Formally described species woefully underrepresent phylogenetic diversity in the common lichen photobiont genus Trebouxia (Trebouxiophyceae, Chlorophyta): An impetus for developing an integrated taxonomy

ITS Alignments:

clade 'A' - MAFFT alignment = "A_ITS_24Oct2016_MAFFT.fas"

clade 'A' GUIDANCE alignment w/ columns removed = "A_ITS_24Oct2016_columns95.fas"

clade 'A' GUIDANCE alignment w/ residues removed = A_ITS_24Oct2016_residues95.fas.txt"

clade 'C' MAFFT alignment = "ITS_C_24Oct2016_MAFFT.fas"

clade 'C' GUIDANCE alignment w/ columns removed = "ITS_C_24Oct2016_columns94.fas"

clade 'C' GUIDANCE alignment w/ residues removed = "ITS_C_24Oct2016_residue94.fas"

clade 'I' MAFFT alignment = "ITS_I_24Oct2016v1_MAFFT.fas"

clade 'I' GUIDANCE alignment w/ columns removed = "ITS_I_24Oct2016_columns95v1.fas"

clade 'I' GUIDANCE alignment w/ residues removed = "ITS_I_24Oct2016_residues95v1.fas"

clade 'S' MAFFT alignment = "ITS_S_24Oct2016_MAFFT.fas"

clade 'S' GUIDANCE alignment w/ columns removed = "ITS_S_24Oct2016_columns95.fas"

clade 'S' GUIDANCE alignment w/ residues removed = "ITS_S_24Oct2016_residues95.fas"

Concatenated alignments

all clades combined (n=870): ITS (GUIDANCE alignments w/ columns removed), rbcL. cox2 = "a_c_i_g_ITS_rbcL_cox2_02Nov2016_v1.nex"

reduced genus-wide dataset (n=399) to minimize missing data: ITS (GUIDANCE alignments w/ columns removed), rbcL. cox2 = "a_c_i_g_ITS_rbcL_cox2_reduced_10Nov2016.phy"