Volume 17, Number 5—May 2011
Dispatch
Genomic Characterization of Nipah Virus, West Bengal, India
Vidya A. Arankalle
, Bhaswati T. Bandyopadhyay, Ashwini Y. Ramdasi, Ramesh Jadi, Dilip R. Patil, Mehebubar Rahman, Monalisa Majumdar, Parthasarthi S. Banerjee, Amiyakumar K. Hati, Ramaprasad P. Goswami, Dhruba Kumar Neogi, and Akhilesh C. Mishra
, Bhaswati T. Bandyopadhyay, Ashwini Y. Ramdasi, Ramesh Jadi, Dilip R. Patil, Mehebubar Rahman, Monalisa Majumdar, Parthasarthi S. Banerjee, Amiyakumar K. Hati, Ramaprasad P. Goswami, Dhruba Kumar Neogi, and Akhilesh C. Mishra
Table A1
Primers used for full genome amplification and sequencing of Nipah virus in an interfamilial outbreak, West Bengal, India, 2007
| Region | Forward primer, 5′ → 3′ | Reverse primer, 5′ → 3′ |
|---|---|---|
| Leader sequence and nucleocapsid protein |
F1 1–ACCAAACAAGGGAAAATATGGAT-23 | R1 287-CTCGGCTGCACTCGGAGATCTGAT-310 |
| F2 17–TATG GATACGTTAA AATATAT-37 | R2 590-TGATAACTGCAGAGACCAGAGT-611 | |
| F3 507–TCAA GACTGCTCGG GACAGCAG-528 | R3 1115-TCAATAGTAGTAGCCACACCCAT-1137 | |
| F4 999–GC TTGATGCTAC TCTACAGAG-1019 | R4 1595-TGATTGCTGGGTCATCTGTTGCATT-1619 | |
| F5 1479-T GACAGTGTGC CGAGCAGTTCTGT-1503 | R5 2115-TAAGAGGTATTGTATACTCCAGT-2137 |
|
| F6 1999-CA CACTACACTC TAATAAAGAT-2020 |
||
| Phosphoprotein |
F7 2551-TGCAGTGCAC CAGTGGAGAA TCT-2573 | R6 2594-CACCTCCATCATCCTTAGAC-2613 |
| F8 3017-TTCT CCTGTGATTG CTGAACACT-3039 | R7 3081-TCCAAATTGACATTTCTGTTAGT-3103 | |
| F9 3528-GAT AAGACTGAGATCACCAGCGA T-3551 | R8 3627-CAGATGGATATTTCTCGTCTGT-3648 | |
| F10 4054-CTTGAGTC TATTGACAGG GTTCT-4075 | R9 4176-TCACTGGTTTAAGCTCAGGATT-4197 | |
| F11 4576-TCTTC TACATGTAGA CAGTAG-4596 |
R10 4692-TCATGCTACATACACTTCAAT-4712 |
|
| Matrix protein |
F12 5125-GAGCAT TTCAAGTGAG TCT-5143 | R11 5181-TTATCAAGATACCCACCATTCT-5202 |
| F13 5586-TTGAT CAGATACAGC TCGAC-5605 | R12 5662-TAGTTCGTGGAATCATGTAGATT-5684 | |
| F14 6091-GCCTTCTGTT CCGAGAGAGT T-6111 |
R13 6123-TGTATTGTCAATGAAGACATCAT-6145 |
|
| Fusion protein |
F15 6621-GTTGGTAGAC CTATCAATCA TAT-6643 | R14 6713-CACTGCACTCCGAGATCATC-6732 |
| F16 7105-GCAGCA TAGAATCAAC TAATG-7125 | R15 7161-GCGGTCAGTACATAGACTGT-7180 | |
| F17 7522-TCCAACAGG CCTATATCCA AG-7542 | R16 7570-TGCTGATCCATTCTGAATTGT-7590 | |
| F18 8078-GCT CAACGACTCCTTGATACTGT T-8110 | R17 8130-TACAGTATGATCATAGACAACAT-8152 |
|
| F19 8638-TGTACTTGCAATT ATACATTGT-8659 |
||
| Attachment protein |
F20 9121-GATCCATTGT AATCATAGTG-9140 | R18 8723-TATCCAATGAGTTATGGACCT-8743 |
| F21 9630-T ACTTTGCATA TAGCCACCTG-9650 | R19 9202-TGCTGGATACTCTGCAATGCAT-9223 | |
| F22 10099-TC GCAGAGTGTC AATACAGCAA ACCT-10124 | R20 9698-TGTCTAGTACCTCTCCAACTCCT-9720 | |
| F23 10531-GCAACCAGAC CGCAGAGAAT CCT-10553 | R21 10149-TATAATGACTGTTTGGTCTAAT-10170 | |
| F24 11062-TCAGAGTTA ACAGTCTATA CAT-11083 |
R22 10561-TACTTCATTATCTTTGAATACAG-10583 | |
| R23 11104-CATTGATTGTCATCACTATGC-11124 |
||
| Large polymerase protein |
F25 11668-TGC ATATTGCGTA CCCTGAATGT-11690 | R24 11724-TGTTATCAAGTTTGCTAGTCAT-11745 |
| F26 12151-GGATGATGAT GGAGACAACA AT-12172 | R25 12200-GAGGGCATTGGACCTCGAGATT-12221 | |
| F27 12681-GCACATGCAT CTAAGCATAT-12700 | R26 12738-TTCCCAGTTCTTGACACAATCATC-12761 | |
| F28 13221-TCAGTTCCTC GTGGAAACAG TC-13241 | R27 13252-TATATTATTGATGGATTGAGGAT-13274 | |
| F29 13776-GATGA TATATTCATT CATTATCCT-13779 | R28 13859-TCTCATAGGCACTCAAGAAT13878 | |
| F30 14244-TCAAGGA ATGTCGGCTA TTGTAT-14266 | R29 14287-TCAGTTGATATAAGGAGTTGCT-14308 | |
| F31 14728-TAG CTAGCTTCCT GATGGACAGG-14750 | R30 14770-TTGTCCAGTATCTCATGAGCGG-14791 | |
| F32 15241-GTACAGATGA GAGATCAGAT AT-15262 | R31 15304-TACTGTCGCAATCCTGATAGCAG-15326 | |
| F33 15791-TGATCCAGAT CCTGTTTCAG-15810 | R32 15872-TGAAGCTCCTCAGTTGACCAT-15892 | |
| F34 16381-CTGTGATTAA CCTACGAGAG GATAT-16405 | R33 16461-TTCAGATCTATTATCCAAGGAGG-16483 | |
| F35 17038-CAGGTCAGAGAGA ACTGAAGCT-17059 | R34 17064-TCAGCAATCGAGTATTCGGATGG-17086 | |
| F36 17371-TCTCAAGATT ATTTAACATG T-17391 | R35 17429-TAGAATCTGGGTTGCTATACACT-17451 |
|
| F37 17831-TTCACATCAT TTGGAACCGT AT-17852 |
||
| Trailer sequence | R36 18230-ACCGAACAAGGGTAAAGAAGAAT-18252 |
Page created: August 19, 2011
Page updated: August 19, 2011
Page reviewed: August 19, 2011
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