Advanced breeding technologies
Seyyed Hamidreza Hashemi-Petroudi; Ghorbanali Nematzadeh; Hossein Askari; Saeed Ghahary
Abstract
DNA methylation as epigenetic mark plays a key role in normal differential and developmental processes as well as in dynamic gene regulation at the genomic level. To assess DNA methylation pattern in different developmental stages of Aeluropus littoralis, methylation sensitive amplified polymorphism ...
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DNA methylation as epigenetic mark plays a key role in normal differential and developmental processes as well as in dynamic gene regulation at the genomic level. To assess DNA methylation pattern in different developmental stages of Aeluropus littoralis, methylation sensitive amplified polymorphism (MSAP) was used. Methylation and demethylation status at the CCGG recognition site were tracked by two sets of cytosine methylation-sensitive enzymes (MspI and HpaII), which were classified into three types. The percentage of total bands per type I (non methylation), type II (CpG methylation) and type III (CpCpG methylation) fragments were 75.7, 19.4 and 4.9, respectively. The most frequent methylation events (19.4%) were observed in type II fragment in which full methylation pattern occurred. Out of 480 bands, 33 bands showed methylation alterations between differential developmental stages in all three types of detectable methylation levels. In this study, polymorphic bands had two main directions associated with methylation or demethylation patterns in which methylation level increased during plant development. The methylation and demethylation events at CG sites could be related to developmental stage-specific gene regulation.
Advanced breeding technologies
Elham Younesi-Melerdi; Ghorbanali Nematzadeh; Ehsan Shokri
Abstract
Codon bias refers to the differences in the frequency of occurrence of synonymous codons in coding DNA. Pattern of codon and optimum codon utilization is significantly different between the lives. This difference is due to the long term function of natural selection and evolution process. Genetics drift, ...
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Codon bias refers to the differences in the frequency of occurrence of synonymous codons in coding DNA. Pattern of codon and optimum codon utilization is significantly different between the lives. This difference is due to the long term function of natural selection and evolution process. Genetics drift, mutation and regulation of gene expression are the main reasons for codon bias. In this study, the codon bias analysis was done on photosynthesis and respiratory related genes of phosphoenolpyruvate carboxylase (PEPC), NADP-malic enzyme (NADP-ME), pyruvate orthophosphate dikinase (PPDK), glycerate kinase (GK) (nuclear genes), rubisco, NADH-dehydrogenase subunit F and cytochrome-C (chloroplast genes) from Aeluropus littoralis plant. Nuclear gene sequences were obtained after partial isolation and for chloroplast genes obtained from nucleotide database. Calculation of codon adaptation index (CAI) showed that studied genes with direct or indirect association with photosynthesis, had high level of gene expression and had also a tendency to optimum codon utilization. The results also showed the difference in codon bias between genes encoded in nucleus and chloroplast for some amino acids.
Advanced breeding technologies
Mehdi Arefrad; Nadali Babaian Jelodar; Ghorbanali Nematzadeh; Mohammadreza Karimi; Seyedkamal Kazemitabar
Abstract
Seed protein quality is an important topic in the production of soybean. The quality of soybean proteins is limited by anti-nutrient proteins and low levels of essential sulfur amino acids. In this study, protein content and solubility of six cultivars were evaluated and seed storage proteins were analyzed ...
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Seed protein quality is an important topic in the production of soybean. The quality of soybean proteins is limited by anti-nutrient proteins and low levels of essential sulfur amino acids. In this study, protein content and solubility of six cultivars were evaluated and seed storage proteins were analyzed using SDS-PAGE and scanning densitometry. The results showed that seed storage protein bands were similar among soybean cultivars. However, concentration of β-conglycinin (7S), glycinin (11S) proteins and related subunits were statistically different among the soybean cultivars. According to the results of this study, 033 and DPX cultivars were characterized by high levels of protein content (42.45 %) and protein solubility (76.58 mg g-1) respectively. Two cultivars DPX and JK were also identified by high 11S/7S ratio (1.39 and 1.43 % respectively). Besides, the JK was considered by the lowest concentration of 7S protein (20.35 %). The results showed that a significant negative correlation existed between protein content and solubility (r= -0.66). A significant and moderate positive correlation was found between acidic and basic subunits with 11S protein (r= 0.72 and 0.47 respectively). The 11S and 7S proteins also showed positive and negative correlation with 11S/7S ratio (r= 0.70 and -0.85 respectively). On the other hand, acidic subunits were characterized by significant positive and negative relationship with 11S/7S ratio and some anti-nutrients protein respectively. Thereupon, these results suggested that the development of new genotypes of soybean with high level of acidic subunits of 11S protein can be notable in increasing seed storage protein quality in soybean breeding programs.