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:

Article Title: PCR-based positive hybridization to detect genomic diversity associated with bacterial secondary metabolism

doi: 10.1093/nar/gnh012

Figure Lengend Snippet: Anabaena circinalis 131C putative specific sequences with protein matches in The National Center for Biotechnology Information (NCBI) protein database

Article Snippet: Toxic sequences specific to strain 344B, however, comprised hypothetical proteins of unknown function together with defined enzymes and membrane proteins (Table ), with an average mol% GC of 47.5. table ft1 table-wrap mode="anchored" t5 Table 2. caption a7 ID Best BLASTX hit Organism % Identity % Similarity Microarray hybridization Specificity a SSH 65 Hypothetical protein Cytophaga hutchinsonii 57 81 5.3 ± 0 + 70 TonB, ferric-siderophore uptake B.thetaiotaomicron VPI-5482 42 66 4.9 ± 0.3 + 73 Alpha-amylase precursor C.acetobutylicum 47 58 4.6 ± 2.6 + 71 NADH 2 dehydrogenase C.elongatum 70 75 4.4 ± 0.7 + 175 GLP_291_11778_8566 G.lamblia ATCC 50803 29 43 4.5 ± 0.8 + 75 No similarity 3.9 ± 1.8 + 74 Hypothetical protein Neurosporra crassa 46 66 3.6 ± 1.9 + 69 Hypothetical protein B.japonicum USDA 110 62 83 2.9 ± 0 + 77 Sulfatase family protein N.aromaticivorans 42 57 2.8 ± 0.5 + 68 Hypothetical protein Naromaticivorans 91 95 2.7 ± 0.2 + 72 Putative integral membrane protein S.coelicolor A3(2) 46 61 2.6 ± 0.5 + Subtracted PPH 104 Hypothetical protein, transcriptase Caenorhabditis elegans 32 48 6.8 ± 0.3 + 95 Putative hydrolase B.thetaiotaomicron VPI-5482 53 67 4.1 ± 0.3 + 185 Novel antigenic to ORF2 T.orientalis 94 94 1.8 ± 0 ≈ 120 Hypothetical protein Nostoc sp. PCC7120 87 90 1.7 ± 0.3 ≈ 119 50S ribosomal protein L33 P.lunula 80 96 1.6 ± 0.1 ≈ 99 Hypothetical protein N.punctiforme 63 80 1.4 ± 0.5 ≈ 186 Thiamin-phosphate pyrophosphorylase Nostoc sp. PCC7120 70 81 1.2 ± 0.4 ≈ 98 RNA polymerase ECF-type sigma factor B.thetaiotaomicron VPI-5482 38 61 1.1 ± 0 ≈ 102 Unknown protein Nostoc sp. PCC7120 80 100 0.9 ± 0.2 ≈ 97 Putative gluconate aldolase Microscilla sp. PRE1 33 56 ND ND 106 Hypothetical protein C.hutchinsonii 67 72 ND ND 187 ABC transporter ATP-binding B.thetaiotaomicron VPI-5482 60 70 ND ND 189 Phosphoglucomutase–phosphomannomutase C.hutchinsonii 58 69 ND ND Unsubtracted PPH 108 Hypothetical protein C.hutchinsonii 41 61 6.6 ± 1.9 + 179 Putative transposase Synechocystis sp. BO8402 35 60 5.6 ± 1.1 + 109 Hypothetical protein B.thetaiotaomicron VPI-5482 23 43 4.9 ± 0.3 + 112 Hypothetical protein T.erythraeum IMS101 44 65 3.5 ± 1.8 + 115 No similarity 3.4 ± 0.2 + 111 Cell division GTPase C.hutchinsonii 56 72 2.4 ± 0.8 + 107 No similarity 2.4 ± 0 + 183 Acetyltransferase B.thetaiotaomicron VPI-5482 60 82 2.4 ± 0.7 + 178 Hypothetical protein T.fusca 35 57 2.1 ± 0.4 + 118 60 kDa chaperonin GroEL C.hutchinsonii 91 100 2 ± 0.4 + 110 Hypothetical protein, putative protease C.hutchinsonii 35 65 ND ND 180 DNA polymerase III alpha subunit B.thetaiotaomicron VPI-5482 78 84 ND ND 182 Transport protein X.axonopodis pv. citri 306 28 46 ND ND Open in a separate window a Toxic-strain specificity.

Techniques: Microarray, Hybridization

Journal: Cell reports

Article Title: MIRO2 promotes cancer invasion and metastasis via MYO9B suppression of RhoA activity

doi: 10.1016/j.celrep.2024.115120

Figure Lengend Snippet:

Article Snippet: Human: RPMI-7951 , ATCC , Cat#HTB-66; RRID:CVCL_1666.

Techniques: Control, Plasmid Preparation, Virus, Luciferase, Microarray, Recombinant, Viability Assay, CyQUANT Assay, Proliferation Assay, Activation Assay, Binding Assay, Software