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Identification of functional SNPs in genes and their effects on plant phenotypes
Huq, Md. Amdadul,Akter, Shahina,Nou, Ill Sup,Kim, Hoy Taek,Jung, Yu Jin,Kang, Kwon Kyoo The Korean Society of Plant Biotechnology 2016 식물생명공학회지 Vol.43 No.1
Single nucleotide polymorphism (SNP) is an abundant form of genetic variation within individuals of species. DNA polymorphism can arise throughout the whole genome at different frequencies in different species. SNP may cause phenotypic diversity among individuals, such as individuals with different color of plants or fruits, fruit size, ripening, flowering time adaptation, quality of crops, grain yields, or tolerance to various abiotic and biotic factors. SNP may result in changes in amino acids in the exon of a gene (asynonymous). SNP can also be silent (present in coding region but synonymous). It may simply occur in the noncoding regions without having any effect. SNP may influence the promoter activity for gene expression and finally produce functional protein through transcription. Therefore, the identification of functional SNP in genes and analysis of their effects on phenotype may lead to better understanding of their impact on gene function for varietal improvement. In this mini-review, we focused on evidences revealing the role of functional SNPs in genes and their phenotypic effects for the purpose of crop improvements.
Genome Sequencing, a Milestone for Genomic Research and Plant Breeding
( Amdadul Huq ),( Shahina Akter ),( Yu Jin Jung ),( Ill Sup Nou ),( Yong Gu Cho ),( Kwon Kyoo Kang ) 한국육종학회 2016 Plant Breeding and Biotechnology Vol.4 No.1
Plant breeding programs are often used to improve varieties through creating diverse agronomic traits. During a breeding program, a lot of genetic diversities are created in the genome after different generations through homologous recombination. Genome sequencing technology has revolutionized the discovery of genes and molecular markers associated with diverse agronomic traits in crop improvement programs. Genomic research is now in the peak of success, thus creating new opportunities for crop improvement modern sequencing technology is now capable of sequencing thousands to millions of bases per run. Modern sequencing technologies enable the sequencing of different cultivars with small to complex genomes at a reasonable time and cost. These massive data can be used to identify important agronomic traits of crops such as fruit color, size, ripening, flowering time adaptation, grain yield, and quality maintenance. In addition, they can be used to develop crop varieties. This mini-review is focused on the role of genome sequencing in genomic research and plant breeding for crop improvements.
Identification of functional SNPs in genes and their effects on plant phenotypes
Md. Amdadul Huq,AKTER SHAHINA,노일섭,김회택,정유진,강권규 한국식물생명공학회 2016 JOURNAL OF PLANT BIOTECHNOLOGY Vol.43 No.1
Single nucleotide polymorphism (SNP) is an abundant form of genetic variation within individuals of species. DNA polymorphism can arise throughout the whole genome at different frequencies in different species. SNP may cause phenotypic diversity among individuals, such as individuals with different color of plants or fruits, fruit size, ripening, flowering time adaptation, quality of crops, grain yields, or tolerance to various abiotic and biotic factors. SNP may result in changes in amino acids in the exon of a gene (asynonymous). SNP can also be silent (present in coding region but synonymous). It may simply occur in the noncoding regions without having any effect. SNP may influence the promoter activity for gene expression and finally produce functional protein through transcription. Therefore, the identification of functional SNP in genes and analysis of their effects on phenotype may lead to better understanding of their impact on gene function for varietal improvement. In this mini-review, we focused on evidences revealing the role of functional SNPs in genes and their phenotypic effects for the purpose of crop improvements.
Application of Single Nucleotide Polymorphism Markers for Selection of Male Sterility in Crop Plants
( Shahina Akter ),( Amdadul Huq ),( Yu-jin Jung ),( Yong-gu Cho ),( Kwon-kyoo Kang ) 한국육종학회 2016 Plant Breeding and Biotechnology Vol.4 No.4
Male sterility is an important trait and plays a key role for hybrid crop production in agricultural industry field. Different genes and enzymes are involved with male sterile traits. Dysfunction of these genes in any stage of male reproductive system often results in male sterility i.e., the inability to produce functional pollen. Functional male sterility can be utilized in the production of hybrid seed. During plant breeding for hybrid crop production, a lot of genetic diversities are created. Plant breeding is enhanced by the availability of molecular markers for rapid screening and selection in populations. Molecular markers are useful for a variety of purposes relevant to crop improvement. Functional markers that detect the functional mutations causing phenotypic changes offer a precise method for genetic identification. Various DNA markers are available now in plant breeding sectors. Among all of these markers, the new generation molecular markers called single nucleotide polymorphisms (SNPs) are most abundant, robust and feasible because of its availability in whole genome and that they play a key role in the induction of phenotypic variations like male sterility. In this review, we described the classification and mechanism of male sterility in crops, the genes responsible for male sterility, and application of SNP markers for selection of male sterile plants.
Akter, Shahina,Huq, Md. Amdadul,Jung, Yu-Jin,Cho, Yong-Gu,Kang, Kwon-Kyoo The Korean Society of Plant Biotechnology 2016 식물생명공학회지 Vol.43 No.4
Sweet and taste modifying proteins are natural alternatives to synthetic sweeteners and flavor enhancers, and have been used for centuries in different countries. Use of these proteins is limited due to less stability and availability. However, recent advances in biotechnology have enhanced their availability. These include production of sweet and taste modifying proteins in transgenic organisms, and protein engineering to improve their stability. Their increased availability in the food, beverage or medicinal industries as sweeteners and flavor enhancers will reduce the dependence on artificial alternatives. Production of transgenic plants using sweet and taste modifying genes, is an interesting alternative to the extraction of these products from natural source. In this review paper, we briefly describe various sweet and taste modifying proteins (such as thaumatin, monellin, brazzein, curculin and miraculin), their properties, and their application for plant development using biotechnological approaches.