TABLE 2.
Analysis of laboratory and wild yeast strains by TAPI
The amyloid identification procedure (TAPI) was performed on the listed yeast strains. The trypsin-treated fractions were analyzed blindly by commercial service (Keck Proteomics). Strains having GuHCl in their names were grown on YPD supplemented with 4 mm GuHCl for at least 60 generations to eliminate known amyloid-based prions. “Dilution” indicates the prion dilution experiment described under “Results” and in Fig. 2E. Yeast core ribosomal proteins as well as Tef1 and Tef3 were excluded from this table (they appear non-specifically in many samples).
| Strain name | Proteins identified by mass spectrometry |
|---|---|
| BY241[URE3] | Ure2, Sup35, Rnq1, Nop58, Sod2, Mrs3, Qri7, Nsr1, Cdc28, Pma1, Mnn9, Msc7 |
| BY241 GuHCl | Bmh1, Scg1, Mdh1, Yfr016c, Yor220w, Rad50, Cdc28, Coq5, UBI4, Ygr131w |
| BY4741 HttQ103-GFP | Q103-GFP, Rnq1, Pub1, Ynl208w, Bmh1, Glg2, Glg1, Snz2, Ptc2, Msc7, Sov1, Ctf18, Prm9, Ypr091c |
| 74D694[PSI+][RNQ+] 30% total (dilution) | Sup35, Rnq1, Nop58, Vps5, Msc7, Sis1, Cdc28, Mnn9, Ygr130c |
| 74D694[PSI+][RNQ+] 10% total (dilution) | Sup35, Nop58, Vps5, Ymr087w, Mrs3, Yir004w, Npp2, Ptc2, Sam4, Cdc28, Msc7, Tao3, Lys2, Opi3 |
| 74D694[PSI+][RNQ+] 3% total (dilution) | Vps5, Mrs3, Yir004w, Cdc28, Tao3, Mnn9 |
| DK365 [RNQ+] | Rnq1, Nop58, Nsr1, Pma1, Deg1, Ygr122w |
| ucd939[PSI+][RNQ+] | Rnq1, Sis1, Msc7, Nop58, Ynd1, Cdc28, Sam4, Ams1, Mnn9 |
| ucd939 GuHCl | Nop58, Ecm33, Cdc28, Yrf1, Yir004w, Ymr087w, Sdh1, Myo1, Lys2, Cue2, Ygr130c, Ysp1, Rtn1, Msl5 |
| ucd978 | Sup35, Rnq1, Msc7, Ykr015c, Mnn9 |
| ATCC26249 | Msc7, Myo1, Mnn9, Fhn1 |
| ATCC26249 GuHCl | Pma1, Sir1, Mrs3, Mnn9, Cdc28, Msc7 |
| I14 | Ssk1, Mnn9, Myo1, Cdc28, Pma1, Msc7 |
| I14 GuHCl | Med8, Sir1, Yfr016c, Rsc30, Rad50, Cdc28, Sam4, Hrd3 |
| YJM653 | Cdc19, Glg2, Pma1, Nop58, Cdc28, Sam4, Glg1, Msc7, Hrd3, Gir2 |
| YJM653 GuHCl | Vps5, Cdc28, Ptc2, Sov1, Msc7, Ylr290c, Mdn1 |
| F1535 | Pma1, Yil169, Nop58, Nsr1, Cdc28, Ygr131w |
| F1545 | Rsc3, Cdc28, Myo1, Mnn9, Msc7, Zip1, Ynd1 |
| F1545 GuHCl | Uba3, Ecm22, Coq5, Cdc28 |
| YJM428 | Cdc19, Yjr129c (SAM), Nop58, Deg1, Ptc2p, Has1, Msc7 |
| YJM428 GuHCl | YFR016C, Snz2, Ktr7, Gfd1, Mnn9 |
| BY4741 | Glg1, Glg2, Hst2, Msc7, Pma1, Def1, Rgd2, Mnn9, Myo1 |
| BY4741 Δhsp104 | Glg1, Glg2, Act1, Msc7, Myo1, Cdc28 |
| W303 | Med8, Bmh1, Mnn9, Ygr130c, Htb2, Cdc28, Yir004w, Msc7 |