Microbiology (from Greek μῑκρος, mīkros, "small"; βίος, bios, "life"; and -λογία, -logia) is the study of microorganisms, those being unicellular (single cell), multicellular (cell colony), or acellular (lacking cells). Microbiology encompasses numerous sub-disciplines including virology, bacteriology, protistology, mycology, immunology and parasitology.
Eukaryotic microorganisms possess membrane-bound organelles and include fungi and protists, whereas prokaryotic organisms—all of which are microorganisms—are conventionally classified as lacking membrane-bound organelles and include Bacteria and Archaea. Microbiologists traditionally relied on culture, staining, and microscopy. However, less than 1% of the microorganisms present in common environments can be cultured in isolation using current means. Microbiologists often rely on molecular biology tools such as DNA sequence based identification, for example the 16S rRNA gene sequence used for bacteria identification.
Viruses have been variably classified as organisms, as they have been considered either as very simple microorganisms or very complex molecules. Prions, never considered as microorganisms, have been investigated by virologists, however, as the clinical effects traced to them were originally presumed due to chronic viral infections, and virologists took search—discovering "infectious proteins".
The existence of microorganisms was predicted many centuries before they were first observed, for example by the Jains in India and by Marcus Terentius Varro in ancient Rome. The first recorded microscope observation was of the fruiting bodies of moulds, by Robert Hooke in 1666, but the Jesuit priest Athanasius Kircher was likely the first to see microbes, which he mentioned observing in milk and putrid material in 1658. Antonie van Leeuwenhoek is considered a father of microbiology as he observed and experimented with microscopic organisms in the 1670s, using simple microscopes of his own design. Scientific microbiology developed in the 19th century through the work of Louis Pasteur and in medical microbiology Robert Koch.
My work, which I've done for a long time, was not pursued in order to gain the praise I now enjoy, but chiefly from a craving after knowledge, which I notice resides in me more than in most other men. And therewithal, whenever I found out anything remarkable, I have thought it my duty to put down my discovery on paper, so that all ingenious people might be informed thereof.
Antony van Leeuwenhoek remains one of the most imperfectly understood figures in the origins of experimental biology. The popular view is that Leeuwenhoek worked in a manner that was essentially crude and undisciplined, using untried methods of investigation that were lacking in refinement and objectivity. He has often been designated as a 'dilettante.' His microscopes, furthermore, have been described as primitive and doubt has been expressed over his ability to have made many of the observations attributed to him. Recent research shows these views to be erroneous. His work was carried out conscientiously, and the observations were recorded with painstaking diligence. Though we may see evidence of his globulist understanding of organic matter (and indeed, this view has frequently been cited as evidence of his observational inadequacies), this minor preoccupation cannot detract from two firm principles that underlie his work: (a) a clear ability to construct experimental procedures which were, for their time, rational and repeatable, and (b) a willingness both to fly in the face of received opinion – for example, over the question of spontaneous generation – and to abandon a previously held belief in the light of new evidence. In his method of analysing a problem, Leeuwenhoek was able to lay many of the ground rules of experimentation and did much to found, not only the science of microscopy, but also the philosophy of biological experimentation.
The existence of microorganisms was hypothesized for many centuries before their actual discovery. The existence of unseen microbiological life was postulated by Jainism which is based on Mahavira’s teachings as early as 6th century BCE. Paul Dundas notes that Mahavira asserted the existence of unseen microbiological creatures living in earth, water, air and fire. Jain scriptures describe nigodas which are sub-microscopic creatures living in large clusters and having a very short life, said to pervade every part of the universe, even in tissues of plants and flesh of animals. The Roman Marcus Terentius Varro made references to microbes when he warned against locating a homestead in the vicinity of swamps "because there are bred certain minute creatures which cannot be seen by the eyes, which float in the air and enter the body through the mouth and nose and thereby cause serious diseases."
In the golden age of Islamic civilization, Persian scientists hypothesized the existence of microorganisms, such as Avicenna in his book The Canon of Medicine, Ibn Zuhr (also known as Avenzoar) who discovered scabies mites, and Al-Razi who gave the earliest known description of smallpox in his book The Virtuous Life (al-Hawi).
Leeuwenhoek is universally acknowledged as the father of microbiology. He discovered both protists and bacteria. More than being the first to see this unimagined world of ‘animalcules', he was the first even to think of looking—certainly, the first with the power to see. Using his own deceptively simple, single-lensed microscopes, he did not merely observe, but conducted ingenious experiments, exploring and manipulating his microscopic universe with a curiosity that belied his lack of a map or bearings. Leeuwenhoek was a pioneer, a scientist of the highest calibre, yet his reputation suffered at the hands of those who envied his fame or scorned his unschooled origins, as well as through his own mistrustful secrecy of his methods, which opened a world that others could not comprehend.
In 1676, Antonie van Leeuwenhoek, who lived most of his life in Delft, Holland, observed bacteria and other microorganisms using a single-lens microscope of his own design. He is considered a father of microbiology as he pioneered the use of simple single-lensed microscopes of his own design. While Van Leeuwenhoek is often cited as the first to observe microbes, Robert Hooke made his first recorded microscopic observation, of the fruiting bodies of moulds, in 1665. It has, however, been suggested that a Jesuit priest called Athanasius Kircher was the first to observe microorganisms.
Kircher was among the first to design magic lanterns for projection purposes, so he must have been well acquainted with the properties of lenses. He wrote "Concerning the wonderful structure of things in nature, investigated by Microscope" in 1646, stating "who would believe that vinegar and milk abound with an innumerable multitude of worms." He also noted that putrid material is full of innumerable creeping animalcules. He published his Scrutinium Pestis (Examination of the Plague) in 1658, stating correctly that the disease was caused by microbes, though what he saw was most likely red or white blood cells rather than the plague agent itself.
The birth of bacteriology
The field of bacteriology (later a subdiscipline of microbiology) was founded in the 19th century by Ferdinand Cohn, a botanist whose studies on algae and photosynthetic bacteria led him to describe several bacteria including Bacillus and Beggiatoa. Cohn was also the first to formulate a scheme for the taxonomic classification of bacteria, and to discover endospores. Louis Pasteur and Robert Koch were contemporaries of Cohn, and are often considered to be the fathers of modern microbiology and medical microbiology, respectively. Pasteur is most famous for his series of experiments designed to disprove the then widely held theory of spontaneous generation, thereby solidifying microbiology's identity as a biological science. One of his students, Adrien Certes, is considered the founder of marine microbiology. Pasteur also designed methods for food preservation (pasteurization) and vaccines against several diseases such as anthrax, fowl cholera and rabies. Koch is best known for his contributions to the germ theory of disease, proving that specific diseases were caused by specific pathogenic microorganisms. He developed a series of criteria that have become known as the Koch's postulates. Koch was one of the first scientists to focus on the isolation of bacteria in pure culture resulting in his description of several novel bacteria including Mycobacterium tuberculosis, the causative agent of tuberculosis.
While Pasteur and Koch are often considered the founders of microbiology, their work did not accurately reflect the true diversity of the microbial world because of their exclusive focus on microorganisms having direct medical relevance. It was not until the late 19th century and the work of Martinus Beijerinck and Sergei Winogradsky that the true breadth of microbiology was revealed. Beijerinck made two major contributions to microbiology: the discovery of viruses and the development of enrichment culture techniques. While his work on the tobacco mosaic virus established the basic principles of virology, it was his development of enrichment culturing that had the most immediate impact on microbiology by allowing for the cultivation of a wide range of microbes with wildly different physiologies. Winogradsky was the first to develop the concept of chemolithotrophy and to thereby reveal the essential role played by microorganisms in geochemical processes. He was responsible for the first isolation and description of both nitrifying and nitrogen-fixing bacteria. French-Canadian microbiologist Felix d'Herelle co-discovered bacteriophages in 1917 and was one of the earliest applied microbiologists.
The branches of microbiology can be classified into applied sciences, or divided according to taxonomy, as is the case with bacteriology, mycology, protozoology, virology, phycology, and microbial ecology. There is considerable overlap between the specific branches of microbiology with each other and with other disciplines, and certain aspects of these branches can extend beyond the traditional scope of microbiology A pure research branch of microbiology is termed cellular microbiology.
While some fear microbes due to the association of some microbes with various human diseases, many microbes are also responsible for numerous beneficial processes such as industrial fermentation (e.g. the production of alcohol, vinegar and dairy products), antibiotic production and act as molecular vehicles to transfer DNA to complex organisms such as plants and animals. Scientists have also exploited their knowledge of microbes to produce biotechnologically important enzymes such as Taq polymerase, reporter genes for use in other genetic systems and novel molecular biology techniques such as the yeast two-hybrid system.
Bacteria can be used for the industrial production of amino acids. Corynebacterium glutamicum is one of the most important bacterial species with an annual production of more than two million tons of amino acids, mainly L-glutamate and L-lysine. Since some bacteria have the ability to synthesize antibiotics, they are used for medicinal purposes, such as Streptomyces to make aminoglycoside antibiotics.
A variety of biopolymers, such as polysaccharides, polyesters, and polyamides, are produced by microorganisms. Microorganisms are used for the biotechnological production of biopolymers with tailored properties suitable for high-value medical application such as tissue engineering and drug delivery. Microorganisms are for example used for the biosynthesis of xanthan, alginate, cellulose, cyanophycin, poly(gamma-glutamic acid), levan, hyaluronic acid, organic acids, oligosaccharides polysaccharide and polyhydroxyalkanoates.
Microorganisms are beneficial for microbial biodegradation or bioremediation of domestic, agricultural and industrial wastes and subsurface pollution in soils, sediments and marine environments. The ability of each microorganism to degrade toxic waste depends on the nature of each contaminant. Since sites typically have multiple pollutant types, the most effective approach to microbial biodegradation is to use a mixture of bacterial and fungal species and strains, each specific to the biodegradation of one or more types of contaminants.
Symbiotic microbial communities confer benefits to their human and animal hosts health including aiding digestion, producing beneficial vitamins and amino acids, and suppressing pathogenic microbes. Some benefit may be conferred by eating fermented foods, probiotics (bacteria potentially beneficial to the digestive system) or prebiotics (substances consumed to promote the growth of probiotic microorganisms). The ways the microbiome influences human and animal health, as well as methods to influence the microbiome are active areas of research.
Research has suggested that microorganisms could be useful in the treatment of cancer. Various strains of non-pathogenic clostridia can infiltrate and replicate within solid tumors. Clostridial vectors can be safely administered and their potential to deliver therapeutic proteins has been demonstrated in a variety of preclinical models.
- Professional organizations
- American Society for Microbiology
- Federation of European Microbiological Societies
- Society for Applied Microbiology
- Society for General Microbiology
- "Microbiology - Latest research and news | Nature". www.nature.com. Retrieved 2020-02-01.
- Madigan M, Martinko J (editors) (2006). Brock Biology of Microorganisms (13th ed.). Pearson Education. p. 1096. ISBN 978-0-321-73551-5.CS1 maint: extra text: authors list (link)
- Whitman, Whilliam B (2015). Whitman, William B; Rainey, Fred; Kämpfer, Peter; Trujillo, Martha; Chun, Jonsik; Devos, Paul; Hedlund, Brian; Dedysh, Svetlana (eds.). Bergey's Manual of Systematics of Archaea and Bacteria. John Wiley and Sons. CiteSeerX 10.1.1.737.4970. doi:10.1002/9781118960608. ISBN 9781118960608.
- Pace, Norman R. (2006). "Time for a change". Nature. 441 (7091): 289. Bibcode:2006Natur.441..289P. doi:10.1038/441289a. ISSN 0028-0836. PMID 16710401. S2CID 4431143.
- Nitesh RA, Ludwig W, Schleifer KH (2011). "Phylogenetic identification and in situ detection of individual microbial cells without cultivation". Microbiological Reviews. 59 (1): 143–169. PMC 239358. PMID 7535888.
- Rice G (2007-03-27). "Are Viruses Alive?". Retrieved 2007-07-23.
- Kelly, Kate: The Scientific Revolution and Medicine: 1450–1700. (Facts on File, 2009, ISBN 978-0816072071, p. 81)
- Lane, Nick (6 March 2015). "The Unseen World: Reflections on Leeuwenhoek (1677) 'Concerning Little Animal'". Philos Trans R Soc Lond B Biol Sci. 370 (1666): 20140344. doi:10.1098/rstb.2014.0344. PMC 4360124. PMID 25750239.
- Ford, Brian J. (1992). "From Dilettante to Diligent Experimenter: a Reappraisal of Leeuwenhoek as microscopist and investigator". Biology History. 5 (3).
- Mahavira is dated 599 BC - 527 BC. See Dundas, Paul; John Hinnels ed. (2002). The Jain. London: Routledge. ISBN 978-0-415-26606-2.CS1 maint: extra text: authors list (link) p. 24
- Dundas, Paul (2002) p. 88
- Jaini, Padmanabh (1998). The Jaina Path of Purification. New Delhi: Motilal Banarsidass. p. 109. ISBN 978-81-208-1578-0.
- Marcus Terentius Varro. Varro on Agriculture 1, xii Loeb.
- "فى الحضارة الإسلامية - ديوان العرب" [Microbiology in Islam]. Diwanalarab.com (in Arabic). Retrieved 14 April 2017.
- Fracastoro, Girolamo (1546), De Contagione et Contagiosis Morbis transl. Wilmer Cave Wright (1930). New York: G.P. Putnam's
- Dobell, Clifford (1932). Antony van Leeuwenhoek and His "Little Animals": being some account of the father of protozoology and bacteriology and his multifarious discoveries in these disciplines (Dover Publications ed.). New York: Harcourt, Brace and Company.
- Corliss, John O (1975). "Three Centuries of Protozoology: A Brief Tribute to its Founding Father, A. van Leeuwenhoek of Delft". The Journal of Protozoology. 22 (1): 3–7. doi:10.1111/j.1550-7408.1975.tb00934.x. PMID 1090737.
- Toledo-Pereyra, Luis H.: The Strange Little Animals of Antony van Leeuwenhoek — Surgical Revolution, in Surgical Revolutions: A Historical and Philosophical View. (World Scientific Publishing, 2008, ISBN 978-9814329620)
- Chung, King-thom; Liu, Jong-kang: Pioneers in Microbiology: The Human Side of Science. (World Scientific Publishing, 2017, ISBN 978-9813202948). "We may fairly call Leeuwenhoek “The first microbiologist” because he was the first individual to actually culture, see, and describe a large array of microbial life. He actually measured the multiplication of the bugs. What is more amazing is that he published his discoveries."
- Bennett, J.W. (1996). Martinus Willem Beijerinck: Dutch father of industrial microbiology. (SIM News 46(2):69–72)
- Gest H (2005). "The remarkable vision of Robert Hooke (1635-1703): first observer of the microbial world". Perspect. Biol. Med. 48 (2): 266–72. doi:10.1353/pbm.2005.0053. PMID 15834198. S2CID 23998841.
- Wainwright, Milton (2003). An Alternative View of the Early History of Microbiology. Advances in Applied Microbiology. 52. pp. 333–55. doi:10.1016/S0065-2164(03)01013-X. ISBN 978-0-12-002654-8. PMID 12964250.
- Drews, G. (1999). "Ferdinand Cohn, among the Founder of Microbiology". ASM News. 65 (8): 547.
- Ryan, K.J.; Ray, C.G., eds. (2004). Sherris Medical Microbiology (4th ed.). McGraw Hill. ISBN 978-0-8385-8529-0.
- Bordenave, G. (2003). "Louis Pasteur (1822-1895)". Microbes Infect. 5 (6): 553–60. doi:10.1016/S1286-4579(03)00075-3. PMID 12758285.
- Adler, Antony; Dücker, Erik (2017-04-05). "When Pasteurian Science Went to Sea: The Birth of Marine Microbiology". Journal of the History of Biology. 51 (1): 107–133. doi:10.1007/s10739-017-9477-8. PMID 28382585. S2CID 22211340.
- Johnson, J. (2001) . "Martinus Willem Beijerinck". APSnet. American Phytopathological Society. Archived from the original on 2010-06-20. Retrieved May 2, 2010. Retrieved from Internet Archive January 12, 2014.
- Paustian T, Roberts G (2009). "Beijerinck and Winogradsky Initiate the Field of Environmental Microbiology". Through the Microscope: A Look at All Things Small (3rd ed.). Textbook Consortia. § 1–14.
- Keen, E.C. (2012). "Felix d'Herelle and Our Microbial Future". Future Microbiology. 7 (12): 1337–1339. doi:10.2217/fmb.12.115. PMID 23231482.
- Lister, Joseph (2010-08-01). "The Classic: On the Antiseptic Principle in the Practice of Surgery". Clinical Orthopaedics and Related Research. 468 (8): 2012–2016. doi:10.1007/s11999-010-1320-x. PMC 2895849. PMID 20361283.
- "Branches of Microbiology". General MicroScience. 2017-01-13. Retrieved 2017-12-10.
- Brock Biology of Microorganisms (14th ed.). ISBN 978-0321897398.
- Gelfand, David H. (1989). "Taq DNA Polymerase". In Erlich, Henry A. (ed.). PCR Technology. PCR Technology: Principles and Applications for DNA Amplification. Palgrave Macmillan UK. pp. 17–22. doi:10.1007/978-1-349-20235-5_2. ISBN 978-1-349-20235-5.
- Burkovski A (editor). (2008). Corynebacteria: Genomics and Molecular Biology. Caister Academic Press. ISBN 978-1-904455-30-1. Retrieved 2016-03-25.
- Fourmy, Dominique; Recht, Michael I.; Blanchard, Scott C; Puglisi, Joseph D. (1996). "Structure of the A site of Escherichia coli 16S ribosomal RNA complexed with an Aminoglycoside Antibiotic" (PDF). Science. 274 (5291): 1367–1371. Bibcode:1996Sci...274.1367F. doi:10.1126/science.274.5291.1367. PMID 8910275. S2CID 21602792. Retrieved 2016-04-05.
- Rehm BHA (editor). (2008). Microbial Production of Biopolymers and Polymer Precursors: Applications and Perspectives. Caister Academic Press. ISBN 978-1-904455-36-3. Retrieved 2016-03-25.
- Diaz E (editor). (2008). Microbial Biodegradation: Genomics and Molecular Biology (1st ed.). Caister Academic Press. ISBN 978-1-904455-17-2. Retrieved 2016-03-25.
- MacFarlane, GT; Cummings, JH (1999). "Probiotics and prebiotics: Can regulating the activities of intestinal bacteria benefit health?". BMJ: British Medical Journal. 318 (7189): 999–1003. doi:10.1136/bmj.318.7189.999. PMC 1115424. PMID 10195977.
- Tannock GW, ed. (2005). Probiotics and Prebiotics: Scientific Aspects. Caister Academic Press. ISBN 978-1-904455-01-1. Retrieved 2016-03-25.
- Wenner, Melinda (30 November 2007). "Humans Carry More Bacterial Cells than Human Ones". Scientific American. Retrieved 14 April 2017.
- Mengesha; et al. (2009). "Clostridia in Anti-tumor Therapy". Clostridia: Molecular Biology in the Post-genomic Era. Caister Academic Press. ISBN 978-1-904455-38-7.
- Zusman, David R.; Scott, Ansley E.; Yang, Zhaomin; Kirby, John R. (November 2007). "Chemosensory pathways, motility and development in Myxococcus xanthus". Nature Reviews Microbiology. 5 (11): 862–872. doi:10.1038/nrmicro1770. ISSN 1740-1534.
- Islam, Salim T.; Alvarez, Israel Vergara; Saïdi, Fares; Guiseppi, Annick; Vinogradov, Evgeny; Sharma, Gaurav; Espinosa, Leon; Morrone, Castrese; Brasseur, Gael; Guillemot, Jean-François; Benarouche, Anaïs (2020-06-09). "Modulation of bacterial multicellularity via spatio-specific polysaccharide secretion". PLOS Biology. 18 (6): e3000728. doi:10.1371/journal.pbio.3000728. ISSN 1545-7885. PMC 7310880. PMID 32516311.
- Kreft, J.-U.; Plugge, C. M.; Grimm, V.; Prats, C.; Leveau, J. H. J. «Mighty small: Observing and modeling individual microbes becomes big science» Proceedings of the National Academy of Sciences, 110, 45, 05-11-2013, pàg. 18027–18028. DOI: 10.1073/pnas.1317472110. ISSN: 0027-8424. PMC: PMC3831448. PMID: 24194530.
- Madigan M.T., Martinko J.M., Dunlap P-V., Clark D.P. 2009. Brock. Biología de los microorganismos. Pearson Educación, Madrid, pp. 1296
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