Table 2.
Gene enrichment analysis of proteins in base states k-means clusters 1-5
| Annotation Term | Score | Fold | Genes |
|---|---|---|---|
| Cluster 1 | |||
| Mt membrane | 8.3 | 16 | GPD2, ACADVL, CPT2, ACSL1, SAMM50, IMMT, ETFDH, UCP1, HSPD1, HADHA, MDH2 |
| TCA cycle | 4.3 | 51 | DLST, DLD, PDHA1, IDH3A, MDH2 |
| Flavoprotein | 4.3 | 38 | GPD2, ACADVL, DLD, ETFDH, PDHA1 |
| Fatty acid metabolism | 3.9 | 16 | ACADVL, CPT2, ACSL1, ETFDH, HADHA |
| Organelle lumen | 2.7 | 3 | ACADVL, DLST, VCP, ERP29, DLD, PDHA1, HSPD1, IDH3A, HADHA, MDH2 |
| Glucose metabolism | 2.5 | 16 | GPD2, PDHA1, MDH2, ENO1 |
| Cluster 2 | |||
| Mt inner membrane | 17.1 | 22 | ACAA2, CKMT1B, OPA1, COX7A2, IMMT, PHB, STOML2, TIMM50, CRAT, UCP1, COX5A, HADHA, HADHB, ACADVL, MCCC1, HSPD1, HADH, MDH2, PC |
| Mt matrix | 10.8 | 24 | DLST, GRPEL1, ACADM, OGDH, ACADL, HADHA, IDH3A, HADHB, ACADVL, IDH3G, C1QBP, MCCC1, HSPD1, HADH, MDH2, PC |
| Fatty acid metabolism | 8.4 | 64 | ACADVL, ACAA2, ACADM, CRAT, HADH, ACADL, HADHA, HADHB |
| TCA cycle | 5.4 | 141 | DLST, IDH3G, SUCLA2, OGDH, IDH3A, MDH2 |
| Purine nucleotide binding | 3.0 | 3 | GRPEL1, ACADM, CKMT1B, OPA1, ACADL, CMPK1, ACADVL, IDH3G, MCCC1, RAB11B, HSPD1, HSPA5, SUCLA2, PC |
| Cluster 3 | |||
| Mt transit peptide | 8.2 | 30 | SDHA, UQCRC1, ACO2, PITRM1, HIBADH, IDH3A, PC, ETFA |
| Aerobic respiration | 4.8 | 155 | SDHA, UQCRC1, ACO2, IDH3A |
| Cluster 4 | |||
| Oxidative metabolism | 3.6 | 10 | GPD2, ACADVL, NDUFS8, IDH3A, MDH2, MDH1 |
| Mt transit peptide | 3.5 | 12 | GPD2, ACADVL, NDUFS8, IDH3A, PCCA, MDH2 |
| 14-3-3 | 3.5 | 476 | YWHAZ, YWHAG, YWHAB, YWHAE |
| Cytoplasmic vesicle | 3.1 | 5 | YWHAZ, YWHAB, CTSD, YWHAE, ANXA2 |
| Cluster 5 | |||
| Complex assembly | 2.7 | 6 | PPP2R1A, GSN, FGB, FKBP4, GPX3, CDA, ANXA5 |
| Mt matrix | 2.4 | 9 | DBT, HSPE1, SOD1, ACADL, ACAT1 |
| 14-3-3 | 1.8 | 486 | YWHAG, YWHAQ, YWHAE |
| Apoptosis regulation | 1.5 | 3 | PPP2R1A, HSPE1, SOD1, ANXA5, YWHAE, GSTP1 |
| Phosphoregulation | 1.4 | 4 | PRKAR2B, PPP2R1A, YWHAG, SOD1, YWHAE |
Pathways enriched in the BAT proteome (DAVID; Ref. 28) of 13-lined ground squirrels were selected from k-means clusters of the 203 identified protein spots that differed significantly among base states (Fig. 3). “Score” denotes enrichment score (significant if >1.3). “Fold” denotes pathway fold enrichment. Redundant pathways and those contained as subsets within broader pathways were removed.
Mt, mitochondria; TCA, tricarboxylic acid.