Ok - I'll do it. Though my Z doesn't fit that properly... 
Microorganisms you will find in 221B
Aspergillus fumigatus
Babesia (a dangerous blood parasite)
Clostridium botulinum (for scientific research only!)
Dobrava-Belgrade virus (commonly found in mice.)
E.Coli (everyone's favorite coli)
Fusarium domesticum (a fungus found in cheese)
Gulbenkiania mobilis (isolated from treated municipal wastewater)
Hydrogenophaga palleroni (a new genus of hydrogen-oxidising bacteria)
Idiomarina loihiensis (survives in extreme environment, e.g. the deep sea - perfect for 221B as well)
Japanese encephalitis virus (can be found in birds and pigs; transmission to humans through mosquitos in Asia)
Kurthia zopfii (can be found in meat and meat products, air, soil, animal dung, water, and milk)
Lactobacillus acidophilus (a good sign the household is still intact)
Micrococcus luteus (is found in soil, dust, water and air)
Natronomonas pharaonis ( a survivor)
O'nyong'nyong virus (Ugandan virus, weakens the joints)
Prolixibacter bellariivorans (Holmes et al. 2007)
Q fever causing Coxiella burnetii and Quadrisphaera granulorum from a laboratory-scale sequencing Batch Reactor.
Reichenbachiella (!) faecimaris (I never want to hear again that bacteria are boring)
Sacbrood virus (feared by Sherlock) and Streptococcus pyogenes (Strep throat, scarlet fever, rheumatic fever, ‘flesh eating’ bacterium - sounds interesting)
Turneriella parva (strains have been isolated from e.g. tap water and from the uterus of a - harpooned? - sow -)
Una virus (apologies to Mrs Stubbs)
Virus. In general.
Watson virus (Ok, not really a microorganism - it's a computer virus. "The Dr. Watson virus installs itself as a memory-resident program. It does not try to actively conceal itself. It infects files in a manner that makes disinfection impossible.") and the funny named Wigglesworthia glossinidia which lives in the gut of the tsetse fly
Xylella fastidiosa, is an important plant pathogen that causes phoney peach disease (specialist in faking, that is!)
Yersinia pestis (I've been waiting for this, it's so creepy) (notorious serial killer)
Zavarzinella formosa (an aerobic, pink-pigmented, budding and rosette-forming bacterium found in a peat bog)
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John: "Have you spoken to Mycroft, Molly, uh, anyone?"
Mrs Hudson: "They don’t matter. You do."I BELIEVE IN SERIES 5!