Çimen Atak

By Çimen Atak and Özge Çelik

Part of the book: Plant Science

By Özge Çelik and Çimen Atak

As a predicted result of increasing population worldwide, improvements in the breeding strategies in agriculture are valued as mandatory. The natural resources are limited, and due to the natural disasters like sudden and severe abiotic stress factors, excessive floods, etc., the production capacities are changed per year. In contrast, the yield potential should be significantly increased to cope with this problem. Despite rich genetic diversity, manipulation of the cultivars through alternative techniques such as mutation breeding becomes important. Radiation is proven as an effective method as a unique method to increase the genetic variability of the species. Gamma radiation is the most preferred physical mutagen by plant breeders. Several mutant varieties have been successfully introduced into commercial production by this method. Combinational use of in vitro tissue culture and mutation breeding methods makes a significant contribution to improve new crops. Large populations and the target mutations can be easily screened and identified by new methods. Marker assisted selection and advanced techniques such as microarray, next generation sequencing methods to detect a specific mutant in a large population will help to the plant breeders to use ionizing radiation efficiently in breeding programs.

Part of the book: New Insights on Gamma Rays

By Sinan Meriç, Alp Ayan and Çimen Atak

In last decades, plants were increasingly subjected to multiple environmental abiotic stress factors as never before due to their stationary nature. Excess urbanization following the intense industrial applications introduced combinations of abiotic stresses as heat, drought, salinity, heavy metals etc. to plants in various intensities. Technological advancements brought novel biotechnological tools to the abiotic stress tolerance area as an alternative to time and money consuming traditional crop breeding activities as well as they brought vast majority of the problem themselves. Discoveries of single gene (as osmoprotectant, detoxyfying enzyme, transporter protein genes etc.) and multi gene (biomolecule synthesis, heat shock protein, regulatory transcription factor and signal transduction genes etc.) targets through functional genomic approaches identified abiotic stress responsive genes through EST based cDNA micro and macro arrays. In nowadays, genetic engineering and genome editing tools are present to transfer genes among different species and modify these target genes in site specific, even single nuclotide specific manner. This present chapter will evaluate genomic engineering approaches and applications targeting these abiotic stress tolerance responsive mechanisms as well as future prospects of genome editing applications in this field.

Part of the book: Abiotic Stress in Plants

By Sinan Meriç, Tamer Gümüş and Alp Ayan

Infectious diseases threatened humankind countless times through history, when knowledge on microorganisms was absent and medical capabilities were limited. Pandemics and outbreaks caused death of millions, brought empires to their knees and even wiped some ancient civilizations. In “modern” days, despite of improved medical application, sanitary precautions and effective medicines, infectious diseases are still cause of more than 54% of total mortality in developing countries. Millions of people are protected from the infectious diseases annually as a result of mass immunization campaigns. Nevertheless, novel diseases as COVID-19, MERS-CoV, avian influenza, Ebola, Zika and possible future infections require dynamic vaccine research and investment. Along with all the advantages of vaccines, there are several limitations regarding cost, biosafety/biosecurity, storage, distribution, degradation topics. Plant-based vaccine production for humans and animals has been under serious consideration to overcome some of these limitations. Nowadays, plant biotechnology brought new insight to vaccines research through gene transfer strategies to plants and improvements in amount, isolation and purification and addition of adjuvant for production of recombinant vaccine antigens in plants. Recombinant vaccines can undeniably offer us new standards and legal regulations to be introduced for the development, approval, authorization, licensing, distribution and marketing of such vaccines. The aim of this chapter is to exploit uses, methods and advantages of recombinant DNA technology and novel plant biotechnology applications for plant-based vaccine research in respect to existing infectious diseases.

Part of the book: Botany

By Alp Ayan, Sinan Meriç, Tamer Gümüş and Çimen Atak

The number of approaches related to recombinant protein production in plants is increasing rapidly day by day. Plant-based expression offers a safe, cost-effective, scalable, and potentially limitless way to rapidly produce recombinant proteins. Plant systems, which have significant advantages over animal and yeast recombinant protein production systems, are particularly promising for the large-scale production of antibodies and therapeutic proteins. Molecular pharming with transgenic plant systems become prominent among other production systems with its low cost, absence of human or animal pathogen contaminants, and the ability to use post-translational modifications such as glycosylation. The ability to produce recombinant pharmaceutical proteins in plant seeds, plant cells and various plant tissues such as hairy roots and leaves, through the stable transformation of the nuclear genome or transient expression, allows for the establishment of different production strategies. In particular, the rapid production of candidate proteins by transient expression, which eliminates the need for lengthy transformation and regeneration procedures, has made plants an attractive bioreactor for the production of pharmaceutical components. This chapter aimsto exhibit the current plant biotechnology applications and transgenic strategies used for the production of recombinant antibodies, antigens, therapeutic proteins and enzymes, which are used especially in the treatment of various diseases.

Part of the book: Genetically Modified Plants and Beyond

By Alp Ayan, Sinan Meriç, Tamer Gümüş and Çimen Atak

Soybean, which has many foods, feed, and industrial raw material products, has relatively limited genetic diversity due to the domestication practices which mainly focused on higher yield for many centuries. Besides, cleistogamy in soybean plant reduces genetic variations even further. Improving genetic variation in soybean is crucial for breeding applications to improve traits such as higher yield, early maturity, herbicide, and pest resistance, lodging and shattering resistance, seed quality and composition, abiotic stress tolerance and more. In the 21st century, there are numerous alternatives from conventional breeding to biotechnological approaches. Among these, mutation breeding is still a major method to produce new alleles and desired traits within the crop genomes. Physical and chemical mutagen protocols are still improving and mutation breeding proves its value to be fast, flexible, and viable in crop sciences. In the verge of revolutionary genome editing era, induced mutagenesis passed important cross-roads successfully with the help of emerging supportive NGS based-methods and non-destructive screening approaches that reduce the time-consuming labor-intensive selection practices of mutation breeding. Induced mutagenesis will retain its place in crop science in the next decades, especially for plants such as soybean for which cross breeding is limited or not applicable.

Part of the book: Soybean

By Tamer Gümüş, Sinan Meriç, Alp Ayan and Çimen Atak

All life forms, from the simplest to the most complicated, are inevitably exposed to altering environmental conditions in their natural habitats, gradually depending on their lifestyle. Unfavorable alterations drive these life forms either to avoidance or defense as a response. Most of the essential plant growth-promoting environmental factors can also turn out to be stress factors. Water as the most abundant molecule of all living cells can cause stress either in deficit as drought or in excess as waterlogging. Temperature is important for the maintenance of all biomolecules and metabolic reactions; hence, both low and high temperatures are deleterious stress factors. Even though the plants were exposed to various volcanic origin, heavy metals and pollutants and evolved molecular mechanisms during millions year of evolution, rapid urbanization, and industrial progress introduce brand new pollutants as micro- and nanoplastics as well as nanoparticles to plants like never before. This chapter defines and evaluates major environmental abiotic stress factors with an emphasis on the latest knowledge of molecular effects on plants. In addition, novel stress factors, such as nanoparticles and microplastics, are looked over as hot prospects for the future of plant abiotic stress areas.

Part of the book: Plant Abiotic Stress Responses and Tolerance Mechanisms

By Alp Ayan, Sinan Meriç, Tamer Gümüş and Çimen Atak

Global warming, which was rhetorical in the previous century, is a preeminent issue in multiple scientific areas today. Global warming has increased the frequency of extreme high temperature events all around the globe and expanded heat zones from tropic areas through both poles and even changed frigid poles to temperate zones. In the terrestrial earth, plants are the major CO2 consumers. The emergence and evolution of plants on earth decreased the global temperatures dramatically from mid-Devonian to mid-Carboniferous Era; however, the human factors as industrialization were not in equation. Today, plants are still main actors of the nature-based solutions to global warming through afforestation and reforestation solutions. However, high temperature is a major deleterious abiotic stress for plant growth and productivity. Plant heat stress adaptation has been a focus of research for both environmental and agricultural purposes. Plant heat stress adaptation requires utilization of complex physiological traits and molecular networks combined. The present chapter summarizes recent progress in transgenic approach through five main targets as heat shock proteins, osmoprotectants, antioxidants, transcription factors, and miRNAs. Additionally, miscellaneous novel transgenic attempts from photosynthetic machinery to signal transduction cascades are included to cover different physiological, transcriptional, and post-transcriptional regulation of the plant heat responses.

Part of the book: Abiotic Stress in Plants

By Tamer Gümüş, Tuğçe Aydın, Burcu Gündüz, Sinan Meriç, Alp Ayan and Çimen Atak

Humankind interfered in the natural selection of plants in favor of traits such as yield, grain quality, productivity, and flavor principally at the expense of several biotic and abiotic stress tolerance capacities. Plants are subjected to the detrimental effects of the combination of these factors due to their stationary nature. Today, there are various breeding approaches from classical to transgenesis and even genome editing to tame plant genome for our purposes. Additionally, the significance of epigenetic regulation in response to biotic and abiotic stresses has been recognized in the last decade. Acquisition and preservation of stress memory for the progeny to allow them to adapt to similar conditions through methylation, histone modification, and chromatin structure alterations are the focus of attention. Enlightening the cross talk between these components of acquired transgenerational memory may aid to breed more efficient and environmentally friendly crops in current agricultural systems. Priming applications have been extensively studied to induce stress memory of the plant by external stimulus as a warning signal, which may ignite minor activations of stress-responsive gene expression and eventually turn into strong resistance. The present chapter will discuss the basis and the recent advances in plant epigenetic regulation with emphasis on chemical, biotic, and abiotic priming agents.

Part of the book: Recent Trends in Plant Breeding and Genetic Improvement