Table 4. Selection marker integration.
| Strain # | Digestion | Strain | Integration sequence | Integration locus | Gene hit |
| 1 | HindIII | wt | HIS4 250 bp | Chr. 2 (1088794) | Protein Mis14 |
| 1 | EcoRI | wt | HIS4 250 bp | Chr. 2 (1088794) | Protein Mis14 |
| 2 | BglII | wt | HIS4 250 bp | Chr. 4 (1549929) | Cell morphogenesis protein Pag1 |
| 3 | BamHI | muts | HIS4 250 bp | Chr. 1 (2815628) | Non-coding: 64 bp at 5′ side: Protein Tos1, 292 bp at 3′ side: Uncharacterized protein YPL066W |
| 3 | BglII | muts | HIS4 250 bp | Chr. 1 (2815628) | Non-coding: 64 bp at 5′ side: Protein Tos1, 292 bp at 3′ side: Uncharacterized protein YPL066W |
| 4 | BglII | muts | HIS4 250 bp | Chr. 4 (1356618) | Non-coding: upstream of hypothetical protein |
| 6 | HindIII | wt | HIS4 250bp | Chr. 1 (1935839) | Non-coding: 98 bp at 5′ side: Protein Lst4, 310 bp at 3′ side: protein midasin |
| 8 | BamHI | muts | HIS4 250 bp | Chr. 4 (1549929) | Cell morphogenesis protein Pag1 |
| 10 | BglII | wt | HIS4 250 bp | Chr. 3 (1866738) | Non-coding: 66 bp at 5′ side: Zinc finger protein 167, 288 bp at 3′ side: 1,3-beta-glucanosyltransferase |
| 10 | BamHI | wt | HIS4 250 bp | Chr. 3 (1866738) | Non-coding: 66 bp at 5′ side: Zinc finger protein 167, 288 bp at 3′ side: 1,3-beta-glucanosyltransferase |
| 11 | HindIII | muts | HIS4 250 bp | Chr. 4 (1354273) | Protein Ecm3 |
| 12 | BamHI | muts | HIS4 250 bp | Chr. 1 (2137406) | Ammonium transporter protein Mep2 |
| 13 | HindIII | wt | HIS4 250 bp | Chr. 1 (2706933) | Inositol 2-dehydrogenase |
| 14 | BamHI | muts | HIS4 250 bp | Chr. 4 (846891) | Non-coding: 188 bp at 5′ side: Protein Letm1 and EF-hand domain-containing protein anon-60Da, 143 bp at 3′ side: phosphatidylinositol 3-kinase |
| 19 | EcoRI | wt | ADE1 150 bp | Chr. 3 (87007) | Non-coding: 420 bp at 3′ side: mannose-6-phosphate isomerase |
| 20 | BamHI | wt | ADE1 150 bp | Chr. 1 (1994439) | Likely SIR2 family histone deacetylase |
| 21 | EcoRI | wt | ADE1 150 bp | Chr. 3 (2074903) | Eukaryotic translation initiation factor 2 subunit alpha |
| 21 | HindIII | wt | ADE1 150 bp | Chr. 3 (2074903) | Eukaryotic translation initiation factor 2 subunit alpha |
Integration sites of the gene disruption cassettes in P. pastoris wt strains which remained autotroph after selection marker integration.