Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243

Noor Munyati-Othman; Ahmad Luqman Abdul Fatah; Mohd Al Akmarul Fizree Bin Md Piji; E. Ramlan; Mohd Firdaus Raih

doi:10.1063/1.4931239

Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243

Noor Munyati-Othman, Ahmad Luqman Abdul Fatah, Mohd Al Akmarul Fizree Bin Md Piji, E. Ramlan, Mohd Firdaus Raih

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Abstract

Structured RNAs referred as riboswitches have been predicted to be present in the genome sequence of Burkholderia pseudomallei strain K96243. Four of the riboswitches were identified and analyzed through BLASTN, Rfam search and multiple sequence alignment. The RNA aptamers belong to the following riboswitch classifications: glycine riboswitch, cobalamin riboswitch, S-adenosyl-(L)-homocysteine (SAH) riboswitch and flavin mononucleotide (FMN) riboswitch. The conserved nucleotides for each aptamer were identified and were marked on the secondary structure generated by RNAfold. These riboswitches were successfully amplified and cloned for further study.

Original language	English
Title of host publication	2015 UKM FST Postgraduate Colloquium
Subtitle of host publication	Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium
Editors	Mohd Shahrul Mohd Nadzir, Humaida Banu Samsudin, Marlia Mohd Hanafiah, Asmat Ahmad, Nurul Izzaty Hassan, Izfa Riza Hazmi, Hani Kartini Agustar, Zahari Ibarahim, Noor Baa'yah Ibrahim, Sakhinah Abu Bakar, Mohd Salmi Md Noorani, Nurul Huda Abd Karim, Saiful Irwan Zubairi, Nazlina Ibrahim
Publisher	American Institute of Physics Inc.
Volume	1678
ISBN (Electronic)	9780735413252
DOIs	https://doi.org/10.1063/1.4931239
Publication status	Published (in print/issue) - 25 Sept 2015
Event	2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015 - Selangor, Malaysia Duration: 15 Apr 2015 → 16 Apr 2015

Conference

Conference	2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015
Country/Territory	Malaysia
City	Selangor
Period	15/04/15 → 16/04/15

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Munyati-Othman, N., Fatah, A. L. A., Piji, M. A. A. F. B. M., Ramlan, E., & Raih, M. F. (2015). Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243. In M. S. M. Nadzir, H. B. Samsudin, M. M. Hanafiah, A. Ahmad, N. I. Hassan, I. R. Hazmi, H. K. Agustar, Z. Ibarahim, N. B. Ibrahim, S. Abu Bakar, M. S. M. Noorani, N. H. A. Karim, S. I. Zubairi, & N. Ibrahim (Eds.), 2015 UKM FST Postgraduate Colloquium: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium (Vol. 1678). Article 030018 American Institute of Physics Inc.. https://doi.org/10.1063/1.4931239

Munyati-Othman, Noor ; Fatah, Ahmad Luqman Abdul ; Piji, Mohd Al Akmarul Fizree Bin Md et al. / Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243. 2015 UKM FST Postgraduate Colloquium: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium. editor / Mohd Shahrul Mohd Nadzir ; Humaida Banu Samsudin ; Marlia Mohd Hanafiah ; Asmat Ahmad ; Nurul Izzaty Hassan ; Izfa Riza Hazmi ; Hani Kartini Agustar ; Zahari Ibarahim ; Noor Baa'yah Ibrahim ; Sakhinah Abu Bakar ; Mohd Salmi Md Noorani ; Nurul Huda Abd Karim ; Saiful Irwan Zubairi ; Nazlina Ibrahim. Vol. 1678 American Institute of Physics Inc., 2015.

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title = "Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243",

abstract = "Structured RNAs referred as riboswitches have been predicted to be present in the genome sequence of Burkholderia pseudomallei strain K96243. Four of the riboswitches were identified and analyzed through BLASTN, Rfam search and multiple sequence alignment. The RNA aptamers belong to the following riboswitch classifications: glycine riboswitch, cobalamin riboswitch, S-adenosyl-(L)-homocysteine (SAH) riboswitch and flavin mononucleotide (FMN) riboswitch. The conserved nucleotides for each aptamer were identified and were marked on the secondary structure generated by RNAfold. These riboswitches were successfully amplified and cloned for further study.",

author = "Noor Munyati-Othman and Fatah, {Ahmad Luqman Abdul} and Piji, {Mohd Al Akmarul Fizree Bin Md} and E. Ramlan and Raih, {Mohd Firdaus}",

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language = "English",

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booktitle = "2015 UKM FST Postgraduate Colloquium",

publisher = "American Institute of Physics Inc.",

note = "2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015 ; Conference date: 15-04-2015 Through 16-04-2015",

}

Munyati-Othman, N, Fatah, ALA, Piji, MAAFBM, Ramlan, E & Raih, MF 2015, Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243. in MSM Nadzir, HB Samsudin, MM Hanafiah, A Ahmad, NI Hassan, IR Hazmi, HK Agustar, Z Ibarahim, NB Ibrahim, S Abu Bakar, MSM Noorani, NHA Karim, SI Zubairi & N Ibrahim (eds), 2015 UKM FST Postgraduate Colloquium: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium. vol. 1678, 030018, American Institute of Physics Inc., 2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015, Selangor, Malaysia, 15/04/15. https://doi.org/10.1063/1.4931239

Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243. / Munyati-Othman, Noor; Fatah, Ahmad Luqman Abdul; Piji, Mohd Al Akmarul Fizree Bin Md et al.
2015 UKM FST Postgraduate Colloquium: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium. ed. / Mohd Shahrul Mohd Nadzir; Humaida Banu Samsudin; Marlia Mohd Hanafiah; Asmat Ahmad; Nurul Izzaty Hassan; Izfa Riza Hazmi; Hani Kartini Agustar; Zahari Ibarahim; Noor Baa'yah Ibrahim; Sakhinah Abu Bakar; Mohd Salmi Md Noorani; Nurul Huda Abd Karim; Saiful Irwan Zubairi; Nazlina Ibrahim. Vol. 1678 American Institute of Physics Inc., 2015. 030018.

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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T1 - Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243

AU - Munyati-Othman, Noor

AU - Fatah, Ahmad Luqman Abdul

AU - Piji, Mohd Al Akmarul Fizree Bin Md

AU - Ramlan, E.

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N2 - Structured RNAs referred as riboswitches have been predicted to be present in the genome sequence of Burkholderia pseudomallei strain K96243. Four of the riboswitches were identified and analyzed through BLASTN, Rfam search and multiple sequence alignment. The RNA aptamers belong to the following riboswitch classifications: glycine riboswitch, cobalamin riboswitch, S-adenosyl-(L)-homocysteine (SAH) riboswitch and flavin mononucleotide (FMN) riboswitch. The conserved nucleotides for each aptamer were identified and were marked on the secondary structure generated by RNAfold. These riboswitches were successfully amplified and cloned for further study.

AB - Structured RNAs referred as riboswitches have been predicted to be present in the genome sequence of Burkholderia pseudomallei strain K96243. Four of the riboswitches were identified and analyzed through BLASTN, Rfam search and multiple sequence alignment. The RNA aptamers belong to the following riboswitch classifications: glycine riboswitch, cobalamin riboswitch, S-adenosyl-(L)-homocysteine (SAH) riboswitch and flavin mononucleotide (FMN) riboswitch. The conserved nucleotides for each aptamer were identified and were marked on the secondary structure generated by RNAfold. These riboswitches were successfully amplified and cloned for further study.

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DO - 10.1063/1.4931239

M3 - Conference contribution

AN - SCOPUS:85006197374

VL - 1678

BT - 2015 UKM FST Postgraduate Colloquium

A2 - Nadzir, Mohd Shahrul Mohd

A2 - Samsudin, Humaida Banu

A2 - Hanafiah, Marlia Mohd

A2 - Ahmad, Asmat

A2 - Hassan, Nurul Izzaty

A2 - Hazmi, Izfa Riza

A2 - Agustar, Hani Kartini

A2 - Ibarahim, Zahari

A2 - Ibrahim, Noor Baa'yah

A2 - Abu Bakar, Sakhinah

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A2 - Karim, Nurul Huda Abd

A2 - Zubairi, Saiful Irwan

A2 - Ibrahim, Nazlina

PB - American Institute of Physics Inc.

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Munyati-Othman N, Fatah ALA, Piji MAAFBM, Ramlan E, Raih MF. Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243. In Nadzir MSM, Samsudin HB, Hanafiah MM, Ahmad A, Hassan NI, Hazmi IR, Agustar HK, Ibarahim Z, Ibrahim NB, Abu Bakar S, Noorani MSM, Karim NHA, Zubairi SI, Ibrahim N, editors, 2015 UKM FST Postgraduate Colloquium: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium. Vol. 1678. American Institute of Physics Inc. 2015. 030018 doi: 10.1063/1.4931239

Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243

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