Cypridinidae Phylogeny

Data Sources

Compiled

• THO is compiling all raw datasets on the Osiris demo server [[1]]

Morphological matrix

• Cohen and Morin (2003)
• Uploaded to MorphoBank
• Requires conversion of species names to match other data
  • Partly done, but needed for some data partitions

Lisa Torres Matrix

• Thesis of Vanessa Gonzalez
• 16S, COI, 12S and H3 genes

Transcriptome Data

• Oakley et al (2013) included Skogsbergia lerneri and Vargula tsujii [[2]]
  • OET13 included Regier (2010) data in S. lerneri
• von Reumont (2011) included 1 undescribed species. Based on collection locality in Mediterranean, this is likely Skogsbergia [[3]]
  • I downloaded these sequences and ran Hamster with arthNreg HMMS here [[4]]
• We have multiple new transcriptomes that we used for finding luciferases

GenBank Data

• 18S
  • Mainly from Oakley and Cunningham (2002) [[5]]
  • Also Yamaguchi and Endo, but this only has V. hilgendorfii, which is also in O&C02 [[6]]
• 16S
  • Wakayama see table 1 [[7]]

TO DO

• In MorphoBank, Create separate partitions for binary and multi
• Full mt genomes could be useful and might be present in transcriptomes. Make HMM set for ostracod mt genomes using V. hilgendorfii and Argulus(?)