Taxacom: Protists

Thu Feb 10 17:00:34 CST 2022

So Alastair, if you were (e.g.) Catalogue of Life or other, and in need of
a "management classification" that works top down (not necessarily
kingdom-Phylum-Class-Order, but equivalents would be useful), how would you
cast the Protist section of the Adl et al. treatment? E.g. would you have a
"kingdom" Protista (noting that this term appears nowhere in the Adl et al.
treatment), or if not, what should be used in its place? Would there be a
lot of smaller groups unplaced in "Biota"...

Just asking because CoL would not be alone in needing a "management
classification", the same applying to e.g. GBIF, ITIS, WoRMS, NBII,
Wikipedia, Wikispecies and many more including numerous national species
recording initiatives, to name but a few.

My feeling always used to be to avoid "kingdom Chromista" for that portion
of the protists but I moved to it-somewhat reluctantly-  in 2017 for CoL
compatibility. Happy to see if there might be a better alternative
available these days...

Best - Tony
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On Wed, 9 Feb 2022 at 10:02, Alastair Simpson <Alastair.Simpson at dal.ca>
wrote:

> Adl et al. 2019 has a few oddities, but generally will closer reflect
> higher taxonomy of eukaryotes as accepted by protistologists writ large
> than will Ruggerio et al, 2015.
>
> For example, approximately no evolutionary/systematic protistologists
> active today* use "Protozoa" as a taxon.  One reason amongst many is that
> Opisthokonta is so widely accepted and is mutually incompatible with
> treating Protozoa (or Protista!) as taxa.
>
> It also turns out that the evidence that Chromista is polyphyletic has
> strengthened markedly in the last couple of years.
>
> Cheers
> Alastair (Simpson)
>
> *Cavalier-Smith himself passed away last year
>
> ------------------------------
> *From:* Taxacom <taxacom-bounces at lists.ku.edu> on behalf of Tony Rees via
> Taxacom <taxacom at lists.ku.edu>
> *Sent:* February 8, 2022 6:32 PM
> *To:* Scott Thomson <scott.thomson321 at gmail.com>
> *Cc:* taxacom <taxacom at mailman.nhm.ku.edu>
> *Subject:* Re: Taxacom: Protists
>
> CAUTION: The Sender of this email is not from within Dalhousie.
>
> Hi Scott,
>
> Basically you have to appreciate that there are 2 (if not more) current
> "world views" as to what to do with former Protista. According to the
> Cavalier-Smith world view, presently adopted in the 2015 paper by Ruggiero
> et al (which includes C-S among its authors), they split into 2 kingdoms,
> Protozoa and Chromista. However there is alternative view, that of Adl et
> al. (the latest iteration being at
>
> https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fonlinelibrary.wiley.com%2Fdoi%2Fpdfdirect%2F10.1111%2Fjeu.12691&data=04%7C01%7Ctaxacom%40lists.ku.edu%7C5a3da97f64bc47f0ac7c08d9ece92e94%7C3c176536afe643f5b96636feabbe3c1a%7C0%7C0%7C637801309425273266%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=55rXgDUR9Aar5vNMA557ntXGjZKHCMvj9uw4CYuPD%2Fs%3D&reserved=0)
> that does
> not include either of these names, or indeed any kingdoms outside of
> Embryophyta; their "Sar" clade (unranked, but higher than phylum) is
> roughly equivalent to C-S's Chromista, but excludes a few key groups...
> Also noting that, since the 2015 Ruggiero et al. summary, C-S has continued
> to publish on a number of protistan/chromistan groups, updating those areas
> of the classification, however without those updates being incorporated
> back into any larger summary treatment.
>
> I went through this exercise for IRMNG starting around 4 years back, and
> decided to implement the Ruggiero et al. classification scheme so far as
> was practicable, updated as necessary, but departing in a few areas where
> "accepted practice" seemed to differ - for example treating Rozellids and
> Microsporidia as Fungi rather than Protozoa as per recent "fungal"
> treatments, and a few other things. If this approach coincides with what
> you might wish to do, you will find my current treatment of Protozoa at
>
> https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.irmng.org%2Faphia.php%3Fp%3Dbrowser%26id&data=04%7C01%7Ctaxacom%40lists.ku.edu%7C5a3da97f64bc47f0ac7c08d9ece92e94%7C3c176536afe643f5b96636feabbe3c1a%7C0%7C0%7C637801309425273266%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=C6UekHo2Jnn0ILmji1oXOhaaXFJaiW%2BLdwAOPc9HpEg%3D&reserved=0[]=5#focus,
> and Chromista at
>
> https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.irmng.org%2Faphia.php%3Fp%3Dbrowser%26id&data=04%7C01%7Ctaxacom%40lists.ku.edu%7C5a3da97f64bc47f0ac7c08d9ece92e94%7C3c176536afe643f5b96636feabbe3c1a%7C0%7C0%7C637801309425273266%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=C6UekHo2Jnn0ILmji1oXOhaaXFJaiW%2BLdwAOPc9HpEg%3D&reserved=0[]=7#focus
> . All/most names are
> accompanied by relevant documentation e.g. from where I got the name, and
> according to which source is it presently considered either a current name
> or a synonym, sometimes with additional editorial notes as well.
>
> Of course you can always search for a name at any rank via the IRMNG search
> interface at
> https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.irmng.org%2Faphia.php%3Fp%3Dsearch&data=04%7C01%7Ctaxacom%40lists.ku.edu%7C5a3da97f64bc47f0ac7c08d9ece92e94%7C3c176536afe643f5b96636feabbe3c1a%7C0%7C0%7C637801309425273266%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=UedCHnp9H5SOLt5JZy7EXMhE8AzHz1EGeZy9PN5Wp9g%3D&reserved=0
> ;  just remember to
> uncheck the "limit to ... genera" box if you are searching for a name at a
> higher rank. I cannot guarantee that I have all suprageneric names entered
> (in fact I am sure I do not), however you may find this helpful for some
> percentage of the names you are desiring to check.
>
> Likewise I cannot guarantee to have verified and/or updated every name
> entry in IRMNG at this time, however by viewing the "sources" presented for
> each, you will get some insight as to the currency of the information held
> for that name.
>
> Hoping the above may be of some value,
>
> Regards - Tony
>
> Tony Rees, New South Wales, Australia
>
> https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.irmng.org%2F&data=04%7C01%7Ctaxacom%40lists.ku.edu%7C5a3da97f64bc47f0ac7c08d9ece92e94%7C3c176536afe643f5b96636feabbe3c1a%7C0%7C0%7C637801309425273266%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=FaIYI0R0BXmwTkz4%2B7%2Blp5rk3ww37s0LDyNVfVogOvw%3D&reserved=0
>
>
> On Wed, 9 Feb 2022 at 08:17, Scott Thomson via Taxacom <
> taxacom at lists.ku.edu>
> wrote:
>
> > I am thinking this will be a pain but I have to figure out how to deal
> with
> > everything that was or is or may be in Protista as I currently have 191
> > non-standard and 526 disputed taxa many of which were a part of this
> group.
> > I am not sure what to do with them.
> >
> > Can someone recommend a Checklist or other publication that is the most
> > recent assessment of all things this group please.
> >
> > Thanks in advance
> >
> > Cheers Scott
> >
> > --
> > Scott Thomson
> >
> > Centro de Estudos dos Quelônios da Amazônia - CEQUA
> > Petrópolis, Manaus
> > State of Amazonas, 69055-010
> > Brasil
> >
> >
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