In scientific terms, phylogeny is the evolutionary history and relationship of an organism or group of organisms. A phylogeny describes the organism's relationships, such as from which organisms it may have evolved, or to which species it is most closely related. Scientists must collect accurate information that allows them to make evolutionary connections among organisms. It is a highly dynamic field of biology because phylogenetic modeling concepts are constantly changing as new information is collected.  Over the last several decades, new research has challenged scientists’ ideas about how organisms are related. 

Carl Woese and his colleagues proposed that all life on Earth evolved along three lineages, called domains. Two of the three domains—Bacteria and Archaea—are prokaryotic. Prokaryotes were the first inhabitants on Earth, appearing 3.5 to 3.8 billion years ago. These organisms are abundant and ubiquitous; that is, they are present everywhere. In addition to inhabiting moderate environments, they are found in extreme conditions: from boiling springs to permanently frozen environments in Antarctica; from salty environments like the Dead Sea to environments under tremendous pressure, such as the depths of the ocean; and from areas without oxygen, such as a waste management plant, to radioactively contaminated regions, such as Chernobyl. Prokaryotes reside in the human digestive system and on the skin, are responsible for certain illnesses, and serve an important role in the preparation of many foods.

The plasma membrane, the cell membrane, has many functions, but the most basic one is to define the cell's borders and keep the cell functional. The plasma membrane is selectively permeable. This means that the membrane allows some materials to freely enter or leave the cell, while other materials cannot move freely, but require a specialized structure, and occasionally, even energy investment for crossing.

Elements in various combinations comprise all matter, including living things. Some of the most abundant elements in living organisms include carbon, hydrogen, nitrogen, oxygen, sulfur, and phosphorus. These form the nucleic acids, proteins, carbohydrates, and lipids that are the fundamental components of living matter. Biologists must understand these important building blocks and the unique structures of the atoms that comprise molecules, allowing for cells, tissues, organ systems, and entire organisms to form. All biological processes follow the laws of physics and chemistry, so in order to understand how biological systems work, it is important to understand the underlying physics and chemistry. For example, the flow of blood within the circulatory system follows the laws of physics that regulate the modes of fluid flow. The breakdown of the large, complex molecules of food into smaller molecules—and the conversion of these to release energy to be stored in adenosine triphosphate (ATP)—is a series of chemical reactions that follow chemical laws. The properties of water and the formation of hydrogen bonds are key to understanding living processes. Recognizing the properties of acids and bases is important, for example, to our understanding of the digestive process. Therefore, the fundamentals of physics and chemistry are important for gaining insight into biological processes.

An animal’s endocrine system controls body processes through the production, secretion, and regulation of hormones, which serve as chemical “messengers” functioning in cellular and organ activity and, ultimately, maintaining the body’s homeostasis. The endocrine system plays a role in growth, metabolism, and sexual development.

People did not understand the mechanisms of inheritance, or genetics, at the time Charles Darwin and Alfred Russel Wallace were developing their idea of natural selection. Scholars rediscovered Mendel’s work in the early twentieth century, and over the next few decades scientists integrated genetics and evolution in what became known as the modern synthesis—the coherent understanding of the relationship between natural selection and genetics that took shape by the 1940s. Natural selection can affect a population’s genetic makeup, and, in turn, this can result in the gradual evolution of populations. In the early twentieth century, biologists in the area of population genetics began to study how selective forces change a population through changes in allele and genotypic frequencies.  Adaptive evolution is the process by which natural selection increases the frequency of beneficial alleles in the population, while decreasing the frequency of deleterious alleles.

The environment consists of numerous pathogens, usually microorganisms, that cause disease in their hosts. Components of the immune system constantly search the body for signs of these pathogens. Mammalian immune systems evolved for protection from such pathogens. These systems are composed of an extremely diverse array of specialized cells and soluble molecules that coordinate a rapid and flexible defense system. 

A nervous system is an organism’s control center. It processes sensory information from outside and inside the body and controls all behaviors, from fundamental to complex. Although nervous systems throughout the animal kingdom vary in structure and complexity, each functions to maintain homeostasis. 

Viewed from space, Earth offers no clues about the diversity of life forms that reside there. Scientists believe that the first forms of life on Earth were microorganisms that existed for billions of years in the ocean before plants and animals appeared. The mammals, birds, and flowers so familiar to us are all relatively recent, originating 130 to 250 million years ago. The earliest representatives of the genus Homo, to which we belong, have inhabited this planet for only the last 2.5 million years, and only in the last 300,000 years have humans started looking like we do today.  The study of life is a vast field that delves into the past, present, and future.  This module will provide an introduction into the science of Biology as well as a look into its major themes and concepts.

This chapter begins with the evolution of viruses, viral morphology and classification. Steps in viral infection are covered along with various host and virus types. Prevention and treatment of viruses is outlined in this chapter. Finally prions and viroids are covered at the conclusion of the chapter. 

The Biology II Course was developed through the Ohio Department of Higher Education OER Innovation Grant. The course is part of the Ohio Transfer Assurance Guides and is also named OSC004. This work was completed and the course was posted in October 2019. For more information about credit transfer between Ohio colleges and universities, please visit: www.ohiohighered.org/transfer.Team LeadCathy Sistilli                                         Eastern Gateway Community CollegeContent ContributorsLisa Aschemeier                                 Northwest State Community CollegeShaun Blevins                                     Rhodes State CollegeRachel Detraz                                     Edison State Community College                                     Sara Finch                                          Sinclair Community CollegeWendy Gagliano                                 Clark State Community College AJ Snow                                             University of Akron Wayne CollegeLibrarianAmanda Rinehart                               Ohio State UniversityReview TeamJessica Hall                                        Ohio Dominican UniversitySanhita Gupta                                    Kent State UniversityErica Mersfelder                                 Sinclair Community College