question about common name usage

[jhpoelen]

In reviewing the names used in the USNM Ixodes interaction data, the following common names were detected by Nomer. The question is - how would the curators of the USNM Ixodes collection want folks to discover species interaction records that involve common names?

usnm-ixodes$ elton names | cut -f1,2 | tr A-Z a-z | nomer append ncbi-taxon | grep -v NONE | cut -f1-5 | sort | uniq -c | sort -nr
listing taxa [local]... using matcher [ncbi-taxon]
NCBI taxonomy already indexed at [/media/jorrit/data/nomer/ncbi/ncbi], no need to import.
done.
    252     dog COMMON_NAME_OF  NCBI:9615   Canis lupus familiaris
    196     cattle  COMMON_NAME_OF  NCBI:9913   Bos taurus
     75     rat COMMON_NAME_OF  NCBI:10116  Rattus norvegicus
     75     rat COMMON_NAME_OF  NCBI:10114  Rattus
     53     sheep   COMMON_NAME_OF  NCBI:9940   Ovis aries
     51     goat    COMMON_NAME_OF  NCBI:9925   Capra hircus
     50     unknown SYNONYM_OF  NCBI:32644  unidentified
     38     deer    COMMON_NAME_OF  NCBI:9850   Cervidae
     36     mouse   COMMON_NAME_OF  NCBI:10090  Mus musculus
     36     mouse   COMMON_NAME_OF  NCBI:10088  Mus
     33     horse   COMMON_NAME_OF  NCBI:9796   Equus caballus
     29     rabbit  COMMON_NAME_OF  NCBI:9986   Oryctolagus cuniculus
     29     cat COMMON_NAME_OF  NCBI:9685   Felis catus
     18     rodent  COMMON_NAME_OF  NCBI:9989   Rodentia
      9     cormorant   COMMON_NAME_OF  NCBI:9209   Phalacrocorax carbo
      7     dogs    COMMON_NAME_OF  NCBI:9615   Canis lupus familiaris
      4     wild cat    COMMON_NAME_OF  NCBI:9683   Felis silvestris
      4     pig COMMON_NAME_OF  NCBI:9823   Sus scrofa
      4     cow COMMON_NAME_OF  NCBI:9913   Bos taurus
      3     yak COMMON_NAME_OF  NCBI:30521  Bos grunniens
      3     raccoon COMMON_NAME_OF  NCBI:9654   Procyon lotor
      3     mule    COMMON_NAME_OF  NCBI:319699 Equus asinus x caballus
      3     leopard COMMON_NAME_OF  NCBI:9691   Panthera pardus
      3     camel   COMMON_NAME_OF  NCBI:9838   Camelus dromedarius
      3     camel   COMMON_NAME_OF  NCBI:9837   Camelus bactrianus
      2     stoat   COMMON_NAME_OF  NCBI:36723  Mustela erminea
      2     rats    COMMON_NAME_OF  NCBI:10118  Rattus sp.
      2     rats    COMMON_NAME_OF  NCBI:10116  Rattus norvegicus
      2     rats    COMMON_NAME_OF  NCBI:10114  Rattus
      2     jaguar  COMMON_NAME_OF  NCBI:9690   Panthera onca
      2     hares   COMMON_NAME_OF  NCBI:9980   Lepus
      2     coyote  COMMON_NAME_OF  NCBI:9614   Canis latrans
      2     bushbuck    COMMON_NAME_OF  NCBI:66440  Tragelaphus scriptus
      2     blackbird   COMMON_NAME_OF  NCBI:9187   Turdus merula
      1     wren    COMMON_NAME_OF  NCBI:36278  Troglodytes troglodytes
      1     turkey  COMMON_NAME_OF  NCBI:9103   Meleagris gallopavo
      1     springbok   COMMON_NAME_OF  NCBI:59523  Antidorcas marsupialis
      1     puma    COMMON_NAME_OF  NCBI:9696   Puma concolor
      1     nightingale COMMON_NAME_OF  NCBI:383689 Luscinia megarhynchos
      1     monkey  COMMON_NAME_OF  NCBI:9527   Cercopithecidae
      1     monkey  COMMON_NAME_OF  NCBI:9479   Platyrrhini
      1     mink    COMMON_NAME_OF  NCBI:9666   Mustela lutreola
      1     mink    COMMON_NAME_OF  NCBI:452646 Neovison vison
      1     junco   COMMON_NAME_OF  NCBI:106656 Adolphia infesta
      1     horses  COMMON_NAME_OF  NCBI:9788   Equidae
      1     gulls   COMMON_NAME_OF  NCBI:8910   Laridae
      1     gulls   COMMON_NAME_OF  NCBI:129400 Cepora
      1     goats   COMMON_NAME_OF  NCBI:9925   Capra hircus
      1     eland   COMMON_NAME_OF  NCBI:9945   Tragelaphus oryx
      1     duck    COMMON_NAME_OF  NCBI:8839   Anas platyrhynchos
      1     donkey  COMMON_NAME_OF  NCBI:9793   Equus asinus
      1     domestic cattle COMMON_NAME_OF  NCBI:9913   Bos taurus
      1     bush rat    COMMON_NAME_OF  NCBI:10119  Rattus fuscipes
      1     bovine  COMMON_NAME_OF  NCBI:9913   Bos taurus
      1     baboon  COMMON_NAME_OF  NCBI:9557   Papio hamadryas
      1     baboon  COMMON_NAME_OF  NCBI:9556   Papio cynocephalus
      1     baboon  COMMON_NAME_OF  NCBI:9555   Papio anubis
      1     baboon  COMMON_NAME_OF  NCBI:36229  Papio ursinus
      1     baboon  COMMON_NAME_OF  NCBI:100937 Papio papio
      1     armadillo   COMMON_NAME_OF  NCBI:9359   Dasypodidae

[jhpoelen]

David Pecor usually take the family from a common name mapping.

instead of:

rats COMMON_NAME_OF NCBI:10116 Rattus norvegicus

say

rats COMMON_NAME_OF NCBI:XXXX Muridae

[jhpoelen]

Katja suggests to always show the original name first, but enabled searched against linked taxa.