Microbial Source Tracking

A microorganism, or microbe,, ''mikros'', "small") and ''organism'' from the el, ὀργανισμός, ''organismós'', "organism"). It is usually written as a single word but is sometimes hyphenated (''micro-organism''), especially in older texts. The informal synonym ''microbe'' () comes from μικρός, mikrós, "small" and βίος, bíos, "life". is an organism of microscopic size, which may exist in its single-celled form or as a colony of cells.

The possible existence of unseen microbial life was suspected from ancient times, such as in Jain scriptures from sixth century BC India. The scientific study of microorganisms began with their observation under the microscope in the 1670s by Anton van Leeuwenhoek. In the 1850s, Louis Pasteur found that microorganisms caused food spoilage, debunking the theory of spontaneous generation. In the 1880s, Robert Koch discovered that microorganisms caused the diseases tuberculosis, cholera, diphtheria, and anthrax.

Because microorganisms include most unicellular organisms from all three domains of life they can be extremely diverse. Two of the three domains, Archaea and Bacteria, only contain microorganisms. The third domain Eukaryota includes all multicellular organisms as well as many unicellular protists and protozoans that are microbes. Some protists are related to animals and some to green plants. There are also many multicellular organisms that are microscopic, namely micro-animals, some fungi, and some algae, but these are generally not considered microorganisms.

Microorganisms can have very different habitats, and live everywhere from the poles to the equator, deserts, geysers, rocks, and the deep sea. Some are adapted to extremes such as very hot or very cold conditions, others to high pressure, and a few, such as ''Deinococcus radiodurans'', to high radiation environments. Microorganisms also make up the microbiota found in and on all multicellular organisms. There is evidence that 3.45-billion-year-old Australian rocks once contained microorganisms, the earliest direct evidence of life on Earth.

Microbes are important in human culture and health in many ways, serving to ferment foods and treat sewage, and to produce fuel, enzymes, and other bioactive compounds. Microbes are essential tools in biology as model organisms and have been put to use in biological warfare and bioterrorism. Microbes are a vital component of fertile soil. In the human body, microorganisms make up the human microbiota, including the essential gut flora. The pathogens responsible for many infectious diseases are microbes and, as such, are the target of hygiene measures.

Discovery

Ancient precursors

The possible existence of microscopic organisms was discussed for many centuries before their discovery in the seventeenth century. By the sixth century BC, the Jains of present-day India postulated the existence of tiny organisms called nigodas. These nigodas are said to be born in clusters; they live everywhere, including the bodies of plants, animals, and people; and their life lasts only for a fraction of a second. According to the Jain leader Mahavira, the humans destroy these nigodas on a massive scale, when they eat, breathe, sit, and move. Many modern Jains assert that Mahavira's teachings presage the existence of microorganisms as discovered by modern science.

The earliest mention of micro organisms is found in hindu scriptures like the Atharvaveda, compiled 1200 BCE-1000 BCE, where Rishi Kanva refers to the microbes as Kirmis. He, along with his descendants Yamadagnni and Agasti, composed mantra suktas which highlight microbial infections and possible ways to cure them.

Rishi Agastya composed a mantra in Rig Veda which refers to two types of harmful creatures for ones body. The first being visible and second being so minuscule that they are invisible to the naked eyes.

The Shanti Parva of Ved Vyas Mahabharata mentions organisms that are so minuscule that they can't be seen with naked eyes but only inferred.

The earliest known idea to indicate the possibility of diseases spreading by yet unseen organisms was that of the Roman scholar Marcus Terentius Varro in a first-century BC book entitled ''On Agriculture'' in which he called the unseen creatures animalcules, and warns against locating a homestead near a swamp:''Varro on Agriculture'' 1, xii Loeb

In ''The Canon of Medicine'' (1020), Avicenna suggested that tuberculosis and other diseases might be contagious.

Early modern

Akshamsaddin (Turkish scientist) mentioned the microbe in his work ''Maddat ul-Hayat'' (The Material of Life) about two centuries prior to Antonie van Leeuwenhoek's discovery through experimentation:

In 1546, Girolamo Fracastoro proposed that epidemic diseases were caused by transferable seedlike entities that could transmit infection by direct or indirect contact, or even without contact over long distances.

Antonie van Leeuwenhoek is considered to be one of the fathers of microbiology. He was the first in 1673 to discover and conduct scientific experiments with microorganisms, using simple single-lensed microscopes of his own design. Robert Hooke, a contemporary of Leeuwenhoek, also used microscopy to observe microbial life in the form of the fruiting bodies of moulds. In his 1665 book ''Micrographia'', he made drawings of studies, and he coined the term ''cell''.

19th century

Louis Pasteur (1822–1895) exposed boiled broths to the air, in vessels that contained a filter to prevent particles from passing through to the growth medium, and also in vessels without a filter, but with air allowed in via a curved tube so dust particles would settle and not come in contact with the broth. By boiling the broth beforehand, Pasteur ensured that no microorganisms survived within the broths at the beginning of his experiment. Nothing grew in the broths in the course of Pasteur's experiment. This meant that the living organisms that grew in such broths came from outside, as spores on dust, rather than spontaneously generated within the broth. Thus, Pasteur refuted the theory of spontaneous generation and supported the germ theory of disease.

In 1876, Robert Koch (1843–1910) established that microorganisms can cause disease. He found that the blood of cattle that were infected with anthrax always had large numbers of ''Bacillus anthracis''. Koch found that he could transmit anthrax from one animal to another by taking a small sample of blood from the infected animal and injecting it into a healthy one, and this caused the healthy animal to become sick. He also found that he could grow the bacteria in a nutrient broth, then inject it into a healthy animal, and cause illness. Based on these experiments, he devised criteria for establishing a causal link between a microorganism and a disease and these are now known as Koch's postulates

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