Gasparre et al. 10.1073/pnas.0703056104. |
Fig. 4. IL-6 secretion and mitochondrial morphology. IL-6 levels (A) detected in normal and tumor primary culture showing higher secretion in tumor cultures (n = 3). Mitochondrial network in live cells of normal (B) and tumor (C) primary cultures.
Table 3. mtDNA genome access numbers for data deposited in HmtDB (http://www.hmdb.uniba.it/hmdb/)
Sample | Genome ID in HmtDB |
TC1 | PA_EU_IT_0001 |
TC2 | PA_EU_IT_0002 |
TC3 | PA_EU_IT_0003 |
TC4 | PA_EU_IT_0004 |
TC5 | PA_EU_IT_0005 |
TC6 | PA_EU_IT_0006 |
TC7 | PA_EU_IT_0007 |
TC8 | PA_EU_IT_0008 |
TC9 | PA_EU_IT_0009 |
TC10 | PA_EU_IT_0010 |
TC11 | PA_EU_IT_0011 |
TC12 | PA_EU_IT_0012 |
TC13 | PA_EU_IT_0013 |
TC14 | PA_EU_IT_0014 |
TC15 | PA_EU_IT_0015 |
TC16 | PA_EU_IT_0016 |
TC17 | PA_EU_IT_0017 |
TC18 | PA_EU_IT_0018 |
TC19 | PA_EU_IT_0019 |
TC20 | PA_EU_IT_0020 |
TC21 | PA_EU_IT_0021 |
BRCA1 | PA_EU_IT_0022 |
BRCA2 | PA_EU_RO_0001 |
BRCA3 | PA_EU_IT_0023 |
BRCA4 | PA_EU_IT_0024 |
BRCA5 | PA_EU_IT_0025 |
BRCA6 | PA_EU_IT_0026 |
BRCA7 | PA_EU_IT_0027 |
BRCA8 | PA_EU_IT_0028 |
BRCA9 | PA_EU_IT_0029 |
BRCA10 | PA_EU_IT_0030 |
BRCA11 | PA_EU_IT_0031 |
BRCA12 | PA_EU_IT_0032 |
BRCA13 | PA_EU_IT_0033 |
BRCA14 | PA_EU_IT_0034 |
BRCA15 | PA_EU_IT_0035 |
BRCA16 | PA_EU_IT_0036 |
BRCA17 | PA_EU_IT_0037 |
BRCA18 | PA_EU_IT_0038 |
BRCA19 | PA_EU_IT_0039 |
BRCA20 | PA_EU_IT_0040 |
G1 | PA_EU_IT_0041 |
G2 | PA_EU_IT_0042 |
G3 | PA_EU_IT_0043 |
G4 | PA_EU_IT_0044 |
G5 | PA_EU_IT_0045 |
G6 | PA_EU_IT_0046 |
G7 | PA_EU_IT_0047 |
G8 | PA_EU_IT_0048 |
G9 | PA_EU_IT_0049 |
G10 | PA_EU_IT_0050 |
G11 | PA_EU_IT_0051 |
G12 | PA_EU_IT_0052 |
G13 | PA_EU_IT_0053 |
G14 | PA_EU_IT_0054 |
G15 | PA_EU_IT_0055 |
G16 | PA_EU_IT_0056 |
HCT1 | PA_EU_IT_0057 |
HCT2 | PA_EU_IT_0058 |
HCT3 | PA_EU_IT_0059 |
HCT4 | PA_EU_IT_0060 |
HCT5 | PA_EU_IT_0061 |
HCT6 | PA_EU_IT_0062 |
HCT7 | PA_EU_IT_0063 |
HCT8 | PA_EU_IT_0064 |
HCT9 | PA_EU_IT_0065 |
HCT10 | PA_EU_IT_0066 |
HCT11 | PA_EU_AL_0001 |
HCT12 | PA_EU_IT_0067 |
HCT13 | PA_EU_IT_0068 |
HCT14 | PA_EU_IT_0069 |
HCT15 | PA_EU_IT_0099 |
HCT16 | PA_EU_IT_0070 |
HCT17 | PA_EU_IT_0071 |
HCT18 | PA_EU_IT_0072 |
HCT19 | PA_EU_IT_0073 |
HCT20 | PA_EU_IT_0074 |
HCT21 | PA_EU_IT_0075 |
HCT22 | PA_EU_IT_0076 |
HCT23 | PA_AM_CL_0001 |
HCT24 | PA_EU_IT_0077 |
HCT25 | PA_EU_IT_0078 |
HCT26 | PA_EU_IT_0079 |
HCT27 | PA_EU_IT_0080 |
HCT28 | PA_EU_IT_0081 |
HCT29 | PA_EU_IT_0082 |
HCT30 | PA_EU_IT_0083 |
HCT31 | PA_EU_IT_0084 |
HCT32 | PA_EU_IT_0085 |
HCT33 | PA_EU_IT_0086 |
HCT34 | PA_EU_IT_0087 |
HCT35 | PA_EU_IT_0088 |
HCT36 | PA_EU_IT_0089 |
HCT37 | PA_EU_IT_0090 |
HCT38 | PA_EU_IT_0091 |
HCT39 | PA_EU_IT_0092 |
HCT40 | PA_EU_IT_0093 |
HCT41 | PA_EU_IT_0094 |
HCT42 | PA_EU_IT_0095 |
HCT43 | PA_EU_IT_0096 |
HCT44 | PA_EU_IT_0097 |
HCT45 | PA_EU_IT_0098 |
Table 4. Nonpotentially pathogenic novel variants in HCT and controls
Sample | Diagnosis | Base change | Amino acid change | Gene | Het. | PSIC | % sequenced |
BRCA1 | BRduct | G4084A | V260I | ND1 | - | 0.254 | 100 |
T6044C | - | COXI | - | ||||
BRCA10 | BRlob | A4953G | I162V | ND2 | - | 0.452 | 100 |
BRCA12 | BRduct | T2410C | - | 16S | - | 100 | |
BRCA14 | BRduct | G5985A | V28I | COXI | - | 0.105 | 100 |
G7814A | A77T | COXII | + | 1.809 | |||
A2124G | - | 16S | - | ||||
BRCA15 | BRduct | G13466A | S377N | ND5 | + | 0.317 | 100 |
BRCA16 | BRduct | T13762G | S476A | ND5 | - | 0.679 | 100 |
BRCA18 | BRduct | G9387C | V61L | COXIII | + | 1.218 | 100 |
BRCA19 | BRduct | C12562G | L76V | ND5 | - | 0.322 | 100 |
BRCA20 | BRduct | C14130T | - | ND5 | - | 100 | |
BRCA3 | BRduct | T15796C | - | CYTB | - | 100 | |
G1664C | - | TRNV | - | ||||
BRCA4 | BRduct | G15140A | V132I | CYTB | - | 0.493 | 100 |
T9018C | - | ATP6 | - | ||||
BRCA6 | BRlob | T4768C | M100T | ND2 | - | 0.996 | 100 |
BRCA8 | BRduct | C4832T | - | ND2 | - | 100 | |
BRCA9 | BRduct | C8455T | - | ATP8 | - | 100 | |
G12 | AST | C15742T | - | CYTB | - | 100 | |
G13 | AST | T7084C | I394T | COXI | - | 0.059 | 100 |
T961C | - | 12S | - | ||||
G2 | GBM | A9000G | - | ATP6 | - | 100 | |
G4 | OLG | C4107T | - | ND1 | - | 100 | |
G6 | OLG | C12562G | L76V | ND5 | - | 0.322 | 100 |
C14830T | - | CYTB | - | ||||
HCT1 | OHTN | A15187G | - | CYTB | - | 100 | |
HCT11 | OHTN | A12490G | T52A | ND5 | - | 0.778 | 99,4 |
HCT16 | OCAp | C13272T | - | ND5 | - | 100 | |
HCT17 | OHTN | A11797G | - | ND4 | - | 98,5 | |
A13419G | - | ND5 | - | ||||
2463insA | - | 16S | - | ||||
HCT2 | OCAp | A111C | - | D-loop | - | 98 | |
HCT21 | OHTN | T2259C | - | 16S | - | 98,2 | |
A4134G | - | ND1 | - | ||||
A12662G | N109S | ND5 | - | 0.085 | |||
HCT23 | OHTN | A6035G | - | COXI | - | 99,2 | |
HCT25 | OHTN | T334C | - | D-loop | - | 99,5 | |
HCT26 | OCA | A1717G | T573A | ND5 | - | 0.064 | 100 |
A8261G | T226A | COXII | - | 0.689 | |||
T8763C | - | ATP6 | - | ||||
C1703T | - | 16S | - | ||||
2110insA | - | 16S | - | ||||
HCT27 | OCA | C1452T | - | 12S | - | 100 | |
T1716C | - | 16S | - | ||||
HCT29 | OCA | C10043T | - | TRNG | - | 99,2 | |
HCT30 | OFA | C10870T | - | ND4 | - | 98,8 | |
HCT32 | OFA | C8346T | - | TRNK | - | 99 | |
HCT33 | OCA | A14274G | - | ND6 | - | 100 | |
HCT36 | OCAp | C5447T | - | ND2 | - | 100 | |
C11581T | - | ND4 | - | ||||
HCT38 | OFA | A12490G | T52A | ND5 | - | 0.778 | 100 |
HCT43 | OFA | C5960T | - | COXI | - | 100 | |
T15804C | V353A | CYTB | - | 0.396 | |||
C15823T | - | CYTB | - | ||||
C411A | - | D-loop | - | ||||
HCT5 | OHTN | G1345A | - | 12S | - | ||
HCT6 | OCA | T8063C | - | COXII | - | 100 | |
HCT8 | OHTN | C6215A | - | COXI | - | 98,3 | |
HCT9 | OHTN | T6457C | V185A | COXI | - | 0.907 | 100 |
TC11 | PTC | C3157T | - | 16S | - | 100 | |
TC12 | PTC | T16276C | - | D-loop | - | 100 | |
G16566A | - | D-loop | - | ||||
TC14 | PTC | T13635A | - | ND5 | - | 100 | |
TC15 | PTC | G7925A | G114S | COXII | - | 0.014 | 100 |
TC19 | PTC | C11177A | P140T | ND4 | + | 0.186 | 100 |
TC20 | PTC | A1943G | - | 12S | - | 100 | |
1906insC | - | 12S | - | ||||
TC5 | HTN | C16079T | - | D-loop | - | 100 | |
TC7 | HTN | T12235C | - | TRNS(AGY) | - | 100 |
Het, heteroplasmy; HTN, hyperplastic thyroid nodule; PTC, papillary thyroid carcinoma; BRduct, invasive ductal carcinoma of the breast; BRlob, invasive lobular carcinoma of the breast; OLG, oligodendroglioma; AST, astrocytoma; GBM, glioblastoma; OHTN, hyperplastic thyroid nodule-oncocytic; OFA, follicular thyroid adenoma-oncocytic; OCA, thyroid carcinoma-oncocytic; OCAp, thyroid carcinoma-oncocytic with focal cytologic features of papillary carcinoma; ND, not determined.
SI Materials and Methods
Mitochondrial Morphology in Living Cells.
Cells from primary cultures (3 ´ 105) were seeded into 36-mm dishes, and after 24 h, they were loaded for 30 min with 10 nM Mitotracker red. Images were captured with an inverted epifluorescence microscope with a ´63\/1.4 oil objective (Diaphot, Nikon, Japan) using Metamorph acquisition/analysis software (Universal Imaging Corp., Downingtown, PA).
IL-6 Secretion in Primary Cultures
. Cells were incubated for 6 h in starvation medium. IL-6 release in the medium was determined by ELISA analysis, according to the manufacturer's protocol (eBiosciences, San Diego, CA). Data, normalized on cells number, are means ±SD of three determinations (P < 0.005).