hurlbertlab / dietdatabase

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Questions about problem scientific names #80

Closed pwinner1 closed 6 years ago

pwinner1 commented 7 years ago

For some of the scientific names, they include subspecies. Should this be included? In one instance, Microbregma emarginatum granicolle was entered and valid in ITIS, but it still was on the problem names list.

Ischaemum rugosum; Oryza latifolia; Rottboellia cochinchinensis. How should this problem name be fixed?

For many names, I can't seem to find a replacement. Either the genus exists and the species doesn't seem to exist (Crepidodera helxines), or the scientific name as a whole doesn't provide any useful clues in a google search (Tachys tripunctata).

In the case that I come across multiple sources using a speicific scientific name, but it not being in ITIS, how should I decide that that name should be the replacement? How can I know that the name comes from a credible source?

I may be able to better explain these issues in person...

ahhurlbert commented 7 years ago

1) Drop the subspecies name, although you can mention it in the Notes field

2) I had a look at the original source, Basili & Temple 1999, and since the data really is for a group of grasses, I would simply drop the Scientific_Name entry and leave it at Family = Poaceae

3) Crepidodera helxines is an example where, as you note, the genus is a good genus but the species name is not recognized by ITIS although it is recognized by other authorities (i.e., it's not a typo, just a name that not everyone is familiar with). I double-checked the original source, and did some Google searching around to convince myself of this (e.g. http://insectoid.info/insecta/coleoptera/chrysomelidae/crepidodera_helxines/). Given that, I would leave the name, leave the 'replacewith' field blank. Because this record will not match ITIS and therefore the higher taxonomic levels will not get filled automatically, you will want to make sure the Notes field actually specifies "Genus = Crepidodera & Family = Chrysomelidae & ..." for all of the taxonomic columns present in the Diet Database (i.e., including Order, Suborder, Class, Phylum, Kingdom).

4) Tachys tripunctata, I found one source related to the genus (https://zookeys.pensoft.net/articles.php?id=10033), but would probably treat this the same as the example above.

5) Your last question is best addressed with specific examples.

pwinner1 commented 7 years ago

@ahhurlbert

For Cnemidotus 12-punctatus, the genus seems to be Peltodytes, but 12-punctatus is still not a species that I can find any sources on. How would I make it drop the scientific name and have only the new genus? Putting "Genus = Peltodytes & ...." wouldn't change the scientific name already in the database, would it?

Similarly, Hister? is only a genus, but it was entered under scientific name. How do I correct this?

ahhurlbert commented 7 years ago
  1. For Cnemidotus, leaving the 'replacewith' field blank will replace the currently unaccepted name with nothing. Not clear to me whether genus should be Peltodytes or Haliplus (Cnemidotus may have been split into those two, so it could be either), in which case in the Notes we might put "Genus = "" & Family = Haliplidae & Suborder = Adephaga & Order = Coleoptera & Class = Insecta & Phylum = Arthropoda & Kingdom = Animalia".

  2. Same as above, leave 'replacewith' blank, and then "Genus = Hister & ..." in Notes.

pwinner1 commented 6 years ago

@ahhurlbert When I find that a scientific name is recognized by sources other than ITIS, and for example, put "Genus = Crepidodera & Family = Chrysomelidae & ..." in the notes to fill higher taxonomic levels, is the scientific name supposed to be dropped when the fix_prob_names() is used (this is with leaving the 'replacewith' field blank)? I've found that for these names, the genus is now the lowest level filled, not scientific name even though I thought we wanted to keep them.

ahhurlbert commented 6 years ago

I believed we resolved this, but @pwinner1 please re-open if there are further issues.