤ 0.001 is marked as ***).
Genes 13 01313 g001aGenes 13 01313 g001b
Genes 13 01313 g002a 550Genes 13 01313 g002b 550
Figure 2. Top 20 GO enrichment (The first and outer circle: the top 20 GO terms are enriched, outside the circle is the scale of the number of genes. Different colors represent different ontologies. The second circle: the number of the GO term in the background gene and the Q value. The darker the color, the smaller the Q value. The longer the bars, the more genes they contain. The dark color represents the proportion of upregulated genes, and the light color represents the proportion of downregulated genes. The specific value is displayed below. The fourth and inner circle: the ratio of each GO term Rich Factor value (the number of differential genes in this GO term divided by all numbers), background grid lines; each grid represents 0.1).
Figure 2. Top 20 GO enrichment (The first and outer circle: the top 20 GO terms are enriched, outside the circle is the scale of the number of genes. Different colors represent different ontologies. The second circle: the number of the GO term in the background gene and the Q value. The darker the color, the smaller the Q value. The longer the bars, the more genes they contain. The dark color represents the proportion of upregulated genes, and the light color represents the proportion of downregulated genes. The specific value is displayed below. The fourth and inner circle: the ratio of each GO term Rich Factor value (the number of differential genes in this GO term divided by all numbers), background grid lines; each grid represents 0.1).
Genes 13 01313 g002aGenes 13 01313 g002b
Genes 13 01313 g003 550
Figure 3. Phylogenetic tree analysis of T. ramosissima NHX and other species NHX. (Phylogenetic tree analysis of Unigene0103067 protein amino acid sequence and protein amino acid sequence of another 15 species of T. ramosissima).
Figure 3. Phylogenetic tree analysis of T. ramosissima NHX and other species NHX. (Phylogenetic tree analysis of Unigene0103067 protein amino acid sequence and protein amino acid sequence of another 15 species of T. ramosissima).
Genes 13 01313 g003
Genes 13 01313 g004 550
Figure 4. Validation of DEGs by qRT-PCR. (9 DEGs were randomly selected for qRT-PCR validation, and the error bars were obtained from multiple replicates of qRT-PCR. Note: NaCl means 200 mM NaCl treatment group, NaCl + KCl means 200 mM NaCl + 10 mM KCl treatment group). 0.01 < p < 0.05 is marked as *; 0.001 < p < 0.01 is marked as **; p ≤ 0.001 is marked as ***.
Figure 4. Validation of DEGs by qRT-PCR. (9 DEGs were randomly selected for qRT-PCR validation, and the error bars were obtained from multiple replicates of qRT-PCR. Note: NaCl means 200 mM NaCl treatment group, NaCl + KCl means 200 mM NaCl + 10 mM KCl treatment group). 0.01 < p < 0.05 is marked as *; 0.001 < p < 0.01 is marked as **; p ≤ 0.001 is marked as ***.
Genes 13 01313 g004
Table
Table 1. The sequences of specific primers.
Table 1. The sequences of specific primers.
IDPrimer NamePrimer Sequence (5′-3′)
1Unigene0029016F:CTCGCTGTTTGGTGTGATGT
R:CCGCCGTCTTCAACCACAAC
2Unigene0083511F:GGAATCTGGCAAAATGGGTG
R:GTCCTTCTCCGATACTTTCC
3Unigene0090596F:CTGCGAAAGAAGATTGAAAC
R:AGAGTTTCCACGCTTTTCCT
4Unigene0048967F:TAAGTCGTGCCTCCAATCTC
R:CTCAATCTGTGTGCCGCTTT
5Unigene0103067F:GTTACTTTCAGGCAGCAGAT
R:GTTATCATTATCGCATTCCC
6Unigene0014843F:GATGGGGATGTTCACTTCTG
R:CACCCTGATTCCCCGTCTTA
7Unigene0057090F:GGTAGATTCCCTCCTTGGTG
R:GTAACCGCCAAAGCCACTAT
8Unigene0050867F:TATTGAAGAGGTAGGCGGCG
R:CACTTCGCTTTCGCCCATTA
9Unigene0051554F:ATCATCGGGGCTGTTTCTGC
R:CTCAGCCACAGCACCCTCAA
10TubulinF:GCTGAGATTACAACCGCTG
R:CTGTTCGTTTGGTCTTGATT
Table
Table 2. K+ channel- and transporter-related genes.
Table 2. K+ channel- and transporter-related genes.
Gene IDDescription
Shaker
Unigene0029015Potassium channel AKT1-like
Unigene0029016Predicted: potassium channel AKT1
Unigene0041061Potassium channel AKT2/3 isoform X2
Unigene0081104Predicted: potassium channel AKT1
TPK
Unigene0033066Predicted: two-pore potassium channel 1-like
Unigene0066388Two pore potassium channel c
Unigene0076704Two-pore potassium channel 5-like isoform X2
Unigene0079952Two-pore potassium channel 3-like
Unigene0080475Predicted: two-pore potassium channel 1 isoform X2
Unigene0083511two-pore potassium channel 3
Unigene0098818Predicted: two-pore potassium channel 1 isoform X3
HAK/KUP/KT
Unigene0014282Low affinity potassium transport system protein kup isoform 1
Unigene0032884Potassium transport system protein kup
Unigene0028875Potassium transporter
Unigene0050867High affinity H+/K+ symporter
Unigene0014342Predicted: probable potassium transporter 13
HKT
Unigene0090596Sodium transporter HKT1
Unigene0090597Sodium transporter HKT1
CPAs
Unigene0016812Predicted: sodium/hydrogen exchanger 1
Unigene0016813Predicted: sodium/hydrogen exchanger 1-like
Unigene0052021Sodium/hydrogen exchanger 4
Unigene0069097Vacuolar membrane Na+/H+ antiporter
Unigene0077507Na+/H+ exchanger 3, partial
Unigene0088276Sodium/hydrogen exchanger 6 like, partial
Unigene0091435Sodium/hydrogen exchanger 2-like
Unigene0103067Vacuolar membrane Na+/H+ antiporter
Unigene0017440Predicted: cation/H+ antiporter 20
Unigene0034942Cation/H+ antiporter 15-like isoform X1
Unigene0035730Predicted: cation/H+ antiporter 2-like
Unigene0073015Cation/H+ antiporter 15-like
Unigene0077742Cation/H+ antiporter like
Unigene0003428K+ efflux antiporter 4-like isoform X1
Unigene0003429K+ efflux antiporter 4-like isoform X2
Unigene0048967Predicted: K+ efflux antiporter 5
Unigene0060774K+ efflux antiporter 3, chloroplastic isoform X3
Unigene0086768Predicted: K+ efflux antiporter 2, chloroplastic
Unigene0104936K+ efflux antiporter 5-like
Table
Table 3. GO enrichment of K+ channel- and transporter-related genes.
Table 3. GO enrichment of K+ channel- and transporter-related genes.
Gene IDGO Cellular ComponentGO Molecular FunctionGO Biological Process
Shaker
Unigene0029015---
Unigene0029016---
Unigene0041061---
Unigene0081104GO:0031224; GO:0043231GO:0000166; GO:0005249;
GO:0005515		GO:0000041; GO:0000904; GO:0001101; GO:0006970; GO:0007015; GO:0009267; GO:0009933; GO:0010053; GO:0010119; GO:0015698; GO:0022610; GO:0045229; GO:0048588; GO:0071805
TPK
Unigene0033066GO:0005774; GO:0031224GO:0005249; GO:0046872GO:0005976; GO:0006875; GO:0006970; GO:0006996; GO:0009845; GO:0034220; GO:0050794; GO:0051259; GO:0070838
Unigene0066388GO:0005774GO:0005249GO:0006811
Unigene0076704---
Unigene0079952---
Unigene0080475GO:0005774; GO:0031224GO:0005249; GO:0046872GO:0006875; GO:0016043; GO:0034220; GO:0050789; GO:0070838
Unigene0083511---
Unigene0098818GO:0005774; GO:0031224GO:0005249; GO:0046872GO:0005976; GO:0006875; GO:0006970; GO:0006996; GO:0009845; GO:0034220; GO:0050794; GO:0051259; GO:0070838
HAK/KUP/KT
Unigene0014282GO:0016020-GO:0006807; GO:0044237; GO:0044238; GO:0044763; GO:0071704
Unigene0032884GO:0043231--
Unigene0028875GO:0009536; GO:0031224GO:0046873GO:0030001; GO:0034220
Unigene0050867GO:0031224GO:0022820GO:0030001; GO:0034220
Unigene0014342GO:0016020GO:0000166; GO:0005249; GO:0005515GO:0000041; GO:0000904; GO:0001101; GO:0006970; GO:0007015; GO:0009267; GO:0009933; GO:0010053; GO:0010119; GO:0015698; GO:0022610; GO:0045229; GO:0048588; GO:0071805
HKT
Unigene0090596---
Unigene0090597---
CPAs
Unigene0016812GO:0031224GO:0005451GO:0006814; GO:0006970; GO:0015992; GO:0044763; GO:0055065; GO:0055067
Unigene0016813GO:0016020GO:0005451; GO:0046873GO:0006814; GO:0010119; GO:0055065; GO:0055067; GO:0071805
Unigene0052021GO:0016020; GO:0043231; GO:0044444GO:0015299; GO:0046873GO:0015672; GO:0030001; GO:0065007; GO:0098662
Unigene0069097GO:0005773; GO:0031090; GO:0031224GO:0005451; GO:0005515; GO:0046873GO:0006625; GO:0006814; GO:0006970; GO:0010119; GO:0015992; GO:0048193; GO:0048827; GO:0055065; GO:0055067
Unigene0077507GO:0016020GO:0005451; GO:0046873GO:0006814; GO:0044763; GO:0055065; GO:0055067
Unigene0088276GO:0031224GO:0005451GO:0006814; GO:0015992; GO:0044763; GO:0055067
Unigene0091435GO:0031090; GO:0031224GO:0005451GO:0006814; GO:0006970; GO:0015992; GO:0044763; GO:0055065; GO:0055067
Unigene0103067GO:0005773; GO:0031090; GO:0031224GO:0005451; GO:0005515; GO:0046873GO:0006625; GO:0006814; GO:0006970; GO:0010119; GO:0015992; GO:0048193; GO:0048827; GO:0055065; GO:0055067
Unigene0017440GO:0009536; GO:0031224GO:0005451GO:0006605; GO:0006814; GO:0006875; GO:0015992; GO:0055067
Unigene0034942--GO:0006812; GO:0009987
Unigene0035730GO:0031224GO:0005451GO:0000904; GO:0006814; GO:0009664; GO:0009814; GO:0015992; GO:0033554
Unigene0073015-GO:0015297 GO:0007275GO:0015672; GO:0044763
Unigene0077742GO:0016020GO:0015299GO:0015672; GO:0016043; GO:0030001; GO:0044763; GO:0055067
Unigene0003428GO:0031224GO:0005451; GO:0046873; GO:0046914GO:0015992; GO:0030001; GO:0044763
Unigene0003429GO:0031224GO:0005451; GO:0046873; GO:0046914GO:0015992; GO:0030001; GO:0044763
Unigene0048967GO:0031224GO:0005451; GO:0046873GO:0015992; GO:0030001; GO:0044763
Unigene0060774GO:0031224; GO:0042170GO:0005451; GO:0046873GO:0006468; GO:0015992; GO:0030001; GO:0043269; GO:0044763
Unigene0086768GO:0009526; GO:0031224GO:0005451; GO:0046873GO:0015992; GO:0030001; GO:0044763
Unigene0104936GO:0031224GO:0005451; GO:0046873GO:0030001
Table
Table 4. Changes in the expression of K+ channel- and transporter-related genes in the roots of T. ramosissima by exogenous potassium application under NaCl stress.
Table 4. Changes in the expression of K+ channel- and transporter-related genes in the roots of T. ramosissima by exogenous potassium application under NaCl stress.
Gene IDLog2Fold Change
200 mM NaCl-48 h vs. 200 mM NaCl + 10 mM KCl-48 h200 mM NaCl-168 h vs. 200 mM NaCl + 10 mM KCl-168 h
Shaker
Unigene00290150.72−2.13
Unigene0029016−0.100.69
Unigene0041061−2.90−2.56
Unigene0081104−2.730.19
TPK
Unigene00330661.04−0.05
Unigene0066388−0.38−0.59
Unigene00767040.12−0.38
Unigene00799520.30−0.53
Unigene00804751.02−0.51
Unigene00835110.380.21
Unigene00988180.961.68
HAK/KUP/KT
Unigene0014282−0.79−0.16
Unigene0032884−0.70−0.25
Unigene0028875−1.09−0.13
Unigene00508670.26−0.55
Unigene00143421.070.13
HKT
Unigene00905961.120.78
Unigene0090597−0.410.07
CPAs
Unigene0016812−1.03−0.30
Unigene0016813−0.67−0.61
Unigene00520210.39−0.43
Unigene00690970.980.18
Unigene00775071.280.08
Unigene0088276−0.360.27
Unigene0091435−1.070.40
Unigene01030670.950.55
Unigene00174401.31−0.64
Unigene00349420.240.06
Unigene0035730−0.740.10
Unigene0073015−0.68−0.10
Unigene00777422.47−0.11
Unigene0003428−0.39−0.24
Unigene0003429−1.86−0.95
Unigene00489670.150.21
Unigene0060774−0.990.39
Unigene00867680.18−0.24
Unigene0104936−4.120.38
Table
Table 5. Information sheet for 15 species.
Table 5. Information sheet for 15 species.
FamilySpeciesDescriptionGeneProtein IDCDS (bp)ORF Length (aa)
TamaricaceaeReaumuria trigynavacuolar membrane Na+/H+ antiporterRtrNHXALJ77989.11662553
AmaranthaceaeSuaeda pruinosaNa+/H+ antiporterSprNHXAHY19033.11662553
AmaranthaceaeAtriplex halimusNa+/H+ antiporterAhaNHXAHY19032.11668555
AmaranthaceaeSalicornia bigeloviiNa+/H+ antiporterSbiNHXAAZ82019.11683560
AmaranthaceaeHalostachys caspicaNa+/H+ antiporterHcaNHXADK62565.11656551
AmaranthaceaeOxybasis glaucaNa+/H+ antiporterOglNHXAAQ72785.11656551
AmaranthaceaeSalicornia brachiataNa+/H+ antiporterSbrNHXACA33931.11683560
AmaranthaceaeSuaeda salsaNa+/H+ antiporterSsaNHXAAK53432.11671556
SalicaceaePopulus pruinosaNa+/H+ antiporterPprNHXAQN76303.11635544
BetulaceaeBetula platyphyllaNa+/H+ antiporterBplNHXATE80665.11626541
AizoaceaeMesembryanthemum crystallinumvacuolar Na+/H+ antiporterMcrNHXCAN99589.11671556
CactaceaeSelenicereus undatusNa+/H+ antiporterSunNHXQED12512.11662553
SalicaceaePopulus euphraticaNa+/H+ antiporterPeuNHXAQN76287.11635544
RosaceaePyrus betulifoliavacuolar Na+/H+ antiporterPbeNHXAGE13941.11629542
NelumbonaceaeNelumbo nuciferavacuolar Na+/H+ antiporterNnuNHXBAP90754.11617538
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Chen, Y.; Zhang, S.; Du, S.; Jiang, J.; Wang, G. Transcriptome and Metabonomic Analysis of Tamarix ramosissima Potassium (K+) Channels and Transporters in Response to NaCl Stress. Genes 2022, 13, 1313. https://doi.org/10.3390/genes13081313

AMA Style

Chen Y, Zhang S, Du S, Jiang J, Wang G. Transcriptome and Metabonomic Analysis of Tamarix ramosissima Potassium (K+) Channels and Transporters in Response to NaCl Stress. Genes. 2022; 13(8):1313. https://doi.org/10.3390/genes13081313

Chicago/Turabian Style

Chen, Yahui, Shiyang Zhang, Shanfeng Du, Jiang Jiang, and Guangyu Wang. 2022. "Transcriptome and Metabonomic Analysis of Tamarix ramosissima Potassium (K+) Channels and Transporters in Response to NaCl Stress" Genes 13, no. 8: 1313. https://doi.org/10.3390/genes13081313

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