Supplemental Table 1. Primers Used for RACE

Supplemental Table 1. Primers used for RACE.

Gene / Direction / Primer / Sequence (5'-3')
Contig00093 / 5' RACE / R2 / CCAGGGGTCAAAGGGGTAGATG
R3 / GATGGAGATGAGGAAGAGCGAG
3' RACE / F2 / GGCTACCACTTCTGGATGAGCA
F3 / ATGTCCAAGATCCCGTGGTACAAC
F4 / CTGCCCAACAACATGTAAAGGGC
Contig02042 / 5' RACE / R1 / CATCGCTGATCTTGTCTCCAGCG
R2 / ACAGCGTCCTTGACGTTCTTGG
3' RACE / F1 / AGGAGGTGATCGACAAGGTGCG
F2 / ATTAGTAGGGCCTGCCCTGTTTG
Contig01058 / 5' RACE / R1 / ATCATAGGCGCTAGACGCTGCATC
R2 / ATGGGGGCGAAGGTGAGAGAC
3' RACE / F1 / AAGACCGAGGAGGTGATCG
F2 / CGCTGTGATTAGTAGGGCCTGC

Supplemental Table 2. Genes most commonly expressed, showing lengths and read numbers.

Contig ID / Description / Species / Length (bp) / # of reads
contig01809 / light-harvesting protein of photosystem II / Chlamydomonas reinhardtii / 1107 / 411
contig02062 / eukaryotic translation elongation factor 1 alpha 1 / Chlamydomonas reinhardtii / 1432 / 406
contig01488 / antifreeze protein / Chlorella vulgaris / 595 / 406
contig01831 / predicted protein / Naegleria gruberi / 3268 / 397
contig01777 / light-harvesting complex II chlorophyll a-b binding protein / Chlamydomonas reinhardtii / 1122 / 359
contig01879 / chloroplast light-harvesting complex II protein precursor / Chlamydomonas reinhardtii / 1114 / 320
contig00095 / unknown / Glycine max / 757 / 315
contig00352 / hypothetical protein AR158_C788L / Paramecium bursaria / 3486 / 305
contig00426 / ribosomal protein L37a / Chlamydomonas reinhardtii / 490 / 293
contig02402 / antifreeze protein / Chlorella vulgaris / 1006 / 279
contig02165 / hypothetical protein OsI_32449 / Oryza sativa Indica group / 617 / 244
contig00100 / limiting CO2 inducible protein / Chlamydomonas reinhardtii / 1864 / 229
contig02005 / hypothetical protein SORBIDRAFT_10g021950 / Sorghum bicolor / 454 / 229
contig00109 / unnamed protein product / Tuber melanosporum / 548 / 227
contig00036 / ribosomal protein S6 / Chlamydomonas reinhardtii / 1108 / 222
contig00048 / ribosomal protein L5 / Chlamydomonas reinhardtii / 1161 / 220
contig02360 / 60S ribosomal protein L35 / Elaeis guineensis / 524 / 219
contig00415 / predicted protein / Micromonas pusilla / 897 / 216
contig01764 / ribosomal protein L6 / Chlamydomonas reinhardtii / 933 / 215
contig01825 / predicted protein / Physcomitrella patens subsp / 638 / 210
contig02359 / ribosomal protein L13a / Chlamydomonas reinhardtii / 805 / 207
contig00018 / predicted protein / Physcomitrella patens subsp / 392 / 197
contig01814 / ribose import ATP-binding protein RbsA / Streptomyces sp. / 890 / 194
contig00069 / stress-related chlorophyll a/b binding protein 1 / Chlamydomonas reinhardtii / 1277 / 193
contig01389 / ribosomal protein L37 (ISS) / Ostreococcus tauri / 430 / 191
contig02400 / predicted protein / Physcomitrella patens subsp / 828 / 187
contig01913 / predicted protein / Physcomitrella patens subsp / 641 / 187
contig00468 / predicted protein / Populus trichocarpa / 642 / 184
contig01834 / chloroplast ribulose-1,5-bisphosphate carboxylase/oxygenase / Chlamydomonas reinhardtii / 494 / 183
contig02301 / No hits / 337 / 183
contig01832 / antifreeze protein / Chlorella vulgaris / 346 / 182
contig00224 / unknown / Populus trichocarpa / 852 / 173
contig00090 / predicted protein / Micromonas sp. RCC299 / 972 / 170
contig01847 / 60S ribosomal protein / Chlamydomonas sp. ICE-L / 641 / 169
contig00143 / thiazole biosynthetic enzyme / Chlorella vulgaris / 1061 / 168
contig01922 / unknown / Glycine max / 859 / 168
contig02224 / Ribosomal protein S21e / Medicago truncatula / 465 / 161
contig00317 / ABC transporter / Chlamydomonas reinhardtii / 4673 / 159
contig00278 / ribosomal protein S5 / Auxenochlorella protothecoides / 909 / 158
contig00130 / ribosomal protein L27a / Auxenochlorella protothecoides / 727 / 158
contig01839 / ribosomal protein S27a / Chlamydomonas reinhardtii / 725 / 157
contig00204 / hypothetical protein / Chlamydomonas sp. HS-5 / 758 / 156
contig00199 / predicted protein / Physcomitrella patens subsp / 580 / 155
contig02157 / proteophosphoglycan 5 / Leishmania major / 472 / 155
contig00009 / ribosomal protein L27 / Pyrobotrys stellata / 602 / 154
contig00077 / ribosomal protein L8 / Chlamydomonas reinhardtii / 1117 / 149
contig00008 / No hits / 186 / 147
contig00004 / chloroplast glyceraldehyde 3-phosphate dehydrogenase / Botryococcus sp. / 1739 / 142
contig00093 / plastid delta12 fatty acid desaturase / Chlorella vulgaris / 1592 / 142
contig00593 / ribosomal protein S29 subunit / Chlamydomonas sp. ICE-L / 637 / 142
contig00072 / elongation factor 2 / Chlorella pyrenoidosa / 2970 / 139
contig01904 / translation initiation factor 5A / Thinopyrum intermedium / 946 / 137
contig00152 / No hits / 222 / 137
contig02041 / No hits / 364 / 125
contig00064 / fructose-1,6-bisphosphate aldolase / Chlamydomonas reinhardtii / 1494 / 118
contig02386 / No hits / 326 / 113
contig00200 / transketolase / Chlamydomonas reinhardtii / 2600 / 112
contig02343 / S-adenosyl homocysteine hydrolase / Chlamydomonas reinhardtii / 1642 / 112
contig00137 / proteophosphoglycan 5 / Leishmania major / 2427 / 106
contig01701 / No hits / 864 / 102