scholarly journals Genome-Wide Identification of Na+/H+ Antiporter (NHX) Genes in Sugar Beet (Beta vulgaris L.) and Their Regulated Expression under Salt Stress

Genes ◽  
2019 ◽  
Vol 10 (5) ◽  
pp. 401 ◽  
Author(s):  
Guo-Qiang Wu ◽  
Jin-Long Wang ◽  
Shan-Jia Li
Keyword(s):  
Salt Stress ◽  
Sugar Beet ◽  
Beta Vulgaris ◽  
Molecular Mechanisms ◽  
Expression Patterns ◽  
Pcr Analysis ◽  
Functional Identification ◽  
Interacting Protein ◽  
Protein Protein Interaction ◽  
Moderate Salinity

Salinity is one of the major environment factors that limits the growth of plants and the productivity of crops worldwide. It has been shown that Na+ transporters play a central role in salt tolerance and development of plants. The objective of this study was to identify Na+/H+ antiporter (NHX) genes and investigate their expression patterns in sugar beet (Beta vulgaris L.) subjected to various concentrations of NaCl. A total of five putative NHX genes were identified and distributed on four chromosomes in sugar beet. Phylogenetic analysis revealed that these BvNHX genes are grouped into three major classes, viz Vac- (BvNHX1, -2 and -3), Endo- (BvNHX4), and PM-class NHX (BvNHX5/BvSOS1), and within each class the exon/intron structures are conserved. The amiloride-binding site is found in TM3 at N-terminus of Vac-class NHX proteins. Protein-protein interaction (PPI) prediction suggested that only BvNHX5 putatively interacts with calcineurin B-like proteins (CBL) and CBL-interacting protein kinases (CIPK), implying it might be the primary NHX involved in CBL-CIPK pathway under saline condition. It was also found that BvNHX5 contains one abscisic acid (ABA)-responsive element (ABRE), suggesting that BvNHX5 might be involved in ABA signal responsiveness. Additionally, the qRT-PCR analysis showed that all the BvNHX genes in both roots and leaves are significantly up-regulated by salt, and the transcription levels under high salinity are significantly higher than those under either low or moderate salinity. Taken together, this work gives a detailed overview of the BvNHX genes and their expression patterns under salt stress. Our findings also provide useful information for elucidating the molecular mechanisms of Na+ homeostasis and further functional identification of the BvNHX genes in sugar beet.

scholarly journals iTRAQ-Based Comparative Proteomic Analysis Provides Insights into Molecular Mechanisms of Salt Tolerance in Sugar Beet (Beta vulgaris L.)

2018 ◽  
Vol 19 (12) ◽  
pp. 3866 ◽  
Author(s):  
Guo-Qiang Wu ◽  
Jin-Long Wang ◽  
Rui-Jun Feng ◽  
Shan-Jia Li ◽  
Chun-Mei Wang
Keyword(s):  
Salt Tolerance ◽  
Sugar Beet ◽  
Beta Vulgaris ◽  
Molecular Mechanisms ◽  
Stress Factors ◽  
Pcr Analysis ◽  
Absolute Quantitation ◽  
Abiotic Stress Factors ◽  
Starting Point ◽  
Isobaric Tags

Salinity is one of the major abiotic stress factors that limit plant growth and crop yield worldwide. To understand the molecular mechanisms and screen the key proteins in response of sugar beet (Beta vulgaris L.) to salt, in the present study, the proteomics of roots and shoots in three-week-old sugar beet plants exposed to 50 mM NaCl for 72 h was investigated by isobaric Tags for Relative and Absolute Quantitation (iTRAQ) technology. The results showed that 105 and 30 differentially expressed proteins (DEPs) were identified in roots and shoots of salt-treated plants compared with untreated plants, respectively. There were 46 proteins up-regulated and 59 proteins down-regulated in roots; and 13 up-regulated proteins and 17 down-regulated proteins found in shoots, respectively. These DEPs were mainly involved in carbohydrate metabolism, energy metabolism, lipid metabolism, biosynthesis of secondary metabolites, transcription, translation, protein folding, sorting, and degradation as well as transport. It is worth emphasizing that some novel salt-responsive proteins were identified, such as PFK5, MDH, KAT2, ACAD10, CYP51, F3H, TAL, SRPR, ZOG, V-H+-ATPase, V-H+-PPase, PIPs, TIPs, and tubulin α-2/β-1 chain. qRT-PCR analysis showed that six of the selected proteins, including BvPIP1-4, BvVP and BvVAP in root and BvTAL, BvURO-D1, and BvZOG in shoot, displayed good correlation between the expression levels of protein and mRNA. These novel proteins provide a good starting point for further research into their functions using genetic or other approaches. These findings should significantly improve the understanding of the molecular mechanisms involved in salt tolerance of sugar beet plants.

The expression patterns of plasma membrane aquaporins in leaves of sugar beet and its halophyte relative, Beta vulgaris ssp. maritima, in response to salt stress

Biologia ◽  
2015 ◽  
Vol 70 (4) ◽  
Author(s):  
Monika Skorupa-Kłaput ◽  
Joanna Szczepanek ◽  
Katarzyna Kurnik ◽  
Andrzej Tretyn ◽  
Jarosław Tyburski
Keyword(s):  
Plasma Membrane ◽  
Salt Stress ◽  
Sugar Beet ◽  
Beta Vulgaris ◽  
Water Status ◽  
Expression Patterns ◽  
Salt Solutions ◽  
Short Term ◽  
Long Term Treatment

AbstractSalt tolerance is largely dependent on a plant’s ability to maintain optimal water status in leaves. The adjustment of water relations under salinity involves changes in the transcriptional activity of genes encoding plasma membrane aquaporins (PIPs). Here, we report the effects of long-term or short-term treatments with moderate or strong salt stress on the expression of BvPIP1;1, BvPIP2;1 and BvPIP2;2 in the leaves of sugar beet, Beta vulgaris cv. Huzar, and its halophyte relative, Beta vulgaris ssp. maritima. Plants subjected to long-term treatment were watered with salt-supplemented media during a 32 day long culture period. Short-term salt treatments were executed either by immersing the petioles of excised leaves into salt solutions for 48h, or incubating excised leaf blades in salt-supplemented media for 20h. B. vulgaris ssp. maritima reacted to long-term salt treatment with a decrease in BvPIP1;1, BvPIP2;1 and BvPIP2;2 expression. Contrastingly, only BvPIP2;2 transcript was down-regulated by salinity in leaves of B. vulgaris cv. Huzar, whereas BvPIP1;1 and BvPIP2;1 did not vary in response to salt-treatments. On the other hand, the expression of BvPIP1;1, BvPIP2;1 and BvPIP2;2 was enhanced by salinity if salt solutions was supplied through leaf petioles, irrespective of genotype. PIP expression in excised leaf blades revealed a complex pattern of changes. BvPIP1;1 and BvPIP2;1 expression underwent a period of transient increase in both the control and salt-treated leaves. Furthermore, BvPIP1;1 expression was enhanced by strong salinity. BvPIP2;2 expression was up-regulated by strong salinity or up- or down-regulated by moderate salinity during the treatment period.

scholarly journals Genome-wide identification of the GATA transcription factor family and their expression patterns under temperature and salt stress in Aspergillus oryzae

AMB Express ◽  
2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Chunmiao Jiang ◽  
Gongbo Lv ◽  
Jinxin Ge ◽  
Bin He ◽  
Zhe Zhang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Expression Patterns ◽  
Interaction Network ◽  
Protein Protein Interaction ◽  
Genome Wide ◽  
Gata Transcription Factor ◽  
Starting Point ◽  
Evolutionary Features ◽  
First Time

AbstractGATA transcription factors (TFs) are involved in the regulation of growth processes and various environmental stresses. Although GATA TFs involved in abiotic stress in plants and some fungi have been analyzed, information regarding GATA TFs in Aspergillusoryzae is extremely poor. In this study, we identified and functionally characterized seven GATA proteins from A.oryzae 3.042 genome, including a novel AoSnf5 GATA TF with 20-residue between the Cys-X2-Cys motifs which was found in Aspergillus GATA TFs for the first time. Phylogenetic analysis indicated that these seven A. oryzae GATA TFs could be classified into six subgroups. Analysis of conserved motifs demonstrated that Aspergillus GATA TFs with similar motif compositions clustered in one subgroup, suggesting that they might possess similar genetic functions, further confirming the accuracy of the phylogenetic relationship. Furthermore, the expression patterns of seven A.oryzae GATA TFs under temperature and salt stresses indicated that A. oryzae GATA TFs were mainly responsive to high temperature and high salt stress. The protein–protein interaction network of A.oryzae GATA TFs revealed certain potentially interacting proteins. The comprehensive analysis of A. oryzae GATA TFs will be beneficial for understanding their biological function and evolutionary features and provide an important starting point to further understand the role of GATA TFs in the regulation of distinct environmental conditions in A.oryzae.

scholarly journals Transcriptome Analysis of Ramie (Boehmeria niveaL. Gaud.) in Response to Ramie Moth (Cocytodes coeruleaGuenée) Infestation

2016 ◽  
Vol 2016 ◽  
pp. 1-10 ◽  
Author(s):  
Liangbin Zeng ◽  
Airong Shen ◽  
Jia Chen ◽  
Zhun Yan ◽  
Touming Liu ◽  
...  
Keyword(s):  
Protein Function ◽  
Molecular Mechanisms ◽  
Defense Mechanism ◽  
Natural Fiber ◽  
De Novo ◽  
Average Length ◽  
Expression Patterns ◽  
Transcriptome Profiling ◽  
Cdna Libraries ◽  
Pcr Analysis

The ramie mothCocytodes coeruleaGuenée (RM) is an economically important pest that seriously impairs the yield of ramie, an important natural fiber crop. The molecular mechanisms that underlie the ramie-pest interactions are unclear up to date. Therefore, a transcriptome profiling analysis would aid in understanding the ramie defense mechanisms against RM. In this study, we first constructed two cDNA libraries derived from RM-challenged (CH) and unchallenged (CK) ramie leaves. The subsequent sequencing of the CH and CK libraries yielded 40.2 and 62.8 million reads, respectively. Furthermore,de novoassembling of these reads generated 26,759 and 29,988 unigenes, respectively. An integrated assembly of data from these two libraries resulted in 46,533 unigenes, with an average length of 845 bp per unigene. Among these genes, 24,327 (52.28%) were functionally annotated by predicted protein function. A comparative analysis of the CK and CH transcriptome profiles revealed 1,980 differentially expressed genes (DEGs), of which 750 were upregulated and 1,230 were downregulated. A quantitative real-time PCR (qRT-PCR) analysis of 13 random selected genes confirmed the gene expression patterns that were determined by Illumina sequencing. Among the DEGs, the expression patterns of transcription factors, protease inhibitors, and antioxidant enzymes were studied. Overall, these results provide useful insights into the defense mechanism of ramie against RM.

scholarly journals Differential Expression Patterns of Non-Symbiotic Hemoglobins in Sugar Beet (Beta vulgaris ssp. vulgaris)

2014 ◽  
Vol 55 (4) ◽  
pp. 834-844 ◽  
Author(s):  
Nélida Leiva-Eriksson ◽  
Pierre A. Pin ◽  
Thomas Kraft ◽  
Juliane C. Dohm ◽  
André E. Minoche ◽  
...  
Keyword(s):  
Sugar Beet ◽  
Differential Expression ◽  
Beta Vulgaris ◽  
Expression Patterns

scholarly journals Overexpression of a S-Adenosylmethionine Decarboxylase from Sugar Beet M14 Increased Araidopsis Salt Tolerance

2019 ◽  
Vol 20 (8) ◽  
pp. 1990 ◽  
Author(s):  
Meichao Ji ◽  
Kun Wang ◽  
Lin Wang ◽  
Sixue Chen ◽  
Haiying Li ◽  
...  
Keyword(s):  
Antioxidant Enzymes ◽  
Salt Stress ◽  
Transgenic Plants ◽  
Sugar Beet ◽  
Stress Tolerance ◽  
Membrane Damage ◽  
Pcr Analysis ◽  
Ros Generation ◽  
Salt Stress Tolerance ◽  
Adenosylmethionine Decarboxylase

Polyamines play an important role in plant growth and development, and response to abiotic stresses. Previously, differentially expressed proteins in sugar beet M14 (BvM14) under salt stress were identified by iTRAQ-based quantitative proteomics. One of the proteins was an S-adenosylmethionine decarboxylase (SAMDC), a key rate-limiting enzyme involved in the biosynthesis of polyamines. In this study, the BvM14-SAMDC gene was cloned from the sugar beet M14. The full-length BvM14-SAMDC was 1960 bp, and its ORF contained 1119 bp encoding the SAMDC of 372 amino acids. In addition, we expressed the coding sequence of BvM14-SAMDC in Escherichia coli and purified the ~40 kD BvM14-SAMDC with high enzymatic activity. Quantitative real-time PCR analysis revealed that the BvM14-SAMDC was up-regulated in the BvM14 roots and leaves under salt stress. To investigate the functions of the BvM14-SAMDC, it was constitutively expressed in Arabidopsis thaliana. The transgenic plants exhibited greater salt stress tolerance, as evidenced by longer root length and higher fresh weight and chlorophyll content than wild type (WT) under salt treatment. The levels of spermidine (Spd) and spermin (Spm) concentrations were increased in the transgenic plants as compared with the WT. Furthermore, the overexpression plants showed higher activities of antioxidant enzymes and decreased cell membrane damage. Compared with WT, they also had low expression levels of RbohD and RbohF, which are involved in reactive oxygen species (ROS) production. Together, these results suggest that the BvM14-SAMDC mediated biosynthesis of Spm and Spd contributes to plant salt stress tolerance through enhancing antioxidant enzymes and decreasing ROS generation.

scholarly journals Genome-Wide Analysis of the YABBY Transcription Factor Family in Rapeseed (Brassica napus L.)

Genes ◽  
2021 ◽  
Vol 12 (7) ◽  
pp. 981
Author(s):  
Jichun Xia ◽  
Dong Wang ◽  
Yuzhou Peng ◽  
Wenning Wang ◽  
Qianqian Wang ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Expression Patterns ◽  
Purifying Selection ◽  
Brassica Species ◽  
Pcr Analysis ◽  
Sequencing Data ◽  
Functional Identification ◽  
Brassica Napus L ◽  
Intron Structure ◽  
Duplication Events

The YABBY family of plant-specific transcription factors play important regulatory roles during the development of leaves and floral organs, but their functions in Brassica species are incompletely understood. Here, we identified 79 YABBY genes from Arabidopsis thaliana and five Brassica species (B. rapa, B. nigra, B. oleracea, B. juncea, and B. napus). A phylogenetic analysis of YABBY proteins separated them into five clusters (YAB1–YAB5) with representatives from all five Brassica species, suggesting a high degree of conservation and similar functions within each subfamily. We determined the gene structure, chromosomal location, and expression patterns of the 21 BnaYAB genes identified, revealing extensive duplication events and gene loss following polyploidization. Changes in exon–intron structure during evolution may have driven differentiation in expression patterns and functions, combined with purifying selection, as evidenced by Ka/Ks values below 1. Based on transcriptome sequencing data, we selected nine genes with high expression at the flowering stage. qRT-PCR analysis further indicated that most BnaYAB family members are tissue-specific and exhibit different expression patterns in various tissues and organs of B. napus. This preliminary study of the characteristics of the YABBY gene family in the Brassica napus genome provides theoretical support and reference for the later functional identification of the family genes.

scholarly journals Transcriptional responses of Rosa rugosa to salt stress and salt shock

2020 ◽  
Vol 44 ◽  
Author(s):  
Michele Valquíria dos Reis ◽  
Laura Vaughn Rouhana ◽  
Patrícia Duarte de Oliveira Paiva ◽  
Diogo Pedrosa Correia da Silva ◽  
Renato Paiva ◽  
...  
Keyword(s):  
Salt Stress ◽  
Molecular Mechanisms ◽  
Expression Patterns ◽  
Exposure Period ◽  
Transcriptional Responses ◽  
Expression Levels ◽  
Salt Shock ◽  
Stress Changes ◽  
Stress Related Genes ◽  
High Level

ABSTRACT Rugosa rugosa has high tolerance to various stresses; however, the molecular mechanisms of this behavior under adverse conditions are unclear. The objective of this study is to investigate expression patterns of stress-related genes in response to salinity stress. Changes in transcript levels of R. rugose, grown under different salt stress conditions (0, 25, 50, and 100 mM NaCl) over a long exposure period (30 days), have been investigated. In addition, the effects of salt shock stress on seedlings exposed to a high level (200 mM) of NaCl for a relatively short duration (3 h) have also been investigated. Expression levels of selected differentially expressed genes have been determined using relative reverse transcription polymerase chain reaction (RT-PCR). It has been observed that seedlings exposed to salt stress for a long duration exhibited no signs of stress in both leaves and roots. In addition, expression of NHX1 in R. rugosa increased in the presence of NaCl. Furthermore, transcripts of EXP4, GPP, NHX1, NAC, and DREB genes also increased under high levels of NaCl. In contrast, expression levels of MYB and TIR decreased during this salt shock treatment. Of particular interest is the increase in levels of transcripts of NHX1 in leaves of seedlings grown under both salt stress and salt shock conditions, thus suggesting that this gene plays an important role in salt stress tolerance in R. rugosa. These findings will support efforts in enhancing salt tolerance in roses, and perhaps in other members of the Rosaceae family.

scholarly journals Identification, Characterization and Expression Analysis Reveal the Potential Function of Annexin Genes in Response to Abiotic stress, Calcium and Hormones in Cassava (Manihot esculeta Crantz)

2019 ◽  
Author(s):  
Ruimei Li ◽  
Yuqing Wang ◽  
Yangjiao Zhou ◽  
Tingting Qiu ◽  
Yu Song ◽  
...  
Keyword(s):  
Salt Stress ◽  
Abiotic Stress ◽  
Expression Patterns ◽  
Membrane Lipid ◽  
Pcr Analysis ◽  
Abiotic Stress Response ◽  
Promoter Regions ◽  
Manihot Esculenta Crantz ◽  
Diverse Range ◽  
Drought And Salt Stress

Abstract Background The calcium (Ca2+)-dependent phospholipid binding protein annexin gene family, which is known to be related to membrane lipid and cytoskeletal components, is involved in a diverse range of biological functions. However, in cassava (Manihot esculenta Crantz), no studies focusing on the roles of annexin genes in response to abiotic stresses, calcium, and hormones have been informed. Results 12 annexin genes were found and assigned to eight chromosomes in the cassava genome. All of the MeAnns contain a typical annexin domain with four 70-amino acid repeats. The MeAnns are classified into six groups in the phylogenetic tree. In their promoter regions, MeAnns possess at least 3 hormone response-related cis-elements and 1 abiotic stress response-related cis-acting element. MeAnn1, MeAnn2 and MeAnn5 exhibit very high levels of expression in each tested organs or tissues. By contrast, MeAnn12 exhibits very low levels in all the tested organs or tissues. qRT-PCR analysis indicates that both MeAnn5 and MeAnn9 have significantly high expression in leaves after cold, drought, and salt treatments and are highly responsive to CaCl2, GA and JA treatments. MeAnn2 and MeAnn10 are significantly downregulated in leaves by cold, drought and salt stress and negatively respond to CaCl2, GA and JA. The expression patterns of MeAnns under cold, drought, and salt stress are irregular in shoots. In roots, MeAnn1 and MeAnn9 are downregulated by cold, CaCl2 and JA treatments, while their other gene expression patterns are irregular. Conclutions In this study, we identified annexin genes in cassava and our expression profiling analysis demonstrated that cassava annexin genes responded to multiple stresses. Our results laid the foundation for further study of the function of cassava anesxin genes and provided an entry point for understanding the response mechanism of cassava to abiotic stress.

scholarly journals Comparative Transcriptome Analysis of a Fan-shaped Inflorescence in Pineapple Using RNA-seq

2020 ◽  
Author(s):  
Tao Xie ◽  
Zhiquan Cai ◽  
Aiping Luan ◽  
Wei Zhang ◽  
Jing Wu ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Expression Patterns ◽  
Soluble Sugar ◽  
Differentially Expressed ◽  
Soluble Solids ◽  
Pcr Analysis ◽  
Rna Seq ◽  
Stem Apex ◽  
Inflorescence Axis ◽  
Flower Stem

Abstract Background: Pineapple plant usually has a capitulum. However, a fan-shaped inflorescence was evolved in an exceptional material, having multiple crown buds. In order to reveal the molecular mechanisms of the formation of the fan-shaped inflorescence, fruit traits and the transcriptional differences between a fan-shaped inflorescence (FI) and a capitulum inflorescence (CI) pineapples were analyzed in the three tissues, i.e., the flower stem apex (FIs and CIs), the base of the inflorescence (FIb and CIb), and the inflorescence axis (FIa and CIa).Results: Except for a clear differentiation of inflorescence morphology, no significant differences in the structure of inflorescence organs and the main nutritional components (soluble solids, soluble sugar, titratable acid, and VC) in fruits were found between the two pineapples. Between the fan- and capitulum-shaped inflorescences, a total of 5370 differentially expressed genes (DEGs) were identified across the three tissues; and 3142, 2526 and 2255 DEGs were found in the flower stem apex, the base of the inflorescence, and the inflorescence axis, respectively. Of these genes, there were 489 overlapping DEGs in all three tissue comparisons. In addition, 5769 DEGs were identified between different tissues within each pineapple. Functional analysis indicated between the two pineapples that 444 transcription factors (TFs) and 206 inflorescence development related genes (IDGs) were differentially expressed in at least one tissue comparison, while 45 TFs and 21 IDGs were overlapped across the 3 tissues. Among the 489 overlapping DEGs in the 3 tissue comparisons between the two pineapples, excluding the IDGs and TFs, 80 of them revealed a higher percentage of involvement in the biological processes relating to response to auxin, and reproductive processes. RNA-seq value and real-time quantitative PCR analysis exhibited the same gene expression patterns in the three tissues. Conclusions: Our result provided novel cues for understanding the molecular mechanisms of the formation of fan-shaped inflorescence in pineapple, making a valuable resource for the study of plant breeding and the speciation of the pineapples.

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