Skip to content

Instantly share code, notes, and snippets.

@mdoering

mdoering/taxa.tsv

Created October 7, 2016 08:02
Show Gist options
  • Save mdoering/d7ba7f459fa6c6ee2fff716cf9d5a5b5 to your computer and use it in GitHub Desktop.
Save mdoering/d7ba7f459fa6c6ee2fff716cf9d5a5b5 to your computer and use it in GitHub Desktop.
Download ZIP
Taxonomic CSV example using Darwin Core terms
Raw
taxa.tsv
taxonID parentNameUsageID acceptedNameUsageID originalNameUsageID taxonRank taxonomicStatus scientificName nameAccordingTo namePublishedInYear namePublishedIn namePublishedInID nomenclaturalStatus dc:references typification taxonRemarks
k1 kingdom Animalia
k2 kingdom Plantae
k3 kingdom Fungi
k4 kingdom Protozoa
k5 kingdom Chromista
p1 k1 phylum Arthropoda
p2 k1 phylum Mollusca
p3 k3 phylum Ascomycota
p4 k1 phylum Ctenophora
p5 k2 phylum Chlorophyta
p6 k1 phylum Chordata
p7 k2 phylum Tracheophyta
p7-s1 p7 phylum synonym Psilotophyta
p7-s2 p7 phylum synonym Microphyllophyta
p7-s3 p7 phylum synonym Arthrophyta
p7-s4 p7 phylum synonym Pterophyta
p7-s5 p7 phylum synonym Cycadophyta
p7-s6 p7 phylum synonym Ginkgophyta
p7-s7 p7 phylum synonym Coniferophyta
p7-s8 p7 phylum synonym Gnetophyta
p7-s9 p7 phylum synonym Magnoliophyta
p7-s10 p7 phylum synonym Equisetophyta
p7-s11 p7 phylum synonym Lycopodiophyta
p7-s12 p7 phylum synonym Polypodiophyta
p7-s13 p7 subkingdom synonym Tracheobionta
p7-s14 p7 phylum synonym Psilophyta
p7-s15 p7 phylum synonym Pteridophyta
p7-s16 p7 subphylum synonym Pteridophytina
p8 k2 phylum Marchantiophyta
p8-s1 p8 phylum synonym Hepaticae
p8-s2 p8 phylum synonym Hepatophyta
p8-s3 p8 subphylum synonym Marchantiophytina
p9 k2 phylum Bryophyta
p9-s1 p9 phylum synonym Musci
p9-s2 p9 subphylum synonym Bryophytina
p10 k5 phylum Cryptophyta
p10-s1 p10 phylum synonym Cryptista
24 k4 subphylum synonym Radiolaria wikipedia A subphylum hard to map to the CoL tree. Protozoa is a bit high, but is the best single match
c1 p1 class Insecta
c2 p2 class Gastropoda
c3 p3 class Dothideales
c4 p4 class Tentaculata
c6 p6 class Aves
c7 p7 class Lycopodiopsida
c8 p3 class Leotiomycetes
c9 p1 class Arachnida
c10 k4 class accepted Acantharia CoL
c11 p6 class Amphibia
c12 k1 class Clitellata
c13 c12 class Oligochaeta
c14 k1 class Malacostraca
o1 c1 order Coleoptera
o3 c1 order Hymenoptera
o4 c1 order Hemiptera
o5 c3 order Coccoideaceae
o6 c4 order Lobata
o8 c8 order Helotiales
o9 c9 order Pseudoscorpiones CoL
o10 o9 order synonym Pseudoscorpionida Wikipedia https://en.wikipedia.org/wiki/Pseudoscorpion
o11 o9 order synonym Chelonethida Wikipedia https://en.wikipedia.org/wiki/Pseudoscorpion
o12 c2 order Stylommatophora ITIS http://www.itis.gov/servlet/SingleRpt/SingleRpt?search_topic=TSN&search_value=76755
o13 c2 order Littorinimorpha http://www.catalogueoflife.org/col/browse/tree/id/4f3b1133c474f0b6a140c2c034c4662a
o14 o13 order Heteropoda https://en.wikipedia.org/wiki/Pterotracheoidea
sf1 o4 superfamily accepted Coccoidea CoL
f1 o1 family Hydraenidae
f2 o12 family Amastridae
f3 c2 family Pyramidellidae
f4 p5 family Ulvaceae
f5 o3 family Vespidae
f6 o8 family Helotiaceae
f7 c11 family Dendrobatidae
f8 k2 family Asteraceae
f9 c1 family Cimeliidae
f10 f9 family Axiidae Rebel
f11 c14 family Axiidae Huxley
f12 f8 family synonym Compositae
f13 k2 family accepted Fabaceae
f14 f13 family synonym Leguminosae
1 f1 species accepted Hydraena truncata Rey, 1885 ITIS http://www.itis.gov/servlet/SingleRpt/SingleRpt?search_topic=TSN&search_value=815716 Provisionally added until it becomes available via ITIS or FaunaEuropaea
2 f2 species accepted Amastra affinis (Newcomb, 1854) BishopMuseum http://nsdb.bishopmuseum.org/?w=BPBM&explst=tr&cols=10&rpp=1000&pge=1&id=1519640147
3 2 species junior synonym Achatinella goniostoma BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
4 2 species junior synonym Achatinella pupoidea BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
5 2 species junior synonym Amastra abberans BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
6 2 subspecies junior synonym Amastra affinis subsp. subpulla BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
7 2 variety junior synonym Amastra affinis var. bigener BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
8 2 variety junior synonym Amastra affinis var. cinderella BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
9 2 variety junior synonym Amastra bigener var. abberans BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
10 2 species junior synonym Amastra bigener BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
12 2 species junior synonym Amastra cinderella BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
13 2 species junior synonym Amastra goniostoma BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
14 2 species junior synonym Amastra pupoidea BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
15 2 species junior synonym Amastra rustica BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
17 2 species junior synonym Amastra subpulla BishopMuseum following Cowie, R. H., N. L. Evenhuis & C. C. Christensen. 1995. Catalog of the native land and freshwater molluscs of the Hawaiian Islands. Backhuys Publishers, Leiden. vi+248 p.
20 f3 genus accepted Belonidium Cossmann, 1892 IRMNG 1892 J. Conchyliol., 40, 350.
21 20 genus synonym Anisocycla Cossmann, 1888 IRMNG 1888 Ann. Soc. malac. Belgique, 23, Mém., 108. nomen nudum
22 o3 genus accepted Dacnusa Haliday, 1833 ITIS
23 22 genus synonym Radiolaria Provancher, 1886 ITIS
26 o5 genus accepted Coccoidea CoL
28 p3 genus accepted Acantharia IF
30 f4 genus accepted Lobata
31 c6 species accepted Monticola erythronotus IUCN
32 c6 31 species synonym Monticola erythronota Clements Checklist
33 f5 species accepted Vespula alascensis (Packard, 1870) Peter de Vries http://digitallibrary.amnh.org/dspace/handle/2246/6074 Carpenter & Glare 1956: Misidentification of Vespula alascensis as V. vulgaris in North America.
34 f5 species accepted Hypodynerus anae Barerra, 2011 Barerra 2011 Boletín de la Sociedad Entomológica Aragonesa, 48: 157-162. http://www.insectos.cl/pdf/barrera-medina-2011%20157%20162%20BSEA%2048%20Avispa%20alfarera%20Chile.pdf notified by personal author email. See also http://www.vespidae.be/Eumeninae/Hypodynerus_anae.htm
35 c7 36 species synonym Stigmaria fucoides Sven Ziepe misspelling notified by Sven Ziepe, pandora.be
36 c7 species accepted Stigmaria ficoides Sven Ziepe
37 f6 species accepted Hymenoscyphus pseudoalbidus V. Queloz, C.R. Grünig, R. Berndt, T. Kowalski, T.N. Sieber & O. Holdenrieder MycoBank 2010 http://www.mycobank.org/MB/542015 notified by personal email from Andrin Gross
38 f7 genus accepted Andinobates Twomey, Brown, Amézquita, and Mejía-Vargas, 2011 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083: 20 Type species: Dendrobates bombetes Myers and Daly, 1980, by original designation. notified by Ángela Suárez-Mayorga, see http://dev.gbif.org/issues/browse/POR-2030
39 38 53 species Andinobates abditus (Myers and Daly, 1976) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083: 36. http://dendrobates.org/articles/Myers&Daly1976_D.abditus.pdf http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-abditus
40 38 54 species Andinobates altobueyensis (Silverstone, 1975) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083: 30. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-altobueyensis
41 38 species Andinobates bombetes (Myers and Daly, 1980) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-bombetes
42 38 species Andinobates cassidyhornae Amézquita, Márquez, Mejía-Vargas, Kahn, Suárez, and Mazariegos, 2013 2013 Amézquita, Márquez, Mejía-Vargas, Kahn, Suárez, and Mazariegos, 2013, Zootaxa, 3620: 168. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-cassidyhornae
43 38 55 species Andinobates claudiae (Jungfer, Lötters, and Jörgens, 2000) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-claudiae
44 38 56 species Andinobates daleswansoni (Rueda-Almonacid, Rada, Sánchez-Pacheco, Velásquez-Álvarez, and Quevedo-Gil, 2006) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-daleswansoni
45 38 57 species Andinobates dorisswansonae (Rueda-Almonacid, Rada, Sánchez-Pacheco, Velásquez-Álvarez, and Quevedo-Gil, 2006) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-dorisswansonae
46 38 58 species Andinobates fulguritus (Silverstone, 1975) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-fulguritus
47 38 species Andinobates geminisae Batista, Jaramillo, Ponce, and Crawford, 2014 2014 Batista, Abel, César J. A., Marcos Ponce & Andrew J. Crawford. 2014 A new species of Andinobates (Amphibia: Anura: Dendrobatidae) from west central Panama. Zootaxa 3866(3): 333–352. http://dx.doi.org/10.11646/zootaxa.3866.3.2 http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-geminisae
48 38 species Andinobates minutus (Shreve, 1935) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-minutus
49 38 species Andinobates opisthomelas (Boulenger, 1899) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-opisthomelas
50 38 species Andinobates tolimensis (Bernal-Bautista, Luna-Mora, Gallego, and Quevedo-Gil, 2007) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-tolimensis
51 38 species Andinobates viridis (Myers and Daly, 1976) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-viridis
52 38 species Andinobates virolinensis (Ruiz-Carranza and Ramírez-Pinilla, 1992) 2011 Brown, Twomey, Amézquita, Souza, Caldwell, Lötters, von May, Melo-Sampaio, Mejía-Vargas, Pérez-Peña, Pepper, Poelman, Sanchez-Rodriguez, and Summers, 2011, Zootaxa, 3083. http://research.amnh.org/vz/herpetology/amphibia/index.php//Amphibia/Anura/Dendrobatidae/Dendrobatinae/Andinobates/Andinobates-virolinensis
53 39 species Dendrobates abditus Myers and Daly, 1976 1976 Occas. Pap. Mus. Nat. Hist. Univ. Kansas, 59: 1
54 40 species Dendrobates altobueyensis Silverstone, 1975 1975
55 43 species Dendrobates claudiae Jungfer, Lötters, and Jörgens, 2000 2000 Herpetofauna, Weinstadt, 22: 12.
56 44 species Dendrobates daleswansoni Rueda-Almonacid, Rada, Sánchez-Pacheco, Velásquez-Álvarez, and Quevedo-Gil, 2006 2006 Zootaxa, 1259: 41.
57 45 species Dendrobates dorisswansoni Rueda-Almonacid, Rada, Sánchez-Pacheco, Velásquez-Álvarez, and Quevedo-Gil, 2006 2006 Zootaxa, 1259: 48.
58 46 species Dendrobates fulguritus Silverstone, 1975 1975 Sci. Bull. Nat. Hist. Mus. Los Angeles Co., 21: 28.
59 f8 species Jacobaea vulgaris Gaertn. 1791 Fruct. Sem. Pl. 2: 445. 1791
60 59 subspecies Jacobaea vulgaris subsp. gotlandica (Neuman) B.Nord. 2006 Compositae Newslett. 44: 12 (2006) http://www.actaplantarum.org/flora/flora_info.php?id=9392
61 59 subspecies Jacobaea vulgaris subsp. dunensis (Dumort.) Pelser & Meijden 2005 Heukels' Fl. Nederland 677. 2005 http://www.theplantlist.org/tpl1.1/record/gcc-54851
62 60 variety Senecio jacobaea L. var. gotlandicus Neuman 1901 Sver. Fl .: 26 (1901) http://botanicaserbica.bio.bg.ac.rs/arhiva/pdf/2012_36_2_570_full.pdf
63 p3 species Tephromela siphulodes Poelt & Grube 1993 Nova Hedwigia 57(1-2): 9 (1993) http://www.indexfungorum.org/names/NamesRecord.asp?RecordID=360652
64 63 species Tephromela siphuloides Poelt & Grube http://www.biodiversity.no/ScientificName/75131
65 f8 species accepted Ambrosia artemisiifolia L. http://www.theplantlist.org/tpl1.1/record/gcc-20460
66 f8 species accepted Ambrosia polystachya DC.
67 66 species synonym Ambrosia artemisiifolia Besser http://www.theplantlist.org/tpl1.1/record/gcc-142227 illegitimate name
68 o1 genus accepted Antennoluprops Schawaller, 2007 2007 Spixiana 30/1: 29-32 http://www.pfeil-verlag.de/04biol/pdf/spix30_1_04.pdf
69 68 species accepted Antennoluprops bremeri Schawaller, 2007 2007 Spixiana 30/1: 29-32 http://www.pfeil-verlag.de/04biol/pdf/spix30_1_04.pdf
70 68 species accepted Antennoluprops triplehorni Schawaller & Aalbu 2015 2015 The Coleopterists Bulletin 69(mo4):80-82. 2015 doi:10.1649/0010-065X-69.mo4.80 http://www.bioone.org/doi/abs/10.1649/0010-065X-69.mo4.80
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment