Adding phylum Myzozoa to dataset

gbif · Jan 17, 2017 · afccc62 · afccc62
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diff --git a/README.md b/README.md
@@ -1,9 +1,9 @@
 # GBIF Algae Classification
-A classification for [all algae from kingdom down to families](algae.txt) distributed across the 3 kingdoms Plantae, Chromista and Protozoa.
+A classification for [all algae sensu latu from kingdom down to families](algae.txt) distributed across the 3 kingdoms Plantae, Chromista and Protozoa.
 The project is setup so that the github zip represents a valid Darwin Core Checklist Archive, synonyms are included.
 
-This classification is aiming to fill the algae gaps in the current Catalog of Life which has no taxa within the following phyla:
- - Chromista: Cryptophyta, Haptophyta, Ochrophyta
+This classification is aiming to fill the gaps in the current Catalog of Life due to the removal of Algaebase. The CoL currently has no taxa within the following phyla:
+ - Chromista: Cryptophyta, Haptophyta, Ochrophyta, Myzozoa
  - Plantae: Charophyta, Chlorophyta, Glaucophyta, Rhodophyta
  - Protozoa: Euglenozoa
 
@@ -23,7 +23,7 @@ Chromista
  *Cryptista
   Foraminifera
  *Haptophyta
-  Miozoa
+ *Miozoa
  *Ochrophyta
   Oomycota
   Radiozoa
@@ -59,6 +59,8 @@ For Protozoa we will only treat the "algae" phylum Euglenozoa:
     - Cryptista aka Cryptophyta
     - Haptophyta
     - Ochrophyta
+    - Myzozoa (preferred over Miozoa, see [WoRMS](http://www.marinespecies.org/aphia.php?p=taxdetails&id=450030) and [Wikipedia](https://en.wikipedia.org/wiki/Myzozoa))
+    - Cercozoa
  - Plantae
     - Charophyta
     - Chlorophyta
@@ -77,9 +79,6 @@ Classification down to families: [plantae](itis/itis-plantae.md), [chromista](it
 ### WoRMS
 Classification down to families for the kingdoms: [plantae](worms/worms-3.txt), [chromista](worms/worms-7.txt) & [protozoa](worms/worms-5.txt)
 
-### Algaebase
-Hard to access and the bad guy who requested removal from CoL and prevends WoRMS from sharing
-
 ### Ruggiero 2015
 See [PLOS article 10.1371/journal.pone.0119248](http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0119248)
 Also available as strangely formatted [Excel spreadsheet](journal.pone.0119248.s002.XLSX).

diff --git a/algae.txt b/algae.txt
@@ -1,4 +1,4 @@
-taxonID	parentID	acceptedID	taxonRank	scientificName	isExtinct	isMarine	isTerrestrial	isFreshwater
+taxonID	parentNameUsageID	acceptedNameUsageID	taxonRank	scientificName	isExtinct	isMarine	isTerrestrial	isFreshwater
 1			Kingdom	Plantae		1		
 100	1		Phylum	Charophyta		1		
 1000	100		Class	Charophyceae		1		
@@ -978,10 +978,239 @@ taxonID	parentID	acceptedID	taxonRank	scientificName	isExtinct	isMarine	isTerres
 1069	113		Class	Placidiophyceae				
 10875	1069		Order	Placidiales				
 
+450030	3		Phylum	Myzozoa				
+450030b		450030	Phylum	Miozoa				
+13		450030	Subphylum	Mastigophora		1		
+22565	450030		Subphylum	Apicomplexa		1	1	1
+591163	22565		Class	Apicomonadea				
+591165	591163		Order	Acrocoelida				
+591166	591163		Order	Colpodellida				
+591164	22565		Order	Chromerida				
+582464	22565		Class	Aconoidasida				
+562845		582464	Class	Haematozoa		1	1	1
+591168	582464		Order	Haemospororida				
+722976	591168		Family	Plasmodiidae				
+562847	582464		Order	Piroplasmorida		1	1	1
+562848	562847		Family	Haemohormidiidae		1	0	0
+394011	22565		Class	Conoidasida				
+582463	394011		Subclass	Coccidiasina				
+562794		582463	Class	Coccidea		1	1	1
+562795	582463		Order	Agamococcidiorida		1	0	0
+562796	562795		Family	Gemmocystidae		1	0	0
+562798	562795		Family	Rhytidocystidae		1	0	0
+394012	582463		Order	Eucoccidiorida		1	1	1
+394013	394012		Suborder	Adeleorina		1	1	1
+562809	394013		Family	Adeleidae		1	1	1
+394014	394013		Family	Haemogregarinidae		1	1	1
+562814	394012		Suborder	Eimeriorina		1	0	1
+391853	562814		Family	Aggregatidae		1	0	0
+562822	562814		Family	Calyptosporidae		1	0	0
+562824	562814		Family	Caryotrophidae		1	0	0
+391924	562814		Family	Cryptosporidiidae		1	0	1
+562827	562814		Family	Dactylosomatidae		1	0	1
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+591167	582463		Order	Ixorheorida				
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+562802	562801		Family	Eleutheroschizonidae		1	0	0
+562806	562801		Family	Grelliidae		1	0	0
+562673	394011		Subclass	Gregarinasina		1	1	1
+562672		562673	Class	Gregarinea		1	1	1
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+394871	394870		Superfamily	Porosporicae				
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+577294	562620		Family	Adnatosphaeridiaceae				
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+345493	109386		Family	Oodiniaceae		1		
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+591154		109390	Order	Dinophysida				
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+836374	19542		Family	Thalassomycetaceae				
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+591150		231814	Order	Thoracosphaeida				
+109438	231814		Family	Thoracosphaeraceae		1		
+591143	562620		Class	Noctilucea				
+562634	562620		Class	Peridinea		1	0	1
+591147	562634		Order	Dinamoebida				
+599634	591147		Family	Dinamoebaceae				
+591153	562634		Subclass	Dinophysoidia				
+591155	591153		Order	Nannoceratopsida				
+591156	562634		Subclass	Gonyaulacoidia				
+591161	562634		Subclass	Oxyrrhia				
+562635	562634		Subclass	Peridinoidia		1	0	1
+591159	562634		Subclass	Suessioidia				
+562662	562620		Class	Syndinea				
+591136	562620		Class	Colponemea				
+591138	591136		Order	Algovorida				
+591137	591136		Order	Colponemida				
+562624	562620		Class	Ellobiopsea		1	0	0
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+562626	562625		Family	Ellobiopsidae		1	0	0
+160466		562626	Family	Ellobiospidae				
+591139	562620		Class	Myzomonadea				
+591140	591139		Order	Chilovorida				
+591141	591139		Order	Voromonadida				
+178968	562620		Class	Perkinsea		1		
+103337		178968	Class	Perkinsasida		1		
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+103338		591142	Order	Perkinsorida		1		
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+
 pc1	3		Phylum	Cercozoa				
 pc2	pc1		Class	Chlorarachniophyceae Hibberd & Norris, 1984				
 pc2b		pc2	Class	Chlorarachnea				
-pc3	pc2		Order	Chlorarachniales
+pc3	pc2		Order	Chlorarachniales				
 pc3b		pc3	Order	Chlorachniida				
 pc4	pc3		Family	Chlorarachniaceae Ishida & Y. Hara, 1996				
 pc4b		pc4	Family	Chlorarachniidae Hibberd & Norris, 1984