Genome-wide comparative analysis of Mg transporter gene family between Triticum turgidum and Camelina sativa

Faraji, Sahar; Ahmadizadeh, Mostafa; Heidari, Parviz

doi:10.1007/s10534-021-00301-4

Cited by 29 publications

(39 citation statements)

References 91 publications

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“…Furthermore, the nonsynonymous (Ka) and synonymous (Ks) substitution rates among the duplicated pairs can be considered an important index to assay the selection pressure and approximate duplication time. Because the Ka/Ks ratios were <1 in duplicated gene pairs from the K+ channel family in rice, it can be suggested that the genes underwent purifying selection [66]. These results significantly suggest that the genes with conserved functions and/or pseudogenization might be generated by purifying selection.…”

Section: Discussionmentioning

confidence: 98%

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Genome-Wide Analysis of Potassium Channel Genes in Rice: Expression of the OsAKT and OsKAT Genes under Salt Stress

Musavizadeh

Najafi-Zarrini

Kazemitabar

et al. 2021

Genes

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Potassium (K+), as a vital element, is involved in regulating important cellular processes such as enzyme activity, cell turgor, and nutrient movement in plant cells, which affects plant growth and production. Potassium channels are involved in the transport and release of potassium in plant cells. In the current study, three OsKAT genes and two OsAKT genes, along with 11 nonredundant putative potassium channel genes in the rice genome, were characterized based on their physiochemical properties, protein structure, evolution, duplication, in silico gene expression, and protein–protein interactions. In addition, the expression patterns of OsAKTs and OsKATs were studied in root and shoot tissues under salt stress using real-time PCR in three rice cultivars. K+ channel genes were found to have diverse functions and structures, and OsKATs showed high genetic divergence from other K+ channel genes. Furthermore, the Ka/Ks ratios of duplicated gene pairs from the K+ channel gene family in rice suggested that these genes underwent purifying selection. Among the studied K+ channel proteins, OsKAT1 and OsAKT1 were identified as proteins with high potential N-glycosylation and phosphorylation sites, and LEU, VAL, SER, PRO, HIS, GLY, LYS, TYR, CYC, and ARG amino acids were predicted as the binding residues in the ligand-binding sites of K+ channel proteins. Regarding the coexpression network and KEGG ontology results, several metabolic pathways, including sugar metabolism, purine metabolism, carbon metabolism, glycerophospholipid metabolism, monoterpenoid biosynthesis, and folate biosynthesis, were recognized in the coexpression network of K+ channel proteins. Based on the available RNA-seq data, the K+ channel genes showed differential expression levels in rice tissues in response to biotic and abiotic stresses. In addition, the real-time PCR results revealed that OsAKTs and OsKATs are induced by salt stress in root and shoot tissues of rice cultivars, and OsKAT1 was identified as a key gene involved in the rice response to salt stress. In the present study, we found that the repression of OsAKTs, OsKAT2, and OsKAT2 in roots was related to salinity tolerance in rice. Our findings provide valuable insights for further structural and functional assays of K+ channel genes in rice.

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Section: Discussionmentioning

confidence: 98%

“…The study of co-expression networks reveals valuable information on the possible cellular pathways related to target genes [66]. In the present study, an interaction network of 98 genes c-oexpressed with K+ channel genes was constructed in rice.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Analysis of Potassium Channel Genes in Rice: Expression of the OsAKT and OsKAT Genes under Salt Stress

Musavizadeh

Najafi-Zarrini

Kazemitabar

et al. 2021

Genes

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“…We characterized 18 putative non-redundant MGT genes in cacao (TcMGTs) along with 41 MGTs in G. hirsutum (GhMGTs), and 16 MGTs from the genome of C. capsularis (CcMGTs). In previous studies, 62 MGTs in Camelina sativa [12], 41 MGTs in Triticum turgidum [12], 12 MGTs in Zea mays [70], 16 MGTs in Pyrus bretschneideri [23], 36 MGTs in Brassica napus [25], 12 MGTs in Fagaria vesca [27], and 8 MGTs in Poncirus trifoliata [24] were characterized. The number of MGTs is probably correlated with polyploidy events and genome size [12,71].…”

Section: Discussionmentioning

confidence: 93%

“…The Mg transporter (MGT) gene family, also known as MRS2 or CorA, has an important role in the aforementioned essential functions [9,10]. Members of the MGT family are defined by two transmembrane domains in which a tripeptide motif GMN (glycine-methionine-asparagine) occurs at the C-terminal domain of the first transmembrane [11,12]. MGTs are expressed in root tissues of plants that are more involved in up taking Mg (such as MGT1 in rice and MGT6 in Arabidopsis), transferring Mg from root to shoot (such as MGT9 in Arabidopsis), homeostasis by maintaining ionic balance (such as MGT10 in Arabidopsis), and accumulation and translocation of Mg within, for instance, the vacuole of the cell (such as MGT2 and MGT3 in Arabidopsis) [11,[13][14][15][16].…”

Section: Introductionmentioning

confidence: 99%

Magnesium transporter Gene Family: Genome-Wide Identification and Characterization in Theobroma cacao, Corchorus capsularis, and Gossypium hirsutum of Family Malvaceae

et al. 2021

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Magnesium (Mg) is an element involved in various key cellular processes in plants. Mg transporter (MGT) genes play an important role in magnesium distribution and ionic balance maintenance. Here, MGT family members were identified and characterized in three species of the plant family Malvaceae, Theobroma cacao, Corchorus capsularis, and Gossypium hirsutum, to improve our understanding of their structure, regulatory systems, functions, and possible interactions. We identified 18, 41, and 16 putative non-redundant MGT genes from the genome of T. cacao, G. hirsutum, and C. capsularis, respectively, which clustered into three groups the maximum likelihood tree. Several segmental/tandem duplication events were determined between MGT genes. MGTs appear to have evolved slowly under a purifying selection. Analysis of gene promoter regions showed that MGTs have a high potential to respond to biotic/abiotic stresses and hormones. The expression patterns of MGT genes revealed a possible role in response to P. megakarya fungi in T. cacao, whereas MGT genes showed differential expression in various tissues and response to several abiotic stresses, including cold, salt, drought, and heat stress in G. hirsutum. The co-expression network of MGTs indicated that genes involved in auxin-responsive lipid metabolism, cell wall organization, and photoprotection can interact with MGTs.

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“…Furthermore, the alteration of membrane conformation can cause oxidative stress by rapidly inducing reactive oxygen species (ROS), and then, the concentration of cryoprotective compounds increases in the cytoplasmic matrix [2,6,7]. However, plants use various mechanisms, including morphological and structural modifications, as well as biochemical mechanisms to modulate cellular homoeostasis to reduce low, nonfreezing temperature-induced damage [2,8,9]. Approximately 10% of the genes in Arabidopsis are involved in the response to cold stress and are known as cold-regulated (COR) genes [10,11].…”

Section: Introductionmentioning

confidence: 99%

Hormone Profiles and Antioxidant Activity of Cultivated and Wild Tomato Seedlings under Low-Temperature Stress

Heidari

Amerian

Barcaccia³

2021

Agronomy

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Low temperature is a major limiting factor for the growth and reproduction of some plant species, such as tomato. So far, few studies have been conducted on the effects of low temperature, and the mechanisms of plants’ response to this type of stress is not fully clear. In the current study, the effects of low, nonfreezing temperature (10 °C for three days) on the hormone content, antioxidant activity, and expression patterns of cold-related genes in the leaves of cold-tolerant species (Solanum habrochaites Accession ‘LA1777′) and cold-susceptible species (Solanum lycopersicum cultivar ‘Moneymaker’) were investigated. Low temperature increased the abscisic acid (ABA) content in both tomato species, while the content of zeatin-type cytokinins (ZT) increased in the cold-tolerant species. However, the content of indole-3-acetic acid (IAA) and gibberellic acid (GA) reduced in response to low temperature in susceptible species. Accordingly, cytokinin (CK) is identified as an important hormone associated with low-temperature stress in tomato. In addition, our results indicate that the C-repeat/DRE binding factor 1 (CBF1) gene is less induced in response to low temperature in tomato, although transcription of the inducer of CBF expression 1 (ICE1) gene was upregulated under low temperature in both tomato species. It seems that ICE1 may modulate cold-regulated (COR) genes in a CBF-independent way. In addition, in response to low temperature, the malondialdehyde (MDA) level and membrane stability index (MSI) increased in the susceptible species, indicating that low temperature induces oxidative stress. Additionally, we found that glutathione peroxidase is highly involved in reactive oxygen species (ROS) scavenging induced by low temperature, and antioxidants are more induced in tolerant species. Overall, our results suggest that sub-optimal temperatures promote oxidative stress in tomato and CK is introduced as a factor related to the response to low temperature that requires deeper attention in future breeding programs of tomato.

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Genome-wide comparative analysis of Mg transporter gene family between Triticum turgidum and Camelina sativa

Cited by 29 publications

References 91 publications

Genome-Wide Analysis of Potassium Channel Genes in Rice: Expression of the OsAKT and OsKAT Genes under Salt Stress

Genome-Wide Analysis of Potassium Channel Genes in Rice: Expression of the OsAKT and OsKAT Genes under Salt Stress

Magnesium transporter Gene Family: Genome-Wide Identification and Characterization in Theobroma cacao, Corchorus capsularis, and Gossypium hirsutum of Family Malvaceae

Hormone Profiles and Antioxidant Activity of Cultivated and Wild Tomato Seedlings under Low-Temperature Stress

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