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Table 2 Oligonucleotide probes used to identify airborne fungi

From: Rapid identification of allergenic and pathogenic molds in environmental air by an oligonucleotide array

Microorganism

Probe

  
 

Codea

Sequence (5'-3')b

Length (nt)

T m (℃)

Locationc

GenBank accession no.

Acremonium strictum d

Acstr2-5

CTGCGTAGTAGCACAACCTCGCAtttttttttt

23

59.1

431-453 (2)

AJ621771

Alternaria alternata e

Alalt3

CGCACTCTCTATCAGCAAAGGTCTAGCATC

30

63.5

461-490 (2)

AY625056

Aspergillus flavus e

Asfla4

CGAACGCAAATCAATCTTTTTCCAGGT

27

63.1

512-538 (2)

AY373848

Aspergillus fumigatus e

Asfum2-1

GCCAGCCGACACCCAACTTTATTTTTCTAAtttttttttt

30

65.4

213-242 (2)

AY230140

Aspergillus niger e

Asnig2

ACGTTTTCCAACCATTCTTTCCAGGT

26

60.9

517-542 (2)

AY373852

Aspergillus versicolor e

Asver4

ACGTCTCCAACCATTTTCTTCAGGT

25

58.2

486-510 (2)

AY830119

Aureobasidium pullulans e

Aupul2

ATTTCTAACAACGCTCTTTGGGTCGGTACG

30

65.5

454-483 (2)

AF121283

Aureobasidium pullulans e

Aupul3

TCAAAGGAGAGGACTTCTGCCGACTGAAAC

30

66.2

456-485 (2)

AY139395

Aureobasidium pullulans e

Aupul4

GGCGTAGTAGAATTTATTCGAACGTCTGTC

30

60.7

428-457 (2)

AY139395

Chaetomium cochliodes/C. globosum/C. funicola e

Chcgf1

GGCCTCTCTGAGTCTTCTGTACTGAATAAG

30

58.8

157-186 (1)

AJ279450

Cladosporium cladosporioides

Ccla2-2

CGGGAGGCTACGCCGTAAAtttttttttt

19

57.4

470-488 (2)

AY361994

Mucor racemosus

Mrac2-1

GGGCCTCTCGATCTGTATAGATCTTtttttttttt

25

55.3

573-597 (2)

AY625074

Mucor racemosus

Mrac3-1

TAGATCTTGAAATCCCTGAAATTTACTtttttttttt

27

52.7

590-616 (2)

AY625074

Paecilomyces variotii f

Pavar2

CCGAAGACCCCTSGAACGCtttttttttt

19

59.0

155-173 (1)

AY373941

Penicillium brevicompactum

Pbre1-1

ACCCGCTTTGTAGGACTGCCCGtttttttttt

22

63.0

439-461 (2)

AY484922

Penicillium chrysogenum

Pchr1-1

TCAACCCAAATTTTTATCCAGGtttttttttt

22

52.6

482-503 (2)

DQ674380

Penicillium corylophilum

Pcor1-2R

CGCGGGCCAGAGGGCAGAtttttttttttt

18

63.9

102-119 (1)

AF034456

Penicillium corylophilum

Pcor2-2R

CGCGGGCCAGAGGGCAGAAGtttttttttttt

20

65.6

100-119 (1)

AF033450

Rhizopus stolonifer

Rsto4

AAAGGCGGTTAATGGTATCCAACAAATtttttttttt

27

60.0

246-272 (1)

AB113023

Scopulariopsis chartarum

Sccha1

TCTTCATACCCATTTGTGAACACTACCCtttttttttt

28

59.4

41-68 (1)

AY625066

 

Sccha4-1

AGTAAAGCACCTCGCATCGGGTCCtttttttttt

24

63.2

497-520 (2)

AY625066

Scopulariopsis brevicaulis e

Scbre3-1

TGCGTAGTAGATCCTACATCTCGCATCGtttttttttt

28

62.4

500-527 (2)

AY625065

Stachybotrys chartarum

Scha1-3

CAGTATTCTCTGAGTGGGAAACGCAAAtttttttttt

27

60.7

485-511 (2)

AF081468

Stachybotrys chartarum

Scha1-4

AGTATTCTCTGAGTGGTAAACGCAAAtttttttttt

26

54.8

157-181 (1)

AY095976

Trichoderma viride

Tvir2-1

AACCAAACTCTTTCTGTAGTCCCCTCtttttttttt

26

56.5

111-136 (1)

AY380909

Positive controlg

PC

GCATCGATGAAGAACGCAGCttttttttt

20

55.7

200-219

EF134625

  1. aOligonucleotide probes are arranged on the array as indicated in Figure 1.
  2. bMultiple bases of thymine, indicated by "t", were added to the 3' end of the probe. The underlined nucleotide indicates a single mismatch base that was intentionally incorporated into the probe to avoid cross-hybridization.
  3. cThe location of probe is shown by the nucleotide number of either ITS 1 or ITS 2; the number (1 or 2) in parenthesis indicates the ITS region from which the probe was designed.
  4. dProbe modified from a previous study (19)
  5. eProbes designed in a previous study (19)
  6. fProbe designed in a previous study (26)
  7. gThe positive control probe was designed from a conserved region of the 5.8S rRNA gene (30)