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 proceedingConference contribution

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.

LanguageEnglish
Title of host publication2015 UKM FST Postgraduate Colloquium
Subtitle of host publicationProceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium
EditorsMohd 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
Volume1678
ISBN (Electronic)9780735413252
DOIs
Publication statusPublished - 25 Sep 2015
Event2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015 - Selangor, Malaysia
Duration: 15 Apr 201516 Apr 2015

Conference

Conference2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015
CountryMalaysia
CitySelangor
Period15/04/1516/04/15

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Cite this

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). [030018] https://doi.org/10.1063/1.4931239
Munyati-Othman, Noor ; Fatah, Ahmad Luqman Abdul ; Piji, Mohd Al Akmarul Fizree Bin Md ; Ramlan, E. ; Raih, Mohd Firdaus. / 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 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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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, 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; Ramlan, E.; Raih, Mohd Firdaus.

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 2015. 030018.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

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

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AU - Fatah, Ahmad Luqman Abdul

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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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M3 - Conference contribution

VL - 1678

BT - 2015 UKM FST Postgraduate Colloquium

A2 - Nadzir, Mohd Shahrul Mohd

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A2 - Hanafiah, Marlia Mohd

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A2 - Hassan, Nurul Izzaty

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A2 - Agustar, Hani Kartini

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A2 - Abu Bakar, Sakhinah

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A2 - Zubairi, Saiful Irwan

A2 - Ibrahim, Nazlina

ER -

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. 2015. 030018 https://doi.org/10.1063/1.4931239