TABLE 2.
Methodology of functional reported papers on colorectal cancer.
| First author | Year | Bacteria/sample | Method specifics | Particle analysis | Microscopy | Protein analysis | Antibody specifics |
|---|---|---|---|---|---|---|---|
| Lin, LT | 2021 | Fusobacterium nucleatum |
3000 × g for 15 min 35,000 × g for 60 min 200,000 × g for 60 min 0.22‐µm filter |
Y | Y | N | NA |
| Wu, X | 2023 | F. nucleatum |
3000 × g for 10 min 0.45‐µm filter centrifuge for 20h 10,000 × g for 1 h 12,000 × g for 2 min exosome purification filter 3000 × g for 10 min |
Y | Y | Y | N, protein profile |
| Engevik, MA | 2021 | F. nucleatum |
7000 × g for 10 min mixed with 120 g of ammonium sulfate 10,000 × g for 20 min 10,000‐molecular‐weight cutoff dialysis tubing 292,700 × g for 3 h (70 Ti rotor; Beckman Coulter Inc.) 38,400 × g for 3 h |
Y | Y | N | NA |
| Wei, S | 2023 | F. nucleatum |
2500 × g for 10 min 0.22‐µm filter 100,000 × g for 70 min Two wash steps |
Y | Y | N | NA |
| Liu, L | 2021 | F. nucleatum |
10,000 × g for 20 min 0.22‐µm filter 100 kDa ultrafiltration 60,000 × g for 30 min Two wash steps 0.22‐µm filter 150,000 × g for 2 h using a sucrose density× gradient Detoxi‐Gel Endotoxin Removing Column |
Y | Y | N | NA |
| Lamprinaki, D | 2021 | F. nucleatum |
8500 × g for 15 min 0.22‐µm filter 100,000 molecular weight cut‐off filter unit density gradient ultra‐centrifugation 135,000 × g for 16h 200,500 × g for 2 h at 4°C using a Type 45 Ti rotor (Beckman Coulter) 0.22‐µm filter |
Y | N | Y (GC‐MS) | LPS, Siglec‐7 |
| Martin‐Gallausiaux, C | 2020 | F. nucleatum |
4700 × g for 20 min 10,000 × g for 20 min 0.22‐µm filter 100‐kDA cutoff (Amicon) centrifugal filter units 4000 × g Iodixanol × gradient (Optiprep, Sigma) using Beckman ultracentrifuge with a swinging bucket rotor (SW40 Ti) during 16 h at 100,000 × g |
Y | Y | Y | N protein profile |
| Marzoog, TR | 2023 | Escherichia coli |
0.22‐µm filter 100,000 rpm for 5h |
Y | Y | Y | OmpA |
| Ahmadi Badi, S | 2020 | Bacteroides fragilis and Bacteroides thetaiotaomicron |
2900 × g for 1 h 20,000 × g for 60 min 20,000 × g for 120 min ×2 0.22‐µm filter |
N | Y (SEM) | Y | N protein profile |
| Choi, JH | 2020 | Lacticaseibacillus paracasei |
10,000 × g for 20 min 0.22‐µm bottle‐top filter 100‐kDa Pellicon 2 Cassette filter membrane 0.22‐µm bottle‐top filter 150,000 × g for 3 h |
Y | Y | N | N |
| Shi, Y | 2021 | L. paracasei |
4500 × g for 15 min 0.45‐µm filter 120,000 × g for 1 h |
Y | Y | N | N |
| Keyhani, G | 2022 | Lactobacillus rhamnosus |
10,000 × g for 10 min 0.22 µm filter 100,000 × g for 60 min |
N | Y (Low reliability) | N | N |
| Tong, L | 2021 | L. rhamnosus |
8000 × g for 30 min 0.22‐µm PVDF filter Centricon Plus‐70 Centrifugal Filter Units 100,000 × g for 2 h 100,000 × g for 60 min |
Y | Y | Y | TSG101 |
| Li, J | 2023 | Limosilactobacillus johnsoni and Limosilactobacillus mucosae |
8000 × g for 30 min 20,000 × g for 45 min 0.22‐µm filter 120,000 × g for 2 h with an SW 32 Ti rotor ×2 |
Y | Y | N | N |
| Pang, Y | 2022 | Limosilactobacillus reuteri |
5000 × g for 10 min 10,000 × g for 10 min 0.45‐µm pore filter Amicon 100 kDa MWCO (molecular weight cutoff) filter 118,000 × g at 4°C for 3 h ×2 |
Y | Y | Y (Dot‐blot assay) | LTA |
| Alvarez, CS | 2019 | E. coli |
10,000 × g, 4 °C, 20 min 0.22‐µm filter Centricon® Plus‐70 filter device 150,000 × g,1 h |
N | N | N | NA |
| Chelakkot, C | 2018 | Akkermansia muciniphila |
10,000 × g for 20 min 0.45‐µm vacuum filter 0.22‐µm bottle‐top filter 150,000 × g for 2 h |
Y | Y | Y | N, protein profile |
| Jiang, Y | 2023 | A. muciniphila | bottomup optiprep density gradient centrifugation | N | Y | N | NA |
| Kang, CS | 2013 | A. muciniphila | 200,000 × g for 2 h | Y | Y | N | NA |
| Wang, X | 2023 | A. muciniphila |
15,000 × g for 30 min 0.45‐µm filter 170,000 × g for 60 min 0.45‐µm filter |
Y | N | N | NA |
| Montanari, M | 2022 | Campylobacter jejuni |
1000 × g for 15 min 12,000 × g for 20 min 18,000−20,000 × g for 20 min 0.22‐µm filter 110,000 × g for 70 min |
Y | N | N | NA |
| Abedi, A | 2024 | Lentilactobacillus buchneri |
13,000 rpm for 10 min 0.22‐µm‐pore size filter 100,000 × g for 1 h |
N | Y | Y | N, protein profile |
Abbreviations: NA, not available; Omp, outer membrane protein; SEM, scanning electron microscopy; Siglec‐7, sialic acid‐binding immunoglobulin‐like lectins‐7.