Mikroskobun keşfi, mikroorganizmaların varlığını ortaya çıkartmıştır. Bu küçük canlıların, diğer canlılarda hastalık yaptığı tespiti yapıldıktan sonra, mikroorganizmalara ilgi daha da çok artmıştır ve araştırmalar hız kazanmıştır. Yeni canlı keşifleri ile klasifikasyon hız kazanmıştır ve belirlenen sistematik sürekli değişir hale gelmiştir. Teknolojinin ilerlemesi ile bu canlılar hakkında daha ayrıntılı bilgiler elde edilmiştir. Ve böylece bu canlıların sistematikteki yerleri daha belirgin hale gelmiştir.
* A. van Leeuwenhoek: Mikropları ilk bulan, hareketlerini izleyen ve şekillerini çizen bilim adamı. * Carl von Linne: İsveçli bir botanist. Bakterileri kendi yaptığı sınıflandırmaya dahil etmiş ve ilk defa binomial sistemde klasifikasyona çalışmıştır. “Species Plantarum ve Systema Naturea” eserlerinde binomial sisteme önem vermiştir. Hazırladığı sisteme göre mikroorganizma iki bilimsel adla belirtilmektedir. Biri cins(genus), diğeri ise tür(species) dir. * Otto Frederich Müller: Mikroorganizmaları sınıflandırmaya çalışmış ve kendi sistemematiğinde bakteri içeren iki cinse yer vermiştir. 1-Monas: Yuvarlar ve Oval olan bakterilere verdiği isim 2-Vibrio: Uzun formlu bakterilere verdiği isim. * C.G. Ehrenberg: Sınıflandırmayı biraz daha genişletmiştir. Klasifikasyon içine bakteriler dışında protozoaları da dahil etmiştir. Mikroorganizmaları 4 cins olarak tanımlamıştır. (Bacterium, Spirillum, Spirochaeta, Spiroduscus) * E.H. Haekel: (1886) Tek hücreli canlıları, hayvan ve bitkilerden ayırmak için, bunları Protista adı verdiği gruba dahil etmiştir. * F. Cohn: (1872) Mikroorganizmaların morfolojik karakterlerini gözönüne alarak yeni bir klasifikasyon yapmıştır. Bu sınıflandırmada sporlu mikroplara da yer vermiştir. * Migula: (1897) Mikroorganizmaları morfolojileri dışında, renk ve bazı fizyolojik karakterlerini gözönüne alarak yeni bir klasifikasyon yapmıştır. Bu geliştirdiği sistemi “System of the Bacteria” adı altında yayınlamıştır. Aynı yıllarda Lehmann ve Neumann “Atlas for the diagnostic bacteriology” adlı bir eser de yayınlamıştır.(1886) * D.F. Chester: (1899 - 1901) Chester bu yıllarda “Manual of Determinative Bacteriology” adlı eseri yayınlamıştır. Yayınladığı bu eser Society of American Bacteriologists kurumuna önderlik etmeştir. * Orla-Jensen: (1909) Bakterilerin fizyolojik özelliklerini baz alan bir sistematik hazırlamıştır. * Buchanan: (1917) Bakterileri modern olarak ilk sistematize eden bilim adamıdır. Schizomycetes sınıfını 6 takıma ayırmayı teklif etmiştir. 1923’de Society of American Bacteriologists tarafından “Manual of Determinative Bacteriology” yayınlanmıştır. Bu kitabı hazırlayan komitenin başına D.H Bergey getirilmiştir. Bu eser daha sonra geliştirilerek yeni baskıları oluşturulmuştur.
Klasifikasyonun tarihinden biraz bahsettikten sonra, bunlar baz alınarak bazı sınıflandırılma teknikleri ortaya çıkartılmıştır. En önemlileri şunlardır:
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