Habitats Directive Portuguese Report: Species 2013-2018

Study Extent

The geographic area considered for the original study was Mainland Portugal and Portuguese islands.

Sampling

Species and habitats data was collected from available published and unpublished sources. Expert opinion was also used as a source of information. Data for each species and habitats was organised in specific data sheets that combine different ecological and biological parameters.

Quality Control

All initial data was inserted in a specific relational database built specifically for the project, which implemented several quality control methods. In the preparation of the dataset for GBIF publication, data consistency was verified using cluster algorithms using OpenRefine.

Method steps

1. Preparation of the dataset for GBIF publication used as source the geographic layer in shapefile format. The data layer was a vector layer containing polygons with various sizes. The following steps were performed: - Created a buffer of -1m to avoid misaligned grids; - Intersected the layer with the EEA reference grid (10km); - Calculated the WKTs for each polygon in the original (EPSG:3035) ; - Calculated the centroids for each polygon in both WGS84 and the original (EPSG:3035); - Calculated the distance of the centroids to the farthest point in the envolving polygon (coordinate accuracy) in both WGS84 and the original (EPSG:3035) projection; - All species/regions combos were cross referenced with the XML (PT_species_reports-20190903-161039.xml from http://cdr.eionet.europa.eu/pt/eu/art17/envxwqwq/), to extract both the distribution date and method; - Used the WGS84 centroids to extract the locations from the CAOP2020 layer; - exported to csv and reinterpreted attributes matching to DwC standard terms.

This dataset contains occurrence data for fauna and flora belonging to 3 kingdoms, 7 phyla, 16 classes, 52 orders, 105 families, 192 genera and 277 species.

1. Animalia
   rank: kingdom
2. Fungi
   rank: kingdom
3. Plantae
   rank: kingdom
4. Arthropoda
   rank: phylum
5. Ascomycota
   rank: phylum
6. Bryophyta
   rank: phylum
7. Chordata
   rank: phylum
8. Marchantiophyta
   rank: phylum
9. Mollusca
   rank: phylum
10. Tracheophyta
    rank: phylum
11. Actinopterygii
    rank: class
12. Amphibia
    rank: class
13. Bivalvia
    rank: class
14. Bryopsida
    rank: class
15. Cephalaspidomorphi
    rank: class
16. Gastropoda
    rank: class
17. Insecta
    rank: class
18. Jungermanniopsida
    rank: class
19. Lecanoromycetes
    rank: class
20. Liliopsida
    rank: class
21. Lycopodiopsida
    rank: class
22. Magnoliopsida
    rank: class
23. Mammalia
    rank: class
24. Polypodiopsida
    rank: class
25. Reptilia
    rank: class
26. Sphagnopsida
    rank: class
27. Anura
    rank: order
28. Apiales
    rank: order
29. Araneae
    rank: order
30. Artiodactyla
    rank: order
31. Asparagales
    rank: order
32. Asterales
    rank: order
33. Boraginales
    rank: order
34. Brassicales
    rank: order
35. Carnivora
    rank: order
36. Caryophyllales
    rank: order
37. Caudata
    rank: order
38. Cetacea
    rank: order
39. Chiroptera
    rank: order
40. Clupeiformes
    rank: order
41. Coleoptera
    rank: order
42. Cyatheales
    rank: order
43. Cypriniformes
    rank: order
44. Dicranales
    rank: order
45. Dipsacales
    rank: order
46. Ericales
    rank: order
47. Fabales
    rank: order
48. Gentianales
    rank: order
49. Hymenophyllales
    rank: order
50. Hypnobryales
    rank: order
51. Isoetales
    rank: order
52. Jungermanniales
    rank: order
53. Lamiales
    rank: order
54. Lecanorales
    rank: order
55. Lepidoptera
    rank: order
56. Leucodontales
    rank: order
57. Lycopodiales
    rank: order
58. Malpighiales
    rank: order
59. Malvales
    rank: order
60. Mantodea
    rank: order
61. Odonata
    rank: order
62. Petromyzontiformes
    rank: order
63. Poales
    rank: order
64. Polypodiales
    rank: order
65. Pottiales
    rank: order
66. Rodentia
    rank: order
67. Rosales
    rank: order
68. Salmoniformes
    rank: order
69. Salviniales
    rank: order
70. Santalales
    rank: order
71. Saxifragales
    rank: order
72. Solanales
    rank: order
73. Soricomorpha
    rank: order
74. Sphagnales
    rank: order
75. Squamata
    rank: order
76. Stylommatophora
    rank: order
77. Testudines
    rank: order
78. Unionida
    rank: order
79. Alytidae
    rank: family
80. Amaranthaceae
    rank: family
81. Amaryllidaceae
    rank: family
82. Apiaceae
    rank: family
83. Arionidae
    rank: family
84. Asparagaceae
    rank: family
85. Asphodelaceae
    rank: family
86. Aspleniaceae
    rank: family
87. Asteraceae
    rank: family
88. Balaenopteridae
    rank: family
89. Blechnaceae
    rank: family
90. Boraginaceae
    rank: family
91. Bovidae
    rank: family
92. Brassicaceae
    rank: family
93. Bufonidae
    rank: family
94. Campanulaceae
    rank: family
95. Canidae
    rank: family
96. Caprifoliaceae
    rank: family
97. Caryophyllaceae
    rank: family
98. Cerambycidae
    rank: family
99. Cheloniidae
    rank: family
100. Cistaceae
     rank: family
101. Cladoniaceae
     rank: family
102. Clupeidae
     rank: family
103. Cobitidae
     rank: family
104. Coenagrionidae
     rank: family
105. Colubridae
     rank: family
106. Convolvulaceae
     rank: family
107. Corduliidae
     rank: family
108. Crassulaceae
     rank: family
109. Cricetidae
     rank: family
110. Culcitaceae
     rank: family
111. Cyprinidae
     rank: family
112. Delphinidae
     rank: family
113. Dermochelyidae
     rank: family
114. Dicranaceae
     rank: family
115. Dryopteridaceae
     rank: family
116. Echinodiaceae
     rank: family
117. Emydidae
     rank: family
118. Erebidae
     rank: family
119. Ericaceae
     rank: family
120. Euphorbiaceae
     rank: family
121. Fabaceae
     rank: family
122. Felidae
     rank: family
123. Gastrodontidae
     rank: family
124. Gentianaceae
     rank: family
125. Geoemydidae
     rank: family
126. Geomitridae
     rank: family
127. Gomphidae
     rank: family
128. Gymnomitriaceae
     rank: family
129. Helicidae
     rank: family
130. Herpestidae
     rank: family
131. Hylidae
     rank: family
132. Hymenophyllaceae
     rank: family
133. Hyperoodontidae
     rank: family
134. Iridaceae
     rank: family
135. Isoetaceae
     rank: family
136. Juncaceae
     rank: family
137. Lacertidae
     rank: family
138. Lamiaceae
     rank: family
139. Lauriidae
     rank: family
140. Lucanidae
     rank: family
141. Lycopodiaceae
     rank: family
142. Macrothelidae
     rank: family
143. Mantidae
     rank: family
144. Margaritiferidae
     rank: family
145. Marsileaceae
     rank: family
146. Miniopteridae
     rank: family
147. Molossidae
     rank: family
148. Mustelidae
     rank: family
149. Neckeraceae
     rank: family
150. Nymphalidae
     rank: family
151. Oleaceae
     rank: family
152. Orchidaceae
     rank: family
153. Orobanchaceae
     rank: family
154. Pelobatidae
     rank: family
155. Petromyzontidae
     rank: family
156. Phocidae
     rank: family
157. Phocoenidae
     rank: family
158. Phyllodactylidae
     rank: family
159. Physeteridae
     rank: family
160. Plantaginaceae
     rank: family
161. Plumbaginaceae
     rank: family
162. Poaceae
     rank: family
163. Polygonaceae
     rank: family
164. Pottiaceae
     rank: family
165. Ranidae
     rank: family
166. Rhamnaceae
     rank: family
167. Rhinolophidae
     rank: family
168. Rosaceae
     rank: family
169. Salamandridae
     rank: family
170. Salicaceae
     rank: family
171. Salmonidae
     rank: family
172. Saxifragaceae
     rank: family
173. Scincidae
     rank: family
174. Scrophulariaceae
     rank: family
175. Sphagnaceae
     rank: family
176. Sphingidae
     rank: family
177. Talpidae
     rank: family
178. Thymelaeaceae
     rank: family
179. Unionidae
     rank: family
180. Vespertilionidae
     rank: family
181. Viperidae
     rank: family
182. Viscaceae
     rank: family
183. Viverridae
     rank: family
184. Achondrostoma
     rank: genus
185. Aichryson
     rank: genus
186. Alosa
     rank: genus
187. Alyssum
     rank: genus
188. Alytes
     rank: genus
189. Ammi
     rank: genus
190. Anaecypris
     rank: genus
191. Anarrhinum
     rank: genus
192. Angelica
     rank: genus
193. Anthyllis
     rank: genus
194. Antirrhinum
     rank: genus
195. Apium
     rank: genus
196. Apteromantis
     rank: genus
197. Arabis
     rank: genus
198. Arceuthobium
     rank: genus
199. Armeria
     rank: genus
200. Arnica
     rank: genus
201. Asphodelus
     rank: genus
202. Asplenium
     rank: genus
203. Atlantica
     rank: genus
204. Avenula
     rank: genus
205. Azorina
     rank: genus
206. Balaenoptera
     rank: genus
207. Barbastella
     rank: genus
208. Bellevalia
     rank: genus
209. Beta
     rank: genus
210. Biscutella
     rank: genus
211. Bryoerythrophyllum
     rank: genus
212. Canis
     rank: genus
213. Capra
     rank: genus
214. Caretta
     rank: genus
215. Caropsis
     rank: genus
216. Caseolus
     rank: genus
217. Centaurea
     rank: genus
218. Cerambyx
     rank: genus
219. Chaenorhinum
     rank: genus
220. Chaerophyllum
     rank: genus
221. Chalcides
     rank: genus
222. Chelonia
     rank: genus
223. Chioglossa
     rank: genus
224. Cistus
     rank: genus
225. Cladonia
     rank: genus
226. Cobitis
     rank: genus
227. Coenagrion
     rank: genus
228. Convolvulus
     rank: genus
229. Coronella
     rank: genus
230. Crepis
     rank: genus
231. Culcita
     rank: genus
232. Delphinus
     rank: genus
233. Dermochelys
     rank: genus
234. Dianthus
     rank: genus
235. Diplotaxis
     rank: genus
236. Discoglossus
     rank: genus
237. Discula
     rank: genus
238. Doronicum
     rank: genus
239. Dorycnium
     rank: genus
240. Dracaena
     rank: genus
241. Echinodium
     rank: genus
242. Emys
     rank: genus
243. Epidalea
     rank: genus
244. Eptesicus
     rank: genus
245. Erica
     rank: genus
246. Eryngium
     rank: genus
247. Euphorbia
     rank: genus
248. Euphrasia
     rank: genus
249. Euphydryas
     rank: genus
250. Euplagia
     rank: genus
251. Felis
     rank: genus
252. Festuca
     rank: genus
253. Frangula
     rank: genus
254. Galemys
     rank: genus
255. Genetta
     rank: genus
256. Gentiana
     rank: genus
257. Geomalacus
     rank: genus
258. Geomitra
     rank: genus
259. Globicephala
     rank: genus
260. Gomphus
     rank: genus
261. Grampus
     rank: genus
262. Halimium
     rank: genus
263. Hemorrhois
     rank: genus
264. Herniaria
     rank: genus
265. Herpestes
     rank: genus
266. Holcus
     rank: genus
267. Hyacinthoides
     rank: genus
268. Hyla
     rank: genus
269. Hymenophyllum
     rank: genus
270. Hyperoodon
     rank: genus
271. Hypsugo
     rank: genus
272. Hystricella
     rank: genus
273. Iberis
     rank: genus
274. Iberochondrostoma
     rank: genus
275. Iberolacerta
     rank: genus
276. Idiomela
     rank: genus
277. Iris
     rank: genus
278. Isoetes
     rank: genus
279. Jasione
     rank: genus
280. Jonopsidium
     rank: genus
281. Juncus
     rank: genus
282. Lacerta
     rank: genus
283. Lactuca
     rank: genus
284. Lampetra
     rank: genus
285. Leiostyla
     rank: genus
286. Leucobryum
     rank: genus
287. Leuzea
     rank: genus
288. Limonium
     rank: genus
289. Linaria
     rank: genus
290. Lotus
     rank: genus
291. Lucanus
     rank: genus
292. Luciobarbus
     rank: genus
293. Lutra
     rank: genus
294. Lycopodium
     rank: genus
295. Lynx
     rank: genus
296. Macromia
     rank: genus
297. Macrothele
     rank: genus
298. Malcolmia
     rank: genus
299. Margaritifera
     rank: genus
300. Marsilea
     rank: genus
301. Marsupella
     rank: genus
302. Martes
     rank: genus
303. Mauremys
     rank: genus
304. Megaptera
     rank: genus
305. Melilotus
     rank: genus
306. Mesoplodon
     rank: genus
307. Microtus
     rank: genus
308. Miniopterus
     rank: genus
309. Monachus
     rank: genus
310. Murbeckiella
     rank: genus
311. Mustela
     rank: genus
312. Myosotis
     rank: genus
313. Myotis
     rank: genus
314. Narcissus
     rank: genus
315. Nyctalus
     rank: genus
316. Omphalodes
     rank: genus
317. Ononis
     rank: genus
318. Orcinus
     rank: genus
319. Oxygastra
     rank: genus
320. Pelobates
     rank: genus
321. Pelophylax
     rank: genus
322. Petromyzon
     rank: genus
323. Phocoena
     rank: genus
324. Physeter
     rank: genus
325. Picconia
     rank: genus
326. Picris
     rank: genus
327. Pipistrellus
     rank: genus
328. Plantago
     rank: genus
329. Plecotus
     rank: genus
330. Polystichum
     rank: genus
331. Proserpinus
     rank: genus
332. Prunus
     rank: genus
333. Pseudarrhenatherum
     rank: genus
334. Pseudochondrostoma
     rank: genus
335. Pseudorca
     rank: genus
336. Rana
     rank: genus
337. Rhaponticoides
     rank: genus
338. Rhinolophus
     rank: genus
339. Rhynchosinapis
     rank: genus
340. Rumex
     rank: genus
341. Ruscus
     rank: genus
342. Salix
     rank: genus
343. Salmo
     rank: genus
344. Sanicula
     rank: genus
345. Santolina
     rank: genus
346. Saxifraga
     rank: genus
347. Scabiosa
     rank: genus
348. Scilla
     rank: genus
349. Scrophularia
     rank: genus
350. Senecio
     rank: genus
351. Silene
     rank: genus
352. Sinapidendron
     rank: genus
353. Spergularia
     rank: genus
354. Sphagnum
     rank: genus
355. Spiranthes
     rank: genus
356. Squalius
     rank: genus
357. Stenella
     rank: genus
358. Tadarida
     rank: genus
359. Tarentola
     rank: genus
360. Teira
     rank: genus
361. Teucrium
     rank: genus
362. Thamnobryum
     rank: genus
363. Thymelaea
     rank: genus
364. Thymus
     rank: genus
365. Triturus
     rank: genus
366. Tuberaria
     rank: genus
367. Tursiops
     rank: genus
368. Ulex
     rank: genus
369. Unio
     rank: genus
370. Vandenboschia
     rank: genus
371. Verbascum
     rank: genus
372. Veronica
     rank: genus
373. Vipera
     rank: genus
374. Woodwardia
     rank: genus
375. Ziphius
     rank: genus

Mainland Portugal and Portuguese islands.