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; Effirul Ikhwan 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
, Effirul Ikhwan Ramlan
, Mohd Firdaus Raih

Research output: Chapter in Book or Conference Publication/Proceeding › Conference Publication › 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.
ISBN (Electronic)	9780735413252
DOIs	https://doi.org/10.1063/1.4931239
Publication status	Published - 25 Sep 2015
Externally published	Yes
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

Publication series

Name	AIP Conference Proceedings
Volume	1678
ISSN (Print)	0094-243X
ISSN (Electronic)	1551-7616

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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10.1063/1.4931239

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Munyati-Othman, N., Fatah, A. L. A., Piji, M. A. A. F. B. M., Ramlan, E. I., & 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 Article 030018 (AIP Conference Proceedings; Vol. 1678). 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. American Institute of Physics Inc., 2015. (AIP Conference Proceedings).

@inproceedings{bd7621d53cfe40d290a47e09d83a4e51,

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 Ramlan, \{Effirul Ikhwan\} and Raih, \{Mohd Firdaus\}",

note = "Publisher Copyright: {\textcopyright} 2015 AIP Publishing LLC.; 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",

year = "2015",

month = sep,

day = "25",

doi = "10.1063/1.4931239",

language = "English",

series = "AIP Conference Proceedings",

publisher = "American Institute of Physics Inc.",

editor = "Nadzir, \{Mohd Shahrul Mohd\} and Samsudin, \{Humaida Banu\} and Hanafiah, \{Marlia Mohd\} and Asmat Ahmad and Hassan, \{Nurul Izzaty\} and Hazmi, \{Izfa Riza\} and Agustar, \{Hani Kartini\} and Zahari Ibarahim and Ibrahim, \{Noor Baa'yah\} and \{Abu Bakar\}, Sakhinah and Noorani, \{Mohd Salmi Md\} and Karim, \{Nurul Huda Abd\} and Zubairi, \{Saiful Irwan\} and Nazlina Ibrahim",

booktitle = "2015 UKM FST Postgraduate Colloquium",

}

Munyati-Othman, N, Fatah, ALA, Piji, MAAFBM, Ramlan, EI & 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., 030018, AIP Conference Proceedings, vol. 1678, 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. American Institute of Physics Inc., 2015. 030018 (AIP Conference Proceedings; Vol. 1678).

Research output: Chapter in Book or Conference Publication/Proceeding › Conference Publication › 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, Effirul Ikhwan

AU - Raih, Mohd Firdaus

PY - 2015/9/25

Y1 - 2015/9/25

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.

UR - https://www.scopus.com/pages/publications/85006197374

U2 - 10.1063/1.4931239

DO - 10.1063/1.4931239

M3 - Conference Publication

T3 - AIP Conference Proceedings

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

A2 - Noorani, Mohd Salmi Md

A2 - Karim, Nurul Huda Abd

A2 - Zubairi, Saiful Irwan

A2 - Ibrahim, Nazlina

PB - American Institute of Physics Inc.

T2 - 2015 Postgraduate Colloquium of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology, UKM FST 2015

Y2 - 15 April 2015 through 16 April 2015

ER -

Munyati-Othman N, Fatah ALA, Piji MAAFBM, Ramlan EI, 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. American Institute of Physics Inc. 2015. 030018. (AIP Conference Proceedings). doi: 10.1063/1.4931239

Identification and cloning of four riboswitches from Burkholderia pseudomallei strain K96243

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