Volume 12, Number 4—April 2006
Research
Identifying Influenza Viruses with Resequencing Microarrays
Zheng Wang*†, Luke T. Daum‡, Gary J. Vora*, David Metzgar§, Elizabeth A. Walter¶, Linda C. Canas‡, Anthony P. Malanoski*, Baochuan Lin*, and David A. Stenger*
Table 3
Nucleotide differences among hemagglutinin (HA) influenza virus genes identified by respiratory pathogen microarray (RPM) version 1
| Position† | TN‡ | Mismatched nucleotides* |
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | ||
| 25 | T | C | |||||||||||
| 46 | T | A | |||||||||||
| 61 | A | T | |||||||||||
| 62§ | G | A | |||||||||||
| 88 | G | T | |||||||||||
| 189 | G | A | |||||||||||
| 208 | T | C | |||||||||||
| 233§ | G | A | |||||||||||
| 244 | G | A | |||||||||||
| 251§ | G | A | A | ||||||||||
| 262 | C | T | |||||||||||
| 274 | G | A | |||||||||||
| 293§ | A | G | |||||||||||
| 299 | G | A | A | A | A | A | A | A | A | A | A | A | A |
| 313§ | G | A | A | A | A | A | A | A | A | A | A | A | |
| 351§ | A | G | G | G | |||||||||
| 352 | A | C | C | C | C | C | C | C | C | C | C | ||
| 385 | C | T | |||||||||||
| 393§ | A | T | T | T | T | T | T | T | T | T | T | T | |
| 407 | T | C | |||||||||||
| 429§ | A | G | |||||||||||
| 434§ | A | G | G | ||||||||||
| 446§ | T | C | |||||||||||
| 466 | C | T | |||||||||||
| 469 | C | T | |||||||||||
| 473§ | G | A | |||||||||||
| 478 | T | A | A | ||||||||||
| 479§ | G | T | T | ||||||||||
| 483§ | G | A | A | A | A | A | A | A | A | A | A | A | |
| 493 | C | T | |||||||||||
| 511 | A | T | T | ||||||||||
| 559 | C | T | |||||||||||
| 564§ | A | G | |||||||||||
| 584§ | G | A | |||||||||||
| 571 | A | G | G | ||||||||||
| 593§ | G | A | A | A | A | A | A | A | A | A | |||
| 596§ | T | C | C | C | C | C | C | C | C | C | C | C | |
| 602§ | A | C | |||||||||||
| 646 | T | C | |||||||||||
| 652 | T | A | |||||||||||
| 698§ | C | A | |||||||||||
| 734§ | C | T | |||||||||||
*Mismatched nucleotides obtained from comparison between the tiled probe sequence and the conventional sequence. Mismatched nucleotides identified by the RPM version 1 are shown in boldface. 1–12 represent 12 influenza A/H3N2 isolates. 1, A/Colorado/360/05; 2, A/Ecuador/1968/04; 3, A/Guam/362/05; 4, A/Iraq/34/05; 5, A/Italy/384/05; 6, A/Japan/1337/05; 7, A/Japan/1383/05; 8, A/Korea/298/05; 9, A/New York/278/04; 10, A/Peru/166/05; 11, A/Qatar/2039/05; 12, A/Turkey/2108/05.
†HA3 tiled prototype sequence nucleotide position.
‡Tiled nucleotide.
§Potential nonsynonymous mutation position.
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