Table 2.
Viral probes and fold-change during infection kinetics.
| Amplicon name | Transcript name | Fold-change | Encoded protein and function* | Structural role* | |||||
| T0 | T1 | T2 | T4 | T8 | T12 | ||||
| ORF1 | ORF1 | - | - | - | - | - | unknown | virion | |
| UL54 | UL52/UL53/UL54 | - | - | - | - | - | - | ||
| UL53 | UL52/UL53 | - | - | 4.6 | 6.6 | 6.7 | 7.4 | ||
| UL52 | UL52 | - | - | - | 4.7 | 6.4 | 5.6 | DNA replication; primase subunit of UL5/UL8/UL52complex | nonstructural |
| UL51 | UL51 | - | - | - | - | - | - | viral egress | tegument |
| UL50 | UL50 | - | - | - | - | - | - | dUTPase | nonstructural |
| UL49.5 | UL49.5 | - | 4.4 | 6.4 | 9.0 | 10.4 | 13.5 | gN; immune evasion (TAP inhibitor) | envelope |
| UL49 | UL49.5/UL49 | - | - | - | - | - | - | ||
| UL48 | UL48 | - | - | - | - | - | - | VP16, α-TIF; gene regulation(transactivator); viral egress | tegument |
| UL47 | UL48/UL47 | - | - | - | - | 4.0 | 3.9 | ||
| UL46 | UL48/UL47/UL46 | - | - | - | - | - | - | VP11/12; unknown; tegument protein | |
| GII | UL28/UL27 | - | - | - | - | 6.7 | 6.3 | ||
| ICP18.5 | UL28 | - | - | - | - | - | 7.4 | ICP18,5; DNA cleavage and packaging; component of the UL15/UL28 terminase | capsid precursor |
| UL29 | UL29 | - | 6.0 | 9.2 | 10.6 | 8.9 | 10.9 | ICP8; DNA replication and recombination; binds ssDNA | nonstructural |
| UL30 | UL30 | - | - | 4.2 | - | - | - | DNA replication; DNA polymerase subunit of UL30/UL42 holoenzyme | nonstructural |
| UL31 | UL32/UL31 | - | - | - | 4.5 | 9.2 | 10.1 | ||
| UL32 | UL32 | - | - | - | - | 4.0 | 4.1 | DNA packaging; efficient localization of capsids to replication compartments | capsid precursor |
| UL33 | UL33 | - | - | - | - | 4.5 | 5.8 | DNA cleavage and packaging; associates with UL28 and UL15 | nonstructural |
| UL34 | UL33/UL34 | - | - | - | - | 6.1 | 5.0 | ||
| UL35 | UL33/UL34/UL35 | - | - | 5.6 | 7.1 | 9.5 | 9.5 | ||
| UL361 | UL36 | - | - | - | - | - | - | VP1/2; viral egress(capsid tegumentation); interacts with Ul37 and capsid | tegument |
| UL362 | UL36 | - | - | - | - | - | 3.8 | VP1/2; viral egress(capsid tegumentation); interacts with Ul37 and capsid | tegument |
| UL37 | UL37maj/UL37min | - | - | - | - | - | 5.0 | ||
| UL38 | UL38 | - | - | - | - | - | - | VP19c; minor capsid protein; UL38/UL18/UL18 triplex component | capsid |
| UL39 | UL39 | - | - | - | - | 4.4 | 6.3 | nucleotide synthesis; large subunit of ribonucleotide reductase | nonstructural |
| UL40 | UL39/UL40 | - | - | - | - | - | - | ||
| UL41 | UL41 | - | - | - | - | 4.2 | 6.8 | VHS, gene regulation; Rnase, degrades host and viral mRNAs | tegument |
| UL42 | UL42 | - | - | - | 6.3 | 6.9 | 4.6 | DNA replication; polymerase accessory subunit of UL30/UL42 holoenzyme | nonstructural |
| UL43 | UL43 | - | - | - | - | 4.1 | 6.2 | inhibits glycoprotein-mediated membrane fusion; type III membrane protein | envelope |
| GIIINIA3 | UL44 | - | - | - | 8.2 | 12.7 | 13.9 | gC; viral entry (virion attachment); type I membrane protein | envelope |
| ORF2NIA3 | UL24/UL25/UL26/UL26.5 | - | - | - | - | - | - | ||
| UL26NIA3 | UL24/UL25/UL26 | - | - | - | 6.7 | 8.3 | 7.6 | ||
| ORF1NIA3 | UL24/UL25 | 8.1 | 8.0 | ||||||
| UL25NIA3 | UL24/UL25 | - | - | - | 8.3 | 10.7 | 12.2 | ||
| UL24NIA3 | UL24 | - | - | - | 6.9 | 9.8 | 10.4 | unknown, type III membrane protein | unknown |
| TKNIA3 | UL23 | - | - | - | - | 5.0 | 6.8 | TK, nucleotide synthesis; thymidine kinase; selectively activates acyclovir | nonstructural |
| GHNIA3 | UL22 | - | - | 4.8 | 6.0 | 8.8 | 9.0 | gH; viral entry (fusion); cell-cell spread; type i membrane PT | envelope |
| UL21NIA3 | UL21 | - | - | - | - | 5.9 | 5.5 | unknown; capsid-associated tegument protein; interacts with UL16 | tegument |
| UL20NIA3 | UL20 | - | - | - | 3.8 | 5.3 | 7.3 | viral egress, type III membrane protein | unknown |
| UL191 | UL19maj/UL19min | - | - | - | 5.0 | 9.7 | 10.8 | ||
| UL192 | UL19maj/UL19min | - | - | 6.6 | 8.6 | 12.6 | 12.9 | ||
| UL18 | Ul19min/UL18 | - | - | - | 7.0 | 5.7 | 9.6 | ||
| UL15EX2 | UL15 (2nd exon) | - | - | 6.4 | 6.5 | 7.5 | 9.2 | DNA cleavage/encapsidation; terminase subunit of UL15/UL28 terminase6 | capsid precursor |
| UL17 | UL17 | - | - | - | - | - | - | DNA cleavage and encapsidation | inner capsid |
| UL16 | UL17/Ul16 | - | - | - | 4.5 | 6.2 | 5.0 | ||
| UL15EX12 | UL15 (1st exon) | - | - | - | - | 4.0 | 7.7 | DNA cleavage/encapsidation; terminase subunit of UL15/UL28 terminaseUL6 | capsid precursor |
| UL14 | UL14 | 6.1 | 6.1 | 9.8 | unknown | unknown | |||
| UL142 | UL14 | - | - | - | - | 6.3 | 7.8 | unknown | unknown |
| UL13 | UL14/UL13 | - | - | - | - | - | - | ||
| UL12 | UL14/UL13/UL12 | - | - | - | - | 3.7 | 5.3 | ||
| UL11 | UL14/UL13/UL12/UL11 | - | - | - | - | - | 6.0 | ||
| UL10 | UL10 | - | - | - | - | 6.6 | 6.1 | gM; inhibits glycoprotein-mediated membrane fusion; type III membrane protein | envelope |
| UL92 | UL9 | - | - | - | - | - | 4.1 | not found | non structural |
| UL8.5 | UL9/UL8.5 | - | - | - | 4.0 | - | - | ||
| UL8 | UL9/UL8.5/UL8 | - | - | - | - | - | - | ||
| UL7 | UL6/UL7 | - | - | 5.0 | 7.4 | 10.7 | 9.4 | ||
| UL6 | UL6 | - | - | 5.0 | 12.7 | 13.8 | 13.3 | capsid protein; portal protein; docking site for terminase | capsid |
| UL5 | UL5 | - | - | 4.3 | 6.3 | 8.7 | 5.9 | DNA replication; part of UL5/UL8/UL52 helicase/primase complex | nonstructural |
| UL4 | UL5/UL4 | - | - | - | - | 3.5 | 5.5 | unknown | |
| UL3.5 | UL1/UL2/UL3/UL3.5 | - | - | - | - | - | - | ||
| UL3 | UL1/UL2/UL3 | - | - | - | - | 5.1 | 6.5 | ||
| UL2 | UL1/UL2 | - | - | - | 4.2 | 5.4 | 5.4 | ||
| UL1 | UL1 | - | - | - | - | 6.5 | 7.3 | gL; viral entry (fusion); sell-sell spread | envelope |
| LLTE1 | LLT (1st exon) | - | - | - | 4.6 | 6.5 | 8.0 | not found | unknown |
| EP02 | EP0/LLT | - | - | - | - | - | - | ||
| EP01 | EP0/LLT | - | - | - | - | 6.3 | 4.7 | ||
| LLTI2 | LLT intron | - | - | - | - | 3.7 | 4.7 | ||
| LLTE21 | LLT (2nd exon) | - | - | - | - | - | - | not found | unknown |
| IEP2 | IE180 | - | - | - | 3.5 | - | - | ICP4; gene regulation (transactivator); immediate early protein | nonstructural |
| IEP1 | IE180 | - | - | - | - | - | - | ICP4; gene regulation (transactivator); immediate early protein | nonstructural |
| Ba5 | IE180/LLT (2nd exon) | 5.9 | 6.7 | 4.3 | |||||
| LLTE222 | LLT (2nd exon) | - | - | - | 6.8 | 8.9 | 8.2 | not found | unknown |
| RSP40 | US1 | - | 5.3 | 8.3 | 12.9 | 15.3 | 13.0 | RSP40/ICP22; unknown; HIV-1 homolog acts as regulator of gene expression | nonstructural |
| PKNIA3 | US3maj/US3min | - | - | - | - | 6.0 | 5.0 | PK, minor and major form of protein kinase; inhibits apoptosis | tegument |
| GXGG | US3maj/US3min/US4 | - | - | 6.5 | 9.1 | 10.6 | 11.0 | ||
| GP50GD | US6 | - | - | - | - | - | - | gD; viral entry, type I membrane protein | envelope |
| GP63GI | US6/US7 | - | - | - | 5.0 | 6.3 | 8.5 | ||
| GIGE | US8 | - | - | - | 4.0 | - | 4.3 | gE; cell-cell spread | envelope |
| 11K2 | US9/US8 | - | - | - | 9.0 | 10.0 | 10.4 | ||
| 28KNIA3 | US2 | - | - | - | 6.2 | 6.9 | 7.1 | 28K, tegument protein; membrane associated protein | tegument |
*gene function and structural role [1] are only specified for amplicons that hybridize to a single transcript.
- gene not found differentially expressed between PrV infected and mock-infected cells