Journal: Biosensors & bioelectronics

Article Title: Microarray method to monitor 40 intestinal bacterial species in the study of azo dye reduction

doi: 10.1016/j.bios.2004.04.011

Figure Lengend Snippet: Bacteria and the probe numbers in the microarray

Article Snippet: Anaerobic bacteria were cultured at 35 °C in either prereduced anaerobically sterilized (PRAS) Brain Heart Infusion (BIH) broth supplemented with vitamin K and hemin (Remel, Lenexa, KS, USA), inoculated under an oxygen-free cannula using 85% nitrogen, 10% hydrogen and 5% carbon dioxide, or on PRAS brucella blood agar plates supplemented with vitamin K and hemin (Remel). table ft1 table-wrap mode="anchored" t5 caption a7 Number Bacterial species and strain Probe number 1 B. thetaiotaomicron ATCC 29148 1, 2, 3 2 B. vulgatus ATCC 8482 4, 5, 6 3 B. fragilis ATCC 23745 7, 8, 9 4 B. distasonis ATCC 8503 10, 11, 12 5 C. clostridioforme ATCC 29084 13, 14, 15 6 C. leptum ATCC 29065 16, 17, 18 7 F. prausnitzii ATCC 27768 19, 20, 21 8 P. productus ATCC 27340 22, 23, 24 9 R. obeum ATCC 29174 25, 26, 27 10 R. bromii ATCC 27255 28, 29, 30 11 R. callidus ATCC 27760 31, 32, 33 12 R. albus ATCC 27210 34, 35, 36 13 B. longum ATCC 15707 37, 38, 39 14 B. adolescentis ATCC 15703 40, 41, 42 15 B. infantis ATCC 15697 43, 44, 45 16 E. biforme ATCC 27806 46, 47, 48 17 E. aerofaciens ATCC 25986 49, 50, 51 18 L. acidophilus ATCC 4356 52, 53, 54 19 E. coli ATCC 25922 55, 56, 57 20 E. faecium ATCC 19434 58, 59, 60 21 B. uniformis ATCC 8492 61, 62, 63 22 B. ovatus ATCC 8483 64, 65, 66 23 B. caccae ATCC 43185 67, 68, 69 24 C. perfringens ATCC 13124 70, 71, 72 25 C. butyricum ATCC 19398 73, 74, 75 26 C. ramosum ATCC 25582 76, 77, 78 27 C. difficile ATCC 9689 79, 80, 81 28 C. indolis ATCC 25771 82, 83, 84 29 F. russii ATCC 25533 85, 86, 87 30 F. nucleatum ATCC 25586 88, 89, 90 31 B. catenulatum ATCC 27539 91, 92, 93 32 B. angulatum ATCC 27535 94, 95, 96 33 E. rectale ATCC 33656 97, 98, 99 34 E. eligens ATCC 27750 100, 101, 102 35 E. limosum ATCC 8486 103, 104, 105 36 E. lentum ATCC 25553 106, 107, 108 37 L. fermentum ATCC 9338 109, 110, 111 38 E. faecalis ATCC 27274 112, 113, 114 39 P. magnus ATCC 14955 115, 116, 117 40 R. gnavus ATCC 291492 118, 119, 120 Open in a separate window Bacteria and the probe numbers in the microarray

Techniques: Bacteria

Journal: Biosensors & bioelectronics

Article Title: Microarray method to monitor 40 intestinal bacterial species in the study of azo dye reduction

doi: 10.1016/j.bios.2004.04.011

Figure Lengend Snippet: Microarray test results read from

Article Snippet: Anaerobic bacteria were cultured at 35 °C in either prereduced anaerobically sterilized (PRAS) Brain Heart Infusion (BIH) broth supplemented with vitamin K and hemin (Remel, Lenexa, KS, USA), inoculated under an oxygen-free cannula using 85% nitrogen, 10% hydrogen and 5% carbon dioxide, or on PRAS brucella blood agar plates supplemented with vitamin K and hemin (Remel). table ft1 table-wrap mode="anchored" t5 caption a7 Number Bacterial species and strain Probe number 1 B. thetaiotaomicron ATCC 29148 1, 2, 3 2 B. vulgatus ATCC 8482 4, 5, 6 3 B. fragilis ATCC 23745 7, 8, 9 4 B. distasonis ATCC 8503 10, 11, 12 5 C. clostridioforme ATCC 29084 13, 14, 15 6 C. leptum ATCC 29065 16, 17, 18 7 F. prausnitzii ATCC 27768 19, 20, 21 8 P. productus ATCC 27340 22, 23, 24 9 R. obeum ATCC 29174 25, 26, 27 10 R. bromii ATCC 27255 28, 29, 30 11 R. callidus ATCC 27760 31, 32, 33 12 R. albus ATCC 27210 34, 35, 36 13 B. longum ATCC 15707 37, 38, 39 14 B. adolescentis ATCC 15703 40, 41, 42 15 B. infantis ATCC 15697 43, 44, 45 16 E. biforme ATCC 27806 46, 47, 48 17 E. aerofaciens ATCC 25986 49, 50, 51 18 L. acidophilus ATCC 4356 52, 53, 54 19 E. coli ATCC 25922 55, 56, 57 20 E. faecium ATCC 19434 58, 59, 60 21 B. uniformis ATCC 8492 61, 62, 63 22 B. ovatus ATCC 8483 64, 65, 66 23 B. caccae ATCC 43185 67, 68, 69 24 C. perfringens ATCC 13124 70, 71, 72 25 C. butyricum ATCC 19398 73, 74, 75 26 C. ramosum ATCC 25582 76, 77, 78 27 C. difficile ATCC 9689 79, 80, 81 28 C. indolis ATCC 25771 82, 83, 84 29 F. russii ATCC 25533 85, 86, 87 30 F. nucleatum ATCC 25586 88, 89, 90 31 B. catenulatum ATCC 27539 91, 92, 93 32 B. angulatum ATCC 27535 94, 95, 96 33 E. rectale ATCC 33656 97, 98, 99 34 E. eligens ATCC 27750 100, 101, 102 35 E. limosum ATCC 8486 103, 104, 105 36 E. lentum ATCC 25553 106, 107, 108 37 L. fermentum ATCC 9338 109, 110, 111 38 E. faecalis ATCC 27274 112, 113, 114 39 P. magnus ATCC 14955 115, 116, 117 40 R. gnavus ATCC 291492 118, 119, 120 Open in a separate window Bacteria and the probe numbers in the microarray

Techniques: Microarray

Journal: Arteriosclerosis, Thrombosis, and Vascular Biology

Article Title: Runx2 (Runt-Related Transcription Factor 2)-Mediated Microcalcification Is a Novel Pathological Characteristic and Potential Mediator of Abdominal Aortic Aneurysm

doi: 10.1161/atvbaha.119.314113

Figure Lengend Snippet: Figure 5 Continued. B, Comparison of DEGs with transcription factor target genes derived from ChIP-Atlas database identified transcription factors with significant overlap. The significantly overlapping transcription factor was identified with a corrected P<0.05 by Fisher exact test followed by Benjamini-Hochberg correction.in both human and mouse databases. C–G, Twenty-eight-day infusion of saline or AngII in 4-month- old Runx2f/f:ApoE−/− and Runx2Δ/Δ SMC:ApoE−/− male mice. C, Representative morphology of the aortas. D, The incidence of AAA. The difference was assessed by Fisher exact test. E, Quantification of maximal suprarenal aortic diameters measured ex vivo. *P<0.05 by 2-way ANOVA followed by the Bonferroni test. F, Representative elastin Van Gieson (EVG) staining and quantification of elastin degradation in AngII-induced Runx2f/f:ApoE−/− (upper) and Runx2Δ/Δ SMC:ApoE−/− (lower) mice. The black arrows indicate the fragmented elastin. *P<0.05 by nonparametric Kruskal-Wallis test with Dunn post hoc test. G, Representative von Kossa staining and the incidence of microcalcification of AngII-induced Runx2f/f:ApoE−/− (upper) and Runx2Δ/Δ SMC:ApoE−/− (lower) mice. The red arrows indicate microcalcification. *P<0.05 by Fisher exact test.

Article Snippet: Hydroxyapatite (MB3039) was purchased from Dalian Meilun Biotechnology, Co, Ltd. Antibodies against β-actin (4967), Runx2 (8486), NLRP3 (NLR family pyrin domain-containing 3; 15101), and Caspase1 (2225) were from Cell Signaling Technology (Boston, MA).

Techniques: Comparison, Derivative Assay, Saline, Ex Vivo, Staining

Journal: Arteriosclerosis, Thrombosis, and Vascular Biology

Article Title: Runx2 (Runt-Related Transcription Factor 2)-Mediated Microcalcification Is a Novel Pathological Characteristic and Potential Mediator of Abdominal Aortic Aneurysm

doi: 10.1161/atvbaha.119.314113

Figure Lengend Snippet: Figure 6 Continued. *P<0.05 by 1-way ANOVA followed by the Student-Newman-Keuls test for post hoc comparison. D, qRT-PCR analysis of the inflammasome genes (NLRP3, Caspase1, and IL-1β) in aortic rings from 8- to 10-week-old C57BL/6J mice, which were induced by AngII or HA for 24 h. *P<0.05 by 1-way ANOVA followed by the Student-Newman-Keuls test for post hoc comparison. E and F, Representative Western blot (E) and quantification (F) of NLRP3 and Caspase1 in 24-h AngII- or HA-infused aortic rings from 8- to 10-wk- old C57BL/6J mice. *P<0.05 by 1-way ANOVA followed by the Student-Newman-Keuls test for post hoc comparison. G, ELISA analysis of IL-1β secreted by aortic rings induced by AngII or HA for 24 h. *P<0.05 by 1-way ANOVA followed by the Student-Newman-Keuls test for post hoc comparison. All data are presented as the mean±SD from at least 3 independent experiments performed in triplicate. H and I, ELISA analysis of IL-1β (H) and IL-6 (I) in plasma from 28-day AngII or saline induced Runx2 (runt-related transcription factor 2)f/f:ApoE−/− and Runx2Δ/Δ SMC:ApoE−/− mice. *P<0.05 by 1-way ANOVA followed by the Student-Newman-Keuls test for post hoc comparison. J, Representative images of immunohistochemical staining of CD45 (left) and NLRP3 (right) in the suprarenal abdominal aortas from AngII-induced Runx2f/

Article Snippet: Hydroxyapatite (MB3039) was purchased from Dalian Meilun Biotechnology, Co, Ltd. Antibodies against β-actin (4967), Runx2 (8486), NLRP3 (NLR family pyrin domain-containing 3; 15101), and Caspase1 (2225) were from Cell Signaling Technology (Boston, MA).

Techniques: Comparison, Quantitative RT-PCR, Western Blot, Enzyme-linked Immunosorbent Assay, Clinical Proteomics, Saline, Immunohistochemical staining, Staining