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Table 2 Oligonucleotide primers used in this study.

From: The tricarboxylic acid cycle in Shewanella oneidensis is independent of Fur and RyhB control

Primer name

Sequence

strain construction

 

fur-F1

GGTCGACCAAGAGATTAGCAATGACAGATG

fur-R1

GGAATTCGAGCAAGCTTATTCGTCGT

ryhB-F1

GGTCGACAGGAGGAACTCTGATGACTGGTAATCTG

ryhB-R1

GGAATTCAGTTAAATGTGGCGCAAAC

Reverse Transcription-PCR

ryhB-F2

TCTGACGTTGTTAAAGTGCTCC

ryhB-R2

CCTAATGCGCCTATTCGCT

Control 1-F

TCAGGTTGTTTGGTATTGTGC

Control 1-R

CCATCAATCAAGGTTGTCG

Control 2-F

CTGTCAAATGGTGTGCTGC

Control 2-R

GTGTAACAGTGCTAAAGCCTGC

Control 3-F

TCTACTCAAATGACGAGCTGC

Control 3-R

GAAAAGCCGCCAAATGC

Control 4-F

TATGGTTTCCCGCTTTCG

Control 4-R

AACGCATCAGTGCTATTTGC

Control 5-F

TCACTCACAGAACGCTTCG

Control 5-R

GCAGCTACAGAATGTCACTACG

Control 6-F

TCTAGCAGGGATTAAATGAGC

Control 6-R

CCTTCGCCTTGTCTAAAGC

5'- and 3'-RACE assays

 

5'- RNA adapter

GAUAUGCGCGAAUUCCUGUAGAACGAACACUAGAAGAAA

ryhB-R3

AGAGTGTGTGAGCAATGTCG

3'- RNA adapter

UUCACU GUUCUUAGCGGCCGCAUGCUC-idT

Quantitative RT-PCR

 

RyhB-F

TCTGACGTTGTTAAAGTGCTCC

RyhB-R

CCTAATGCGCCTATTCGCT

SdhA-F

GAGCAGTTAAAAGCCATCC

SdhA-R

GTTGTCCAATTCTAAACACTCG

AcnA-F

ACCAACAAACGCTAGACTACC

AcnA-R

ATCATCGCTCCACAAACC

SodB-F

TCTACTGGAACTGCTTAGCACC

SodB-R

TGAATGCATCGAATGAACC

RecA-F

AACCCAGAAACCACAACG

RecA-R

ACCAACCACCTCATCACC

  1. Primer sequences were derived from the S. oneidensis MR-1 genome sequence [25]. F and R stand for forward and reverse primers, respectively.