60-mer oligonucleotide-based microarray Search Results


29149 genomic dna gdna  (ATCC)
98
ATCC 29149 genomic dna gdna
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
29149 Genomic Dna Gdna, supplied by ATCC, used in various techniques. Bioz Stars score: 98/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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oligonucleotide dna microarrays  (Oligos Etc)
90
Oligos Etc oligonucleotide dna microarrays
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
Oligonucleotide Dna Microarrays, supplied by Oligos Etc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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oligonucleotides  (Oligos Etc)
90
Oligos Etc oligonucleotides
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
Oligonucleotides, supplied by Oligos Etc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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ultra-gap ii slides  (Corning Life Sciences)
90
Corning Life Sciences ultra-gap ii slides
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
Ultra Gap Ii Slides, supplied by Corning Life Sciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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custom-made dna microarrays with 70-mer oligonucleotides  (Operon Biotech)
90
Operon Biotech custom-made dna microarrays with 70-mer oligonucleotides
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
Custom Made Dna Microarrays With 70 Mer Oligonucleotides, supplied by Operon Biotech, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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60-mer probes  (Premier Biosoft)
90
Premier Biosoft 60-mer probes
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
60 Mer Probes, supplied by Premier Biosoft, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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70-mer oligonucleotides  (Operon Biotech)
90
Operon Biotech 70-mer oligonucleotides
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
70 Mer Oligonucleotides, supplied by Operon Biotech, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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cy5 dutp  (GE Healthcare)
96
GE Healthcare cy5 dutp
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
Cy5 Dutp, supplied by GE Healthcare, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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cy3 dutp  (GE Healthcare)
96
GE Healthcare cy3 dutp
(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the <t>DNA</t> sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC <t>29149</t> grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of <t>genomic</t> <t>DNA</t> contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).
Cy3 Dutp, supplied by GE Healthcare, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


(A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the DNA sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC 29149 grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of genomic DNA contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).

Journal: PLoS ONE

Article Title: Utilisation of Mucin Glycans by the Human Gut Symbiont Ruminococcus gnavus Is Strain-Dependent

doi: 10.1371/journal.pone.0076341

Figure Lengend Snippet: (A) Schematic representation of the nan genetic organization. Each block arrow indicates an ORF; the length of the arrow is proportional to the length of the predicted ORF. RUMGNA_02702, 02701, 02700, 02699, 02698, 02697, 02695 and 02690 are shown in block arrow to , respectively. Circles above thick vertical lines indicate potential stem-loop structures that might act as Rho-independent transcriptional terminators. The free energy of the thermodynamic ensemble is given on top, expressed as kcal.mol −1 . The inset shows the DNA sequence of the promoter located upstream of the putative RUMGNA_02701 gene ( ). The putative −35 and −10 regions and ribosome-binding site (RBS) are underlined. (B) Confirmation of the nan operonic structure. The PCR products obtained following RT-PCR of RNA extracted from R. gnavus ATCC 29149 grown on pPGM were obtained using primers set spanning the SAT2 to NanK ORFs and analysed by electrophoresis on agarose gel. PCR from RT negative control (RT−) was performed to confirm the absence of genomic DNA contamination of the RNA sample prior to RT. PCR negative (−) and positive (+) controls were carried out with water or ATCC 29149 genomic DNA as template, respectively. The positions of the primers are shown in panel A and their sequences are provided in . M, DNA ladder size marker (with increments indicated in base pairs).

Article Snippet: A total of 1499 60-mer probes were designed for microarray experiments based on R. gnavus ATCC 29149 genome information using Array Designer 3.0 software (PREMIER Biosoft International, Palo Alto, CA) and printed on Agilent Custom Oligonucleotide Microarrays 8×15 k. For sample preparation, the Sau3AI-digested ATCC 29149 genomic DNA (gDNA) and each cDNA were fluorescently labelled using the BioPrime® Array CGH Genomic Labeling System (Life Technologies Ltd) according to supplier's instructions, and Cy3-dUTP or Cy5-dUTP respectively (GE Healthcare UK Ltd, Little Chalfont, UK).

Techniques: Blocking Assay, Sequencing, Binding Assay, Reverse Transcription Polymerase Chain Reaction, Electrophoresis, Agarose Gel Electrophoresis, Negative Control, Marker