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GA Review

[edit]
This review is transcluded from Talk:Deep biosphere/GA1. The edit link for this section can be used to add comments to the review.

Reviewer: Jens Lallensack (talk · contribs) 15:39, 8 November 2019 (UTC)[reply]


Sounds interesting, will start soon! --Jens Lallensack (talk) 15:39, 8 November 2019 (UTC)[reply]

@RockMagnetist (DCO visiting scholar): – This is great work, I am impressed. Comments below are mainly minor issues (not all is needed to reach GA level). I hope they will help to improve the article further. Consider nominating this at FAC.

  • The subsurface accounts for about 90% of the biomass in two domains of life, Archaea and Bacteria, and 15% of the total for the biosphere. Eukarya are also found, including some multicellular life (nematodes, fungi, flatworms, rotifers, annelids and arthropods). Viruses are also present and infect the microbes. – So this info is on the entire subsurface, not only the deep biosphere? Are there numbers for the deep biosphere only?  Partly done
  • I used some sloppy wording: most of the information refers to the deep subsurface. Unfortunately, the only source that gives the most common taxa in the continental subsurface does not make it clear whether it is exclusively deep, although its introduction emphasizes the deep biosphere. I have clarified which parts refer to the deep biosphere. RockMagnetist (DCO visiting scholar) (talk) 04:35, 11 November 2019 (UTC)[reply]
  • numerous advances in technology for sample collection, field analysis, molecular science, cultivation, imaging and analysis. – The last item in the list, "analysis", is very general and "field analysis" is included? Would be more specific.  Done
  • Chikyu 1 drilling ship (figure caption) – needs the special character (ū). Also consider linking stuff like this again in the figure captions. Done
  • roll front development – can you link link/explain?  Done
  • serpentinization – as this is quite central for the article, I would explain (gloss) briefly.  Done
  • hydrogen sulfide (H2S) – I think this is a good idea to add the chemical formulae, helps with the understanding. Maybe do with the other chemical compounds mentioned in the article as well?  Partly done
  • I'm a little afraid that the text will become too cluttered if formulas are added in lists of compositions. However, maybe a middle ground would be to add formulae when they are simple and restricted to one compound (e.g., methane) but not groups like "reduced sulfur compounds". How does that sound? RockMagnetist (DCO visiting scholar) (talk) 23:36, 10 November 2019 (UTC)[reply]
  • iron oxyhydroxides – link/explain?  Done
  • However, between room temperature and 200°C, the dielectric constant decreases by half, and the water becomes less polarized, changing the solubility of biomolecules. Changes in the structures of proteins, lipids and DNA can make them more stable. – I do not understand the connection between these two sentences. What do the microbes to cope with the different solubility of biomolecules/whats the significance of this?  Done
  • Temperature is named as an important constrain for life. But are there other constrain? Is any combination of temperature and pressure possible as long as water does not boil?  Done
  • An advanced version of CORK is able to seal off multiple regions using packers – not clear to me: multiple regions of what?  Done
  • death phase follows in which almost all the cells die off – Why is this? Is this specific to subsurface bacteria? ? Maybe
  • However, laboratory estimates are several orders of magnitude greater than those that appear to sustain life underground. – Confused, where is "those" referring to?  Done
  • In rock, chemicals are mainly carried through an aquifer system that cycles all of the ocean's water every 200,000 years. – "Rock" is not only igneous rocks but all sorts of solid aggregated minerals, including sediments. Here, and in some other parts of the article, I get the impressions that sediments are excluded from the definition of "rock". Another thing: These regions under influence of the aquifer (and thus sea water) are not part of the deep biosphere given the definitions?  Done
  • depends on the rate of deposition – would name it "Sediment deposition" for clarity.  Done
  • Where it is rapid, oxygen is taken up rapidly as organic matter is consumed; where slow, oxygen can persist much deeper. – But why, because organic matter does not reach the deep subsurface?  Done
  • that serve as an energy sources – "an" too much?  Done
  • Characterized by hydrothermal circulation, they extend to about 80 million years in age. – What cycles where? A bit more explanation could be helpful.  Done
  • There is little evidence of microbe activity in older (more than 10 million year old) crust. – because the hydrothermal circulation is declining?  Done
  • The subjecting plate – possibly the "subducting" plate?  Done
  • Hotspot volcanoes also occur in the middle of oceanic plates. – Not necessarily in the middle? There are hotspots under continental crust.  Done
  • Hydrothermal fluids are cooler and less sulfides – Don't understand; "contain" missing or something?  Done
  • The "Habitats" section has little on how the habitats are exploited by organisms, and what kind of organisms they support.  Partly done
  • in the high temperature and salinity – should "the" be removed?  Done
  • "Candidatus Desulforudis audaxviator" – why in brackets, and why not all in italics as in the paper?  Done
  • I miss some information on ecosystem composition. How many species in a given ecosystem? Are there food chains? In the Candidatus Desulforudis audaxviator, they argue that this is the only species on earth that is alone in its habitat; maybe stuff like this deserves some discussion in the article. --Jens Lallensack (talk) 22:24, 10 November 2019 (UTC)  Partly done[reply]
I have added a section on ecology. It's not FA-level comprehensive, but it lays down some of the concepts. RockMagnetist (DCO visiting scholar) (talk) 17:56, 22 November 2019 (UTC)[reply]
  • I would remove the red link from the "See also", this is not how this section is used in other Wikipedia articles.  Done
  • @Jens Lallensack: Thank you for your kind remarks on this page! I'll start with the easier questions above, and move on to the others.
  • Comment from a page watcher. I am also impressed with the article. Nice work over the months. My main comment would be that the last section Diversity reads differently from the rest of the article in the sense that it is dense with unexplained latinate names, more scientific review than layperson-accessible summary. Perhaps some common names associated with the taxonomic names could help the reader make sense of what is being talked about. My guess, for instance, is that the second para is mostly about bacteria, but then Archaea is mentioned, too. Clarity might more of an FA thing than a GA thing, so feel free to think of fixing this as optional for a GA pass. --{{u|Mark viking}} {Talk} 00:21, 11 November 2019 (UTC)[reply]
  • @Mark viking: Thank you for your kind remarks. I'm not very happy with this section, but I don't know what to do about it. By its nature, this is a subject with few common names: many of the phyla were not even cultured ten years ago. I felt it necessary to add a little history, even though it adds to the thicket, because otherwise it's really hard to interpret sources from more than ten years ago. I considered adding some taxonomic trees, but I'm not sure if that would shed more light.
More fundamentally, the difficulty with this section is it's about how the taxa are related, not what they do. But the functions (like, say, methanogenesis) cut across taxa. Any ideas for making all of this more readable would be very welcome. RockMagnetist (DCO visiting scholar) (talk) 01:25, 11 November 2019 (UTC)[reply]

@Jens Lallensack: I have addressed all your issues. RockMagnetist (DCO visiting scholar) (talk) 17:57, 22 November 2019 (UTC)[reply]

Great, thanks for the many improvements, looking very good now. Promoting now, congrats for the new GA! There appears to be one regression that you might want to fix:

The following is an archived discussion of the DYK nomination of the article below. Please do not modify this page. Subsequent comments should be made on the appropriate discussion page (such as this nomination's talk page, the article's talk page or Wikipedia talk:Did you know), unless there is consensus to re-open the discussion at this page. No further edits should be made to this page.

The result was: promoted by TheAwesomeHwyh 20:25, 31 December 2019 (UTC)[reply]

  • ... that the continental deep biosphere extends to depths of at least 5 kilometres (3.1 mi) below the surface? Source: "The record depth at which life has been found in the continental subsurface is approximately 5 km" ([1])
    • ALT1:... that the genetic diversity in the deep biosphere is at least as great as it is on the surface? Source: "The genetic diversity of life below the surface is comparable to or exceeds that above the surface" ([2])

Improved to Good Article status by RockMagnetist (DCO visiting scholar) (talk). Self-nominated at 01:59, 24 November 2019 (UTC).[reply]

Substantial GA, on good sources, offline sources accepted AGF, no copyvio obvious. I prefer the original hook. Thank you for an unusual topic! --Gerda Arendt (talk) 22:03, 24 November 2019 (UTC)[reply]