Phyloinformatics is the linking of biodiversity data together, such as information on Apomys specimens, to integrate various data sources and learn more about organisms than what is known from any single source. Key aspects of phyloinformatics include linking taxonomy, geography, phylogeny, and extracting information through data and text mining to build a more complete understanding of organisms.

1. What is “phyloinformatics”?

4. Linking biodiversity data together

5. Apomys datae

8. Apomys specimen

10. How do we integrate these data?

11. Why integrate?

12. Learn stuff we don’t know

13. • There are knownknowns, things we know that we
know
• There are knownunknowns, things we now know
we don’t know
• But there are also unknownunknowns, things we
do not know we don't know

14. Unknown knowns

15. Things we know
…without knowing that we know

16. Melissotarsus insularis

17. 1
Melissotarsusinsularis no hit
Melissotarsus insularis CASENT0107663-D01
CASENT0107663-D01 DQ176312
DQ176312 Melissotarsus sp.
Melissotarsus sp.
BLF m1
= Melissotarsus insu

18. No one source has all the
answers

19. 19

21. Single source

22. Many sources

24. Combine sources

26. ispecies.org

27. Linking
• Finding information about organisms
• Linking together in “mashups”

28. Geography

30. @rdmpage

31. @andrewxhill

34. Geography
• Species distributions
• Geophylogenies

35. Taxonomy

36. 36

37. Names can change…
Leptodactylus fuscus (Schneider)
1799Rana fusca Schneider
1802 Ranatyphonia Sonnini & Latreille
1803 Ranatyphonia Daudin
1824 Ranasibilatrix Wied
1826 Leptodactylustyphonius Fitzinger
1841 Cystignathustyphonius Dumeril & Bibron
1843 Leptodactylustyphonius Fitzinger
1858 Cystignathusfuscus Günther
1882 Leptodactylustyphonius Boulenger
1927 Leptodactylussibilatrix Müller
1935 Leptodactylussibilatrix Parker
1968 Leptodactylusfuscus Heyer

41. Taxonomy as a source of data

44. “Dark taxa”

45. Classification

46. http://synthesis.eol.org/media/treemap/

49. Taxonomy
• Names
• Synonyms
• Classifications
• Visualisation

50. Phylogeny

52. Rate of growth of phylogenetic knowledge
Number of
papers with
“molecular”
and
“phylogeny” in
Web of
Science Number
of
studie
s in
TreeBA
SE

56. Phylogeny
• Finding a phylogeny for a group of organisms
• Displaying on the web (visualisation)

57. Data mining

59. Text mining

60. Morphological and molecular description of
Haematoloechusmeridionalis n. sp. (Digenea:
Plagiorchioidea: Haematoloechidae) from
Ranavaillantibrocchi of Guanacaste, Costa Rica
Halipeguseschi n. sp. (Digenea: Hemiuridae) in
Ranavaillanti from Guanacaste Province, Costa Rica
Haematoloechusdanbrooksi n. sp. (Digenea:
Plagiorchioidea) from Ranavaillanti from Los Tuxtlas,
Veracruz, Mexico

61. What do crustaceans live on?
Fungi Arthropods
Vertebrates
Green
plants
Bacteria

62. What do insects live on?
Fungi Arthropods
Vertebrates
Green
plants
Bacteria

63. Data mining
• Extracting information from the literature
• Extracting information from databases

64. The End