Biology

Biology studies the variety of life (clockwise from top-left) E. coli, tree fern, gazelle, Goliath beetle

Biology (from Greek bìο meaning life and Λoγος meaning the study of) is the study of life. It is concerned with such topics as the characteristics, classification, and behaviors of organisms, how species come into existence, and the interactions they have with each other and with the natural environment. Biology encompasses a broad spectrum of academic fields that are often viewed as independent disciplines. However, together they address phenomena related to living organisms (biological phenomena) over a wide range of scales, from biophysics to ecology.

Many of the sub-disciplines of biology, such as botany, zoology, and medicine are ancient. However, biology as a unified science first developed in the nineteenth century, as scientists discovered that all living things shared certain fundamental characteristics and were best studied as a whole. Today biology is one of the most prominent scientific fields. Over a million papers are published annually in a wide array of biology and medicine journals, and biology is a standard subject of instruction at schools and universities around the world.

As such a vast field, biology is divided into a number of subdisciplines. The old divisions by type of organism remains with subjects such as botany encompassing the study of plants, zoology with the study of animals, and microbiology as the study of microorganisms. The field may also be divided based on the scale at which it is studied: molecular biology looks at the fundamental chemistry of life; cellular biology looks a the basic building block of all life the cell; Physiology looks at the internal structure of organism; and ecology looks at how various organisms interrelate. Applied fields of biology such as medicine are more complex and involve many specialized sub-disciplines.

Principles

Biology is a branch of science employing the scientific method to characterize and investigate knowledge. Scientific theories are based on scientific observations, and these theories are sometimes refined as new scientific information is compiled. Scientific theories can also be used to predict phenomena that has not yet been observed. Biological systems are sometimes statistically modeled, but as in other branches of science, theories are not always described using mathematics.

The biological sciences are characterized and unified by several major underlying principles and concepts: universality, evolution, diversity, continuity, genetics, homeostasis, and interactions.

Universality

Schematic representation of DNA, the primary genetic material.

Main article: Life

While organisms may vary immensely in appearance, habitat, and behaviour it is a central principle of biology that all life shares certain universal fundamentals. A key feature is reproduction or replication. The entity being replicated, the replicator, in the past was considered to be the organism during the time of Darwin, but since the 1970s increasingly reduced to the scale of molecules. All known life has a carbon-based biochemistry, carbon is the fundamental building block of the molecules that make up all known living things. Similarly water is the basic solvent for all known living organisms. While all these things are true of all organisms observed on Earth, in theory alternative forms of life could exist and some scientists do look at alternative biochemistry.

All terrestrial organism use DNA and RNA-based genetic mechanisms to hold genetic information. Another universal principle is that all observed organisms with the exception of viruses are made of cells. Similarly, all organisms share common developmental processes.

Evolution

Main article: Evolution

The central organizing concept in biology is that all life has a common origin and has changed and developed through the process of evolution (see Common descent). This has led to the striking similarity of units and processes discussed in the previous section. Charles Darwin established evolution as a viable theory by articulating its driving force, natural selection (Alfred Russel Wallace is recognized as the co-discoverer of this concept). Genetic drift was embraced as an additional mechanism of evolutionary development in the modern synthesis of the theory.

The evolutionary history of a species— which describes the characteristics of the various species from which it descended— together with its genealogical relationship to every other species is called its phylogeny. Widely varied approaches to biology generate information about phylogeny. These include the comparisons of DNA sequences conducted within molecular biology or genomics, and comparisons of fossils or other records of ancient organisms in paleontology. Biologists organize and analyze evolutionary relationships through various methods, including phylogenetics, phenetics, and cladistics (The major events in the evolution of life, as biologists currently understand them, are summarized on this evolutionary timeline).

Ever since its articulation by Darwin and Wallace, the theory of evolution by natural selection has come under attack by people who disagree with scientific findings or interpretations regarding the origins and diversity of life, generally favoring instead religious explanations. See Creation-evolution controversy for more information.

Diversity

A phylogenetic tree of all living things, based on rRNA gene data, showing the separation of the three domains bacteria, archaea, and eukaryotes as described initially by Carl Woese. Trees constructed with other genes are generally similar, although they may place some early-branching groups very differently, presumably owing to rapid rRNA evolution. The exact relationships of the three domains are still being debated.

Classification is the province of the disciplines of systematics and taxonomy. Taxonomy places organisms in groups called taxa, while systematics seeks to define their relationships with each other. This classification technique has evolved to reflect advances in cladistics and genetics, shifting the focus from physical similarities and shared characteristics to phylogenetics.

Traditionally, living things have been divided into five kingdoms:

Monera -- Protista -- Fungi -- Plantae -- Animalia

However, many scientists now consider this five-kingdom system to be outdated. Modern alternative classification systems generally begin with the three-domain system:

Archaea (originally Archaebacteria) -- Bacteria (originally Eubacteria) -- Eukaryota

These domains reflect whether the cells have nuclei or not, as well as differences in the cell exteriors.

Further, each kingdom is broken down continuously until each species is separately classified. The order is 1) Kingdom, 2) Phylum, 3) Class, 4) Order, 5) Family, 6) Genus, 7) Species. The scientific name of an organism is obtained from its Genus and Species. For example, humans would be listed as Homo sapiens. Homo would be the Genus and Sapiens is the species. Whenever writing the scientific name of an organism it is proper to capitalize the first letter in the genus and put all of the species in lowercase; in addition the entire term would be put in italics. The term used for classification is called Taxonomy.

There is also a series of intracellular parasites that are progressively "less alive" in terms of metabolic activity:

Viruses -- Viroids -- Prions

Continuity

Main article: Universal common descent

Up into the 19th century, it was commonly believed that life forms could appear spontaneously under certain conditions (see abiogenesis). This misconception was challenged by William Harvey's diction that "all life [is] from [an] egg" (from the Latin "Omne vivum ex ovo"), a foundational concept of modern biology. It simply means that there is an unbroken continuity of life from its initial origin to the present time.

A group of organisms shares a common descent if they share a common ancestor. All organisms on the Earth have been and are descended from a common ancestor or an ancestral gene pool. This last universal common ancestor of all organisms is believed to have appeared about 3.5 billion years ago. Biologists generally regard the universality of the genetic code as definitive evidence in favor of the theory of universal common descent (UCD) for all bacteria, archaea, and eukaryotes (see: origin of life).

Homeostasis

Main article: Homeostasis

Homeostasis is the ability of an open system to regulate its internal environment to maintain a stable condition by means of multiple dynamic equilibrium adjustments controlled by interrelated regulation mechanisms. All living organisms, whether unicellular or multicellular, exhibit homeostasis. Homeostasis manifests itself at the cellular level through the maintenance of a stable internal acidity (pH); at the organismic level, warm-blooded animals maintain a constant internal body temperature; and at the level of the ecosystem, as when atmospheric carbon dioxide levels rise and plants are theoretically able to grow healthier and remove more of the gas from the atmosphere. Tissues and organs can also maintain homeostasis.

Interactions

Mutualistic symbiosis between clownfish of the genus Amphiprion that dwell among the tentacles of tropical sea anemones. The territorial fish protects the anemone from anemone-eating fish, and in turn the stinging tentacles of the anemone protects the clown fish from its predators.

Every living thing interacts with other organisms and its environment. One reason that biological systems can be difficult to study is that so many different interactions with other organisms and the environment are possible, even on the smallest of scales. A microscopic bacterium responding to a local sugar gradient is responding to its environment as much as a lion is responding to its environment when it searches for food in the African savannah. For any given species, behaviors can be co-operative, aggressive, parasitic or symbiotic. Matters become more complex when two or more different species interact in an ecosystem. Studies of this type are the province of ecology.

Scope

Main article: List of biology disciplines

Biology has become such a vast research enterprise that it is not generally regarded as a single discipline, but a number do assist in understanding the genetic variation of a population; and physiology borrows extensively from cell biology in describing the function of organ systems. Ethology and comparative psychology extend biology to the analysis of animal behavior and mental characteristics, whilst Evolutionary psychology proposes that the field of psychology, including in regard to humans, is a branch of biology.

Structure of life

Schematic of typical animal cell depicting the various organelles and structures.

Main articles: Molecular biology, Cell biology, Genetics, and Developmental biology

Molecular biology is the study of biology at a molecular level. This field overlaps with other areas of biology, particularly with genetics and biochemistry. Molecular biology chiefly concerns itself with understanding the interactions between the various systems of a cell, including the interrelationship of DNA, RNA, and protein synthesis and learning how these interactions are regulated.

Cell biology studies the physiological properties of cells, as well as their behaviors, interactions, and environment. This is done both on a microscopic and molecular level. Cell biology researches both single-celled organisms like bacteria and specialized cells in multicellular organisms like humans.

Understanding cell composition and how they function is fundamental to all of the biological sciences. Appreciating the similarities and differences between cell types is particularly important in the fields of cell and molecular biology. These fundamental similarities and differences provide a unifying theme, allowing the principles learned from studying one cell type to be extrapolated and generalized to other cell types.

Genetics is the science of genes, heredity, and the variation of organisms. In modern research, genetics provides important tools in the investigation of the function of a particular gene, or the analysis of genetic interactions. Within organisms, genetic information generally is carried in chromosomes, where it is represented in the chemical structure of particular DNA molecules.

Genes encode the information necessary for synthesizing proteins, which in turn play a large role in influencing (though, in many instances, not completely determining) the final phenotype of the organism.

Developmental biology studies the process by which organisms grow and develop. Originating in embryology, modern developmental biology studies the genetic control of cell growth, differentiation, and "morphogenesis," which is the process that gives rise to tissues, organs, and anatomy. Model organisms for developmental biology include the round worm Caenorhabditis elegans, the fruit fly Drosophila melanogaster, the zebrafish Brachydanio rerio, the mouse Mus musculus, and the weed Arabidopsis thaliana.

Physiology of organisms

Main articles: Physiology, Anatomy

Physiology studies the mechanical, physical, and biochemical processes of living organisms by attempting to understand how all of the structures function as a whole. The theme of "structure to function" is central to biology. Physiological studies have traditionally been divided into plant physiology and animal physiology, but the principles of physiology are universal, no matter what particular organism is being studied. For example, what is learned about the physiology of yeast cells can also apply to human cells. The field of animal physiology extends the tools and methods of human physiology to non-human species. Plant physiology also borrows techniques from both fields.

Anatomy is an important branch of physiology and considers how organ systems in animals, such as the nervous, immune, endocrine, respiratory, and circulatory systems, function and interact. The study of these systems is shared with medically oriented disciplines such as neurology and immunology.

Diversity and evolution of organisms

In population genetics the evolution of a population of organisms is sometimes depicted as if travelling on a fitness landscape. The arrows indicate the preferred flow of a population on the landscape, and the points A, B, and C are local optima. The red ball indicates a population that moves from a very low fitness value to the top of a peak.

Main articles: Evolutionary biology, Biodiversity, Botany, Zoology

Evolutionary biology is concerned with the origin and descent of species, as well as their change over time, and includes scientists from many taxonomically-oriented disciplines. For example, it generally involves scientists who have special training in particular organisms such as mammalogy, ornithology, or herpetology, but use those organisms as systems to answer general questions about evolution. Evolutionary biology is mainly based on paleontology, which uses the fossil record to answer questions about the mode and tempo of evolution, as well as the developments in areas such as population genetics and evolutionary theory. In the 1990s, developmental biology re-entered evolutionary biology from its initial exclusion from the modern synthesis through the study of evolutionary developmental biology. Related fields which are often considered part of evolutionary biology are phylogenetics, systematics, and taxonomy.

The two major traditional taxonomically-oriented disciplines are botany and zoology. Botany is the scientific study of plants. Botany covers a wide range of scientific disciplines that study the growth, reproduction, metabolism, development, diseases, and evolution of plant life. Zoology involves the study of animals, including the study of their physiology within the fields of anatomy and embryology. The common genetic and developmental mechanisms of animals and plants is studied in molecular biology, molecular genetics, and developmental biology. The ecology of animals is covered under behavioral ecology and other fields.

Classification of life

The dominant classification system is called Linnaean taxonomy, which includes ranks and binomial nomenclature. How organisms are named is governed by international agreements such as the International Code of Botanical Nomenclature (ICBN), the International Code of Zoological Nomenclature (ICZN), and the International Code of Nomenclature of Bacteria (ICNB). A fourth Draft BioCode was published in 1997 in an attempt to standardize naming in these three areas, but it has yet to be formally adopted. The Virus cInternational Code of Virus Classification and Nomenclature (ICVCN) remains outside the BioCode.

Interactions of organisms

A food web, a generalization of the food chain, depicting the complex interrelationships among organisms in an ecosystem.

Main articles: Ecology, Ethology, Behavior, Biogeography

Ecology studies the distribution and abundance of living organisms, and the interactions between organisms and their environment. The environment of an organism includes both its habitat, which can be described as the sum of local abiotic factors such as climate and geology, as well as the other the organisms that share its habitat. Ecological systems are studied at several different levels, from individuals and populations to ecosystems and the biosphere. As can be surmised, ecology is a science that draws on several disciplines.

Ethology studies animal behavior (particularly of social animals such as primates and canids), and is sometimes considered a branch of zoology. Ethologists have been particularly concerned with the evolution of behavior and the understanding of behavior in terms of the theory of natural selection. In one sense, the first modern ethologist was Charles Darwin, whose book The expression of the emotions in animals and men influenced many ethologists.

Biogeography studies the spatial distribution of organisms on the Earth, focusing on topics like plate tectonics, climate change, dispersal and migration, and cladistics.

Etymology

Formed by combining the Greek βίος (bios), meaning 'life', and λόγος (logos), meaning 'study of', the word "biology" in its modern sense seems to have been introduced independently by Gottfried Reinhold Treviranus (Biologie oder Philosophie der lebenden Natur, 1802) and by Jean-Baptiste Lamarck (Hydrogéologie, 1802). The word itself is sometimes said to have been coined in 1800 by Karl Friedrich Burdach, but it appears in the title of Volume 3 of Michael Christoph Hanov's Philosophiae naturalis sive physicae dogmaticae: Geologia, biologia, phytologia generalis et dendrologia, published in 1766.

History

Main articles: History of biology and History of medicine

Though the concept of biology as a single coherent field of knowledge only arose in the 19th century, the biological sciences emerged from traditions of medicine and natural history reaching back to the ancient Greeks (particularly Galen and Aristotle, respectively). During the Renaissance and Age of Discovery, renewed interest in empiricism as well as the rapidly increasing number of known organisms led to significant developments in biological thought; Vesalius inaugurated the rise of experimentation and careful observation in physiology, and a series of naturalists culminating with Linnaeus and Buffon began to create a conceptual framework for analyzing the diversity of life and the fossil record, as well as the development and behavior of plants and animals. The growing importance of natural theology—partly a response to the rise of mechanical philosophy—was also an important impetus for the growth of natural history (though it also further entrenched the argument from design).

In the 18th century many fields of science—including botany, zoology, and geology—began to professionalize, forming the precursors of scientific disciplines in the modern sense (though the process would not be complete until the late 1800s). Lavoisier and other physical scientists began to connect the animate and inanimate worlds through the techniques and theory of physics and chemistry. Into the 19th century, explorer-naturalists such as Alexander von Humboldt tried to elucidate the interactions between organisms and their environment, and the ways these relationships depend on geography—creating the foundations for biogeography, ecology and ethology. Many naturalists began to reject essentialism and seriously consider the possibilities of extinction and the mutability of species. These developments, as well as the results of new fields such as embryology and paleontology, were synthesized in Darwin's theory of evolution by natural selection. The end of the 19th century saw debates over spontaneous generation and the rise of the germ theory of disease and the fields of cytology, bacteriology and physiological chemistry, though the problem of inheritance was still a mystery.

In the early 20th century, the rediscovery of Mendel's work led to the rapid development of genetics by Thomas Hunt Morgan and his students, and by the 1930s the combination of population genetics and natural selection led to the "neo-Darwinian synthesis" and the rise of the discipline of evolutionary biology. New biological disciplines developed rapidly, especially after Watson and Crick discovered the structure of DNA in 1953. Following the cracking of the genetic code and the establishment of the Central Dogma, biology has largely split between organismal biology—consisting of ecology, ethology, systematics, paleontology, evolutionary biology, developmental biology, and other disciplines that deal with whole organisms or groups of organisms—and the constellation of disciplines related to molecular biology—including cell biology, biophysics, biochemistry, neuroscience, immunology, and many other overlapping subjects. By the beginning of the 21st century, this schism had begun to heal. Organismal biologists increasingly turned to molecular techniques and styles of thought, and molecular and cell biologists increasingly focused on the interplay between genes and the natural environment, as well as the genetic heterogeneity of natural populations such as humans.

See also

Main lists: List of biology topics, List of basic biology topics and List of biologists

Topics related to biology (Category)
People and history	Biologist - Notable biologists - History of biology - Nobel Prize in Physiology or Medicine - Timeline of biology and organic chemistry - List of geneticists and biochemists
Institutions, publications	NASA Ames Research Center - Bachelor of Science - Publications
Terms and phrases	Omne vivum ex ovo - In vivo - In vitro - In utero - In silico
Related disciplines	Medicine (Physician) - Physical anthropology - Environmental science - Life Sciences - Biotechnology
Other	List of conservation topics

Further reading

• Lynn Margulis, Five Kingdoms: An Illustrated Guide to the Phyla of Life on Earth, 3rd ed., St. Martin's Press, 1997, paperback, ISBN 0-8050-7252-7 (many other editions)
• Neil Campbell, Biology (7th edition), Benjamin-Cummings Publishing Company, 2004, hardcover, ISBN 0-8053-7146-X
• Johnson George B. 2005 "Biology, Visualizing Life." Holt, Rinehart, and Winston. ISBN 0-03-016723-X

External links

• The Dolan DNA Learning Center: The source for timely information about your life
• PhyloCode, http://www.ohiou.edu/phylocode/index.html
• The Tree of Life: A multi-authored, distributed Internet project containing information about phylogeny and biodiversity.
• MIT video lecture series on biology
• [1] A wiki site for protocol sharing run from MIT

Journal links

• PLos Biology A peer-reviewed, open-access journal published by the Public Library of Science
• International Journal of Biological Sciences A biological journal publishes peer-reviewed scientific papers of significance
• Perspectives in Biology and Medicine