Hello. I hope you’re doing well, my friend. If you don’t mind, I’d like to ask you for advice. According to the taxoboxes, plastids are classified within the phylum Cyanobacteria (see: plastid and Cyanobacteria); additionally, the article Endosymbiont explicitly states that both the mitochondrion and plastids are considered bacterial endosymbionts. Some sources, such as the Tree of Life Web Project, tend to include these organelles in the domain Bacteria, the quotation: Eubacteria ("True bacteria", mitochondria, and chloroplasts). Can we assume that the domain (Eu)Bacteria listed in the template already covers mitochondria and plastids, or should they be put in there in any way, shape, or form? Thank you in advance. Greetings, --Jojnee (talk) 18:30, 23 January 2021 (UTC)
Hi. Thank you for the recent edit. Now, the virus section looks much better. However, I would suggest to keep the links to various subviral agents (viroids, satellites), especially since it's not easy to weave them within viral taxa, and some of them (e.g., virusoids) aren’t assigned formal taxa at all. I hope you’ll accept my proposal. Regards, --Jojnee (talk) 23:45, 3 February 2021 (UTC)
Hi. Recently, a new article whose subject seems to fall within the scope of the template has been created. I mean the article Bio-like structure. The only concern might be that these entities are most likely inorganic structures; however, they were reported to exhibit enzyme activity. Moreover, a cursory review of the scientific literature on the matter leads to the conclusion that the structures obtained by V. O. Kalinenko are discussed in a similar context as coacervates, proteinoids and "Jeewanu"; on a side note, the concept itself slightly resembles that of jeewanu. This is a somewhat borderline case, but I believe that the presented arguments should be sufficient (especially since we are not talking about, let's say, robots, etc.). Therefore, I suggest adding bio-like structures to the navbox (and, vice versa, the navbox to the article). What are you thoughts? I hope you'll accept my proposal. PS. The topic in question is quite interesting. Warm regards, --Jojnee (talk) 00:00, 15 February 2021 (UTC)
Hi. I hope you are staying healthy and safe during these uneasy times. Recently, one more article whose subject seems to fall within the scope of the template has been created. I mean the article Integrative and conjugative element. ICEs appear to resemble both plasmids and transposable elements. Therefore, I suggest adding ICEs to the navbox (and, vice versa, the navbox to the article). What are you thoughts? Cheers, --Jojnee (talk) 00:00, 5 March 2021 (UTC)
Hi again, my friend. Recently, while reading some papers, I realised that the template lacks one (quite important) category of organism-comparable structures. Specifically, Eugene V. Koonin and Valerian V. Dolja, in their concept of the "greater" virus world, discuss retroelements that constitute a diverse category of virus-like agents; please check the following links: A virocentric perspective on the evolution of life, Virus World as an Evolutionary Network of Viruses and Capsidless Selfish Elements. Many retroelements are already included in the template, as LTR, non-LTR and Penelope-like retrotransposons are transposable elements (Class I TEs), the so-called retroplasmids are plasmids present in the mitochondria of some fungi and group II introns are ribozymes; still, there is a variety of retroelements that do not fall into any of these categories. Since the entry "Retroelement" redirects to the article Retrotransposon, but dedicated articles (rightly) use the term "retroelements" to describe other genetic elements, e.g. retrons, I suggest adding the category Other retroelements (or perhaps unclassified?) to the navbox, and subsequently put in brackets the remaining elements, as follows: retrons, diversity-generating retroelements (DGR), telomerase reverse transcriptase (TERT) and RT-related cellular genes (rvt). I must admit that I have doubts regarding the technical details (other/unclassified?, full names of retroelements versus acronyms, etc.), so I decided to contact you and rely on your unerring intuition. I hope you will accept my proposal, especially since it seems to be rather uncontroversial. Thanks a lot! Regards, --Jojnee (talk) 15:59, 14 July 2021 (UTC)
Retroelements not elsewhere classified (Retron, DGR, TERT, rvt), or (b)
(other?) Retroelement (Retron, Diversity-generating retroelement, Telomerase reverse transcriptase, Reverse transcriptase-related cellular gene). Alternatively, we could omit rvts as currently no article regarding them exists (it definitely should be created, though); additionally, there are other (less important) classes, e.g. RT-like mitochondrial ORFs of Chlamydomonas, but they probably don't deserve to have separate articles, so we can just assume them to be (de facto) included by generally falling under this category. On a side note, it seems reasonable to distinguish the terms Retrotransposon and Retroelement, especially since the latter covers a (much) wider spectrum of genetic elements, but that's another story. Thanks a lot for the link, it's a very interesting topic! PS. Your intuition has proven truly reliable, and I highly value it. Kind regards, --Jojnee (talk) 09:59, 15 July 2021 (UTC)
Hello again. I hope you are doing well, my friend. Recently, retrozymes have been added to the navbox. To be honest, I am not a big fan of this edit, but I don’t mind it either. However, the current order of subviral agents seems a bit chaotic. Virophages and virusoids are satellites, and retrozymes are (nonautonomous) retrotransposons. Or perhaps it was intentional? If you find some time, could you have a look at it, please? Cheers, Jojnee (talk) 22:00, 22 January 2022 (UTC)
Hi again Ypna, I've updated the navbox. If you have some time, could you review my edit, please? Cheers, Jojnee (talk) 20:45, 17 August 2023 (UTC)
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