scholarly journals Characterization of Metal Tolerance Proteins and Functional Analysis of GmMTP8.1 Involved in Manganese Tolerance in Soybean

2021 ◽  
Vol 12 ◽  
Author(s):  
Jifu Li ◽  
Rongshu Dong ◽  
Yidan Jia ◽  
Jie Huang ◽  
Xiaoyan Zou ◽  
...  
Keyword(s):  
Metal Tolerance ◽  
Chlorophyll Concentration ◽  
Toxic Level ◽  
Mn Toxicity ◽  
Stylosanthes Hamata ◽  
Genome Wide ◽  
Intracellular Compartments ◽  
Localization Analysis ◽  
Soybean Plants ◽  
P Type

Manganese is an essential micronutrient for plant growth but can be toxic to plants when it reaches excessive levels. Although metal tolerance proteins (MTPs), which belong to the cation diffusion facilitator (CDF) family, have been demonstrated to play critical roles in manganese (Mn) tolerance in plants, the characteristics and functions of GmMTP members in the response of soybean (Glycine max) to Mn toxicity have not been documented. In this study, growth inhibition was observed in soybean plants that were exposed to a toxic level of Mn in hydroponics, as reflected by the generation of brown spots, and decreased leaf chlorophyll concentration and plant fresh weight. Subsequent genome-wide analysis resulted in the identification of a total of 14 GmMTP genes in the soybean genome. Among these GmMTPs, 9 and 12 were found to be regulated by excess Mn in leaves and roots, respectively. Furthermore, the function of GmMTP8.1, a Mn-CDF homologue of ShMTP8 identified in the legume Stylosanthes hamata that is involved in Mn detoxification, was characterized. Subcellular localization analysis showed that GmMTP8.1 was localized to the endoplasmic reticulum (ER). Heterologous expression of GmMTP8.1 led to the restoration of growth of the Mn-hypersensitive yeast (Saccharomyces cerevisiae) mutant Δpmr1, which is made defective in Mn transport into the Golgi apparatus by P-type Ca/Mn-ATPase. Furthermore, GmMTP8.1 overexpression conferred tolerance to the toxic level of Mn in Arabidopsis (Arabidopsis thaliana). Under excess Mn conditions, concentrations of Mn in shoots but not roots were decreased in transgenic Arabidopsis, overexpressing GmMTP8.1 compared to the wild type. The overexpression of GmMTP8.1 also led to the upregulation of several transporter genes responsible for Mn efflux and sequestration in Arabidopsis, such as AtMTP8/11. Taken together, these results suggest that GmMTP8.1 is an ER-localized Mn transporter contributing to confer Mn tolerance by stimulating the export of Mn out of leaf cells and increasing the sequestration of Mn into intracellular compartments.

scholarly journals Genome-wide characterization and expression profiling of B3 superfamily during ethylene-induced flowering in pineapple (Ananas comosus L.)

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Cheng Cheng Ruan ◽  
Zhe Chen ◽  
Fu Chu Hu ◽  
Wei Fan ◽  
Xiang He Wang ◽  
...  
Keyword(s):  
Development Process ◽  
Chromosomal Localization ◽  
Purifying Selection ◽  
Ananas Comosus ◽  
Pcr Analysis ◽  
Flower Bud ◽  
Genome Wide ◽  
Localization Analysis ◽  
Ethephon Treatment ◽  
Differentiation Period

Abstract Background The B3 superfamily (B3s) represents a class of large plant-specific transcription factors, which play diverse roles in plant growth and development process including flowering induction. However, identification and functional surveys of B3 superfamily have not been reported in ethylene-induced pineapple flowering (Ananas comosus). Results 57 B3 genes containing B3 domain were identified and phylogenetically classified into five subfamilies. Chromosomal localization analysis revealed that 54 of 57 AcB3s were located on 21 Linkage Groups (LG). Collinearity analysis demonstrated that the segmental duplication was the main event in the evolution of B3 gene superfamily, and most of them were under purifying selection. The analysis of cis-element composition suggested that most of these genes may have function in response to abscisic acid, ethylene, MeJA, light, and abiotic stress. qRT-PCR analysis of 40 AcB3s containing ethylene responsive elements exhibited that the expression levels of 35 genes were up-regulated within 1 d after ethephon treatment and some were highly expressed in flower bud differentiation period in stem apex, such as Aco012003, Aco019552 and Aco014401. Conclusion This study provides a basic information of AcB3s and clues for involvement of some AcB3s in ethylene-induced flowering in pineapple.

scholarly journals Genome-wide characterization and expression profiling of B3 superfamily during flower induction stage in pineapple (Ananas comosus L.)

2020 ◽  
Author(s):  
Cheng Cheng Ruan ◽  
Zhe Chen ◽  
Fu Chu Hu ◽  
Xiang He Wang ◽  
Li Jun Guo ◽  
...  
Keyword(s):  
Development Process ◽  
Purifying Selection ◽  
Ananas Comosus ◽  
Flower Bud ◽  
Genome Wide ◽  
Localization Analysis ◽  
Ethephon Treatment ◽  
High Level ◽  
Differentiation Period ◽  
Induction Stage

AbstractThe B3 superfamily is a plant-specific family, which involves in growth and development process. By now, the identification of B3 superfamily in pineapple (Ananas comosus) has not reported. In this study, 57 B3 genes were identified and further phylogenetically classified into five subfamilies, all genes contained B3 domain. Chromosomal localization analysis revealed that 54 of 57 AcB3 genes were located on 21 chromosomes.Collinearity analysis indicated that the segmental duplication was the main event in the evolution of B3 gene superfamily and most of them were under purifying selection. Moreover, there were 7 and 39 pairs of orthologous B3s were identified between pineapple and Arabidopsis or rice, respectively, which indicated the closer genetic relationship between pineapple and rice. Most genes had cis-element of abscisic acid, ethylene, MeJA, light, and abiotic stress. qRT-PCR showed that the expression level of most AcB3 genes were up-regulated within 1 d after ethephon treatment and expressed high level in flower bud differentiation period in stem apex. This study provide a comprehensive understanding of AcB3s and a basis for future molecular studies of ethephon induced pineapple flowering.

scholarly journals Genome-wide identification and characterization of the metal tolerance protein (MTP) family in grape (Vitis vinifera L.)

3 Biotech ◽  
2019 ◽  
Vol 9 (5) ◽  
Author(s):  
Zahra Shirazi ◽  
Amin Abedi ◽  
Mojtaba Kordrostami ◽  
David J. Burritt ◽  
Mohammad Anwar Hossain
Keyword(s):  
Vitis Vinifera ◽  
Metal Tolerance ◽  
Vitis Vinifera L ◽  
Genome Wide ◽  
Metal Tolerance Protein ◽  
Identification And Characterization

scholarly journals An Expanded Genome-Wide Association Study of Fructosamine Levels Identifies RCN3 as a Replicating Locus and Implicates FCGRT as the Effector Transcript

2021 ◽  
Author(s):  
Fernando Riveros-Mckay ◽  
David Roberts ◽  
Emanuele Di Angelantonio ◽  
Bing Yu ◽  
Nicole Soranzo ◽  
...  
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
European Ancestry ◽  
Diabetes Diagnosis ◽  
Atherosclerosis Risk In Communities ◽  
Functional Studies ◽  
Genome Wide ◽  
Novel Association ◽  
Localization Analysis

Fructosamine is a measure of short-term glycemic control, which has been suggested as a useful complement to glycated hemoglobin (HbA1c) for the diagnosis and monitoring of diabetes. To date, a single genome-wide association study (GWAS) including 8,951 US White and 2,712 US Black individuals without a diabetes diagnosis has been published. Results in Whites and Blacks yielded different association loci, near <i>RCN3</i> and <i>CNTN5</i>, respectively. Here we performed a GWAS on 20,731 European ancestry blood donors, and meta-analysed our results with previous data from US White participants from The Atherosclerosis Risk in Communities (ARIC) study (N<sub>meta</sub>=29,685). We identified a novel association near <i>GCK</i> (rs3757840, beta<sub>meta</sub>=0.0062, MAF=0.49, <i>p<sub>meta</sub></i>=3.66x10<sup>-08</sup>) and confirmed the association near <i>RCN3</i> (rs113886122, beta<sub>meta</sub>=0.0134, MAF=0.17, <i>p<sub>meta</sub></i>= 5.71x10<sup>-18</sup>). Co-localization analysis with whole blood eQTL data suggested <i>FCGRT</i> as the effector transcript at the <i>RCN3</i> locus. We further showed that fructosamine has low heritability (h2=7.7%), has no significant genetic correlation with HbA1c and other glycemic traits in individuals without a diabetes diagnosis (p>0.05), but has evidence of shared genetic etiology with some anthropometric traits (Bonferroni corrected p<0.0012). Our results broaden knowledge of the genetic architecture of fructosamine and prioritize <i>FCGRT </i>for downstream functional studies at<i> </i>the established <i>RCN3</i> locus.

scholarly journals An Expanded Genome-Wide Association Study of Fructosamine Levels Identifies RCN3 as a Replicating Locus and Implicates FCGRT as the Effector Transcript

2021 ◽  
Author(s):  
Fernando Riveros-Mckay ◽  
David Roberts ◽  
Emanuele Di Angelantonio ◽  
Bing Yu ◽  
Nicole Soranzo ◽  
...  
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
European Ancestry ◽  
Diabetes Diagnosis ◽  
Atherosclerosis Risk In Communities ◽  
Functional Studies ◽  
Genome Wide ◽  
Novel Association ◽  
Localization Analysis

Fructosamine is a measure of short-term glycemic control, which has been suggested as a useful complement to glycated hemoglobin (HbA1c) for the diagnosis and monitoring of diabetes. To date, a single genome-wide association study (GWAS) including 8,951 US White and 2,712 US Black individuals without a diabetes diagnosis has been published. Results in Whites and Blacks yielded different association loci, near <i>RCN3</i> and <i>CNTN5</i>, respectively. Here we performed a GWAS on 20,731 European ancestry blood donors, and meta-analysed our results with previous data from US White participants from The Atherosclerosis Risk in Communities (ARIC) study (N<sub>meta</sub>=29,685). We identified a novel association near <i>GCK</i> (rs3757840, beta<sub>meta</sub>=0.0062, MAF=0.49, <i>p<sub>meta</sub></i>=3.66x10<sup>-08</sup>) and confirmed the association near <i>RCN3</i> (rs113886122, beta<sub>meta</sub>=0.0134, MAF=0.17, <i>p<sub>meta</sub></i>= 5.71x10<sup>-18</sup>). Co-localization analysis with whole blood eQTL data suggested <i>FCGRT</i> as the effector transcript at the <i>RCN3</i> locus. We further showed that fructosamine has low heritability (h2=7.7%), has no significant genetic correlation with HbA1c and other glycemic traits in individuals without a diabetes diagnosis (p>0.05), but has evidence of shared genetic etiology with some anthropometric traits (Bonferroni corrected p<0.0012). Our results broaden knowledge of the genetic architecture of fructosamine and prioritize <i>FCGRT </i>for downstream functional studies at<i> </i>the established <i>RCN3</i> locus.

scholarly journals Genome-Wide Analysis of the Catharanthus roseus RLK1-Like in Soybean and GmCrRLK1L20 Responds to Drought and Salt Stresses

2021 ◽  
Vol 12 ◽  
Author(s):  
Zhi-Qi Wang ◽  
Tai-Fei Yu ◽  
Guo-Zhong Sun ◽  
Jia-Cheng Zheng ◽  
Jun Chen ◽  
...  
Keyword(s):  
Catharanthus Roseus ◽  
Vital Role ◽  
Soybean Genome ◽  
Chromosomal Mapping ◽  
Genome Wide Analysis ◽  
Plant Life ◽  
Genome Wide ◽  
Localization Analysis ◽  
Drought And Salt Stresses ◽  
Plant Life Cycle

Abiotic stresses, such as drought and salinity, severely affects the growth, development and productivity of the plants. The Catharanthus roseus RLK1-like (CrRLK1L) protein kinase family is involved in several processes in the plant life cycle. However, there have been few studies addressing the functions of CrRLK1L proteins in soybean. In this study, 38 CrRLK1L genes were identified in the soybean genome (Glycine max Wm82.a2.v1). Phylogenetic analysis demonstrated that soybean CrRLK1L genes were grouped into clusters, cluster I, II, III. The chromosomal mapping demonstrated that 38 CrRLK1L genes were located in 14 of 20 soybean chromosomes. None were discovered on chromosomes 1, 4, 6, 7, 11, and 14. Gene structure analysis indicated that 73.6% soybean CrRLK1L genes were characterized by a lack of introns.15.7% soybean CrRLK1L genes only had one intron and 10.5% soybean CrRLK1L genes had more than one intron. Five genes were obtained from soybean drought- and salt-induced transcriptome databases and were found to be highly up-regulated. GmCrRLK1L20 was notably up-regulated under drought and salinity stresses, and was therefore studied further. Subcellular localization analysis revealed that the GmCrRLK1L20 protein was located in the cell membrane. The overexpression of the GmCrRLK1L20 gene in soybean hairy roots improved both drought tolerance and salt stresses and enhanced the expression of the stress-responsive genes GmMYB84, GmWRKY40, GmDREB-like, GmGST15, GmNAC29, and GmbZIP78. These results indicated that GmCrRLK1L20 could play a vital role in defending against drought and salinity stresses in soybean.

scholarly journals GmNAC06, a NAC domain transcription factor enhances salt stress tolerance in soybean

2020 ◽  
Author(s):  
Ming Li ◽  
Rui Chen ◽  
Qiyan Jiang ◽  
Xianjun Sun ◽  
Hui Zhang ◽  
...  
Keyword(s):  
Transcription Factor ◽  
Salt Stress ◽  
Hairy Roots ◽  
Stress Responses ◽  
High Salinity ◽  
Negative Effects ◽  
Ionic Homeostasis ◽  
Transgenic Hairy Roots ◽  
Localization Analysis ◽  
Soybean Plants

Key message We found GmNAC06 plays an important role in salt stress responses through the phenotypic, physiological and molecular analyses of OE, VC, and Mutant composite soybean. Abstract Salinization affects 20% of all cultivated land worldwide because of the high salinity of irrigation water and the excessive use of water, and this amount is increasing daily. NAC (NAM, ATAF, and CUC) have been found to be involved in salt stress. In this study, a soybean NAC gene, GmNAC06 (Glyma06g21020.1), was cloned and functionally characterized. The results of expression analysis suggested that salt stress could influence the expression level of GmNAC06. The subcellular localization analysis results suggested that GmNAC06 may function as a transcription factor. Under salt stress, the overexpression technology combined with CRISPR-Cas9 system found that GmNAC06 could cause the accumulation of proline and glycine betaine to alleviate or avoid the negative effects of ROS; similarly, it could control the Na+/K+ ratios in hairy roots to maintain ionic homeostasis. The fresh weight of the transgenic hairy roots and the histochemical ROS staining of wild leaves suggested that transgenic hairy roots influence the function of wild leaves under salt stress conditions. Moreover, the expression levels of GmUBC2 and GmHKT1 were higher in the GmNAC06 hairy roots than in the control. Thus, the overexpression of GmNAC06 in hairy roots notably causes an entire composite plant to exhibit salt tolerance. The phenotype of composite soybean plants and transgenic Arabidopsis plants suggest that GmNAC06 plays a role in response to salt stress and could be useful in generating salt tolerant transgenic crops.

scholarly journals Identification and Characterization of the EXO70 Gene Family in Polyploid Wheat and Related Species

2018 ◽  
Vol 20 (1) ◽  
pp. 60 ◽  
Author(s):  
Jia Zhao ◽  
Xu Zhang ◽  
Wentao Wan ◽  
Heng Zhang ◽  
Jia Liu ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Gene Family ◽  
Related Species ◽  
Plant Immunity ◽  
In Silico Analysis ◽  
Relationship Analysis ◽  
Genome Wide ◽  
A Genome ◽  
V Genes ◽  
Localization Analysis

The EXO70 gene family is involved in different biological processes in plants, ranging from plant polar growth to plant immunity. To date, analysis of the EXO70 gene family has been limited in Triticeae species, e.g., hexaploidy Triticum aestivum and its ancestral/related species. By in silico analysis of multiple Triticeae sequence databases, a total of 200 EXO70 members were identified. By homologue cloning approaches, 15 full-length cDNA of EXO70s were cloned from diploid Haynaldia villosa. Phylogenetic relationship analysis of 215 EXO70 members classified them into three groups (EXO70.1, EXO70.2, and EXO70.3) and nine subgroups (EXO70A to EXO70I). The distribution of most EXO70 genes among different species/sub-genomes were collinear, implying their orthologous relationship. The EXO70A subgroup has the most introns (at least five introns), while the remaining seven subgroups have only one intron on average. The expression profiling of EXO70 genes from wheat revealed that 40 wheat EXO70 genes were expressed in at least one tissue (leaf, stem, or root), of which 25 wheat EXO70 genes were in response to at least one biotic stress (stripe rust or powdery mildew) or abiotic stress (drought or heat). Subcellular localization analysis showed that ten EXO70-V proteins had distinct plasma membrane localization, EXO70I1-V showed a distinctive spotted pattern on the membrane. The 15 EXO70-V genes were differentially expressed in three tissue. Apart from EXO70D2-V, the remaining EXO70-V genes were in response to at least one stress (flg22, chitin, powdery mildew, drought, NaCl, heat, or cold) or phytohormones (salicylic acid, methyl jasmonate, ethephon, or abscisic acid) and hydrogen peroxide treatments. This research provides a genome-wide glimpse of the Triticeae EXO70 gene family and those up- or downregulated genes require further validation of their biological roles in response to biotic/abiotic stresses.

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