Talk:Bacteria

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Number of Species suggestion[edit]

This was originally written for the Species page, but was only added in a very abreviated form. I would like to propose inserting it into this article, following the "Classification and identification" section.


Number of Species[edit]

Total number of bacterial species (estimated): 5–10[1], or even 1,000 million[2] (identified and unidentified) bacteria worldwide.

Of the 6,000 to 170,000 identified prokaryotic species there are:

  • 16,000 prokaryotic species "seen by science", based on the number of different 98% unique 16S_ribosomal_RNA sequences in databases as of 2004[2]. This analysis was based on a total of 56,215 16S rRNA gene sequences, the total number of 16S rRNA gene sequences in 2010 was 1,483,016, almost 30 times as many[3].
  • 6,728 bacteria Type_strains that are fully described, currently stored in culture collections, and with a sequenced 16S_ribosomal_RNA gene (as of 2008)[4].
  • 165,676 bacteria species with some genetic sequence known (of which 10,045 were in Microbiological_culture)), as of 2011[5]
  • 4,794 Archaea species with some genetic sequence known (of which 395 were in Microbiological_culture)), as of 2011[5]


Rationale[edit]

Here is my reasoning for the above values:

This paper: The All-Species Living Tree project. Yarza et al. 20008 http://www.ncbi.nlm.nih.gov/pubmed/18692976 [4] provides a lower-bound estimate of 6728, since the Type Species they are describing are a subset of named species, almost all of which have been grown in pure culture and are in collections (see article).

While the estimates of 5–10 million bacteria are still current, and probably better supported (as pointed out elsewhere, the species concept is even more difficult for these organisms) the paper listed below [2] cites a range from 10^7 to 10^9 (10 to 1,000 million) for the estimated number of species on the planet.

There is also published estimates of 35,498 total species richness, based on the 16,000 species that have been "seen by science". This latter value is based on the number of different 16S_ribosomal_RNA or RRNA genes (also see Molecular_phylogenetics) that are 98% or more divergent as described in this paper: Status of the Microbial Census. Schloss and Handelsman. 2004 http://www.ncbi.nlm.nih.gov/pubmed/15590780 [2]. However, the data they were basing their estimate on was much less than is in current databases, so I referenced release 10 to the RDP for a current number.

I've included values from the NCBI GenBank database's Taxonomy section since it is current, and the repository for all sequences. NCBI also has a taxonomic identifier for each sequence. [5]

References[edit]

  1. ^ Sogin ML, Morrison HG, Huber JA; et al. (2006). "Microbial diversity in the deep sea and the underexplored "rare biosphere"". Proc. Natl. Acad. Sci. U.S.A. 103 (32): 12115–20. doi:10.1073/pnas.0605127103. PMC 1524930Freely accessible. PMID 16880384.  Unknown parameter |month= ignored (help)Cheung L (Monday, 31 July 200). "Thousands of microbes in one gulp". BBC.  Check date values in: |date= (help)
  2. ^ a b c d Schloss, P. D.; Handelsman, J (2004). "Status of the microbial census". Microbiology and molecular biology reviews : MMBR. 68 (4): 686–91. doi:10.1128/MMBR.68.4.686-691.2004. PMC 539005Freely accessible. PMID 15590780. 
  3. ^ Cole, J. R.; Wang, Q.; Cardenas, E.; Fish, J.; Chai, B.; Farris, R. J.; Kulam-Syed-Mohideen, A. S.; McGarrell, D. M.; Marsh, T.; Garrity, G. M.; Tiedje, J. M. (2009). "The Ribosomal Database Project: Improved alignments and new tools for rRNA analysis". Nucleic Acids Research. 37 (Database issue): D141–D145. doi:10.1093/nar/gkn879. PMC 2686447Freely accessible. PMID 19004872. 
  4. ^ a b Yarza, P.; Richter, M.; Peplies, J. R.; Euzeby, J.; Amann, R.; Schleifer, K. H.; Ludwig, W.; Glöckner, F. O.; Rosselló-Móra, R. (2008). "The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains". Systematic and Applied Microbiology. 31 (4): 241–250. doi:10.1016/j.syapm.2008.07.001. PMID 18692976. 
  5. ^ a b c "NCBI taxonomy tool". NCBI, NIH. Retrieved 2011-01-08. 

Metabolism Section -- Table[edit]

The table in the metabolism section list three energy sources: phototrophs, lithotroph, and organotroph. Technically, this is not correct, as lithotroph and organotroph refer to source of reducing equivalents. Lithotrophs can be photolithotrophs or chemolithotrophs. ~~Glucono — Preceding unsigned comment added by 50.149.237.104 (talk) 12:33, 18 April 2015 (UTC)

Semi-protected edit request on 13 July 2015[edit]

Please add to the "Further reading section" the following reference: Ogunseitan, O.A. (2005) Microbial Diversity: Form and Function in Prokaryotes. 312 pages. Wiley-Blackwell. ISBN: 978-1-4051-4448-3.

Plebeiansix (talk) 18:19, 13 July 2015 (UTC)

Yes check.svg Done Sorry about the not done earlier. I was mistaken. I will add it in now.

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Number of bacteria in human flora[edit]

The oft-quoted factoid that bacterial cells in the human flora outnumber the human cells ten to one has been revisited and is at least worthy of more scrutiny, and hence, more careful phrasing.
Research here by Milo et al. January 2016 — Preceding unsigned comment added by 92.110.88.179 (talk) 15:00, 24 April 2016 (UTC)

Tag[edit]

I have tagged the article with a lead too long tag. My edit conforms to WP:LEADLENGTH and should not be reverted without providing a good reason. Also, at the time the article got promoted to FA‐status, the lead was shorter then it is now. —MartinZ02 (talk) 13:52, 19 July 2016 (UTC)

Antibiotics use in developing countries in Introduction[edit]

Antibiotics are used throughout the world, not just in the developing world. Could the introduction be changed to represent this? Indeed resistance to certain antimicrobials was actually found in the developing world first. Medications for malaria and Tb spring to mind.

78.32.155.242 (talk) 16:44, 22 October 2016 (UTC)

Needs a definition[edit]

Lots said here about bacteria, but no definition is given. There must be one implicit in the categorization of life forms. Needs to be made explicit.

Norm — Preceding unsigned comment added by 73.150.193.141 (talk) 02:31, 30 March 2017 (UTC)

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