Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv

Penyesuaian Mycobacterium tuberculosis (Mtb) terhadap pelbagai perubahan persekitaran dalam sistem imun membolehkan bakteria tersebut untuk hidup berterusan dalam individu yang dijangkiti selama beberapa dekad. Pelbagai aspek dalam pengawalan ekspresi gen terhadap perubahan tekanan persekitaran t...

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Main Author:	Lee, Li Pin
Format:	Thesis
Language:	English
Published:	2016
Subjects:	RK1-715 Dentistry
Online Access:	http://eprints.usm.my/32190/1/LEE_LI_PIN_24%28NN%29.pdf
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spelling	my-usm-ep.321902019-04-12T05:25:13Z Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv 2016-09 Lee, Li Pin RK1-715 Dentistry Penyesuaian Mycobacterium tuberculosis (Mtb) terhadap pelbagai perubahan persekitaran dalam sistem imun membolehkan bakteria tersebut untuk hidup berterusan dalam individu yang dijangkiti selama beberapa dekad. Pelbagai aspek dalam pengawalan ekspresi gen terhadap perubahan tekanan persekitaran telah dikaji secara meluas dalam Mtb. Namun, tidak banyak perhatian yang diberi terhadap fungsi pengawalan ekspresi gen oleh titik awal transkripsi (TSSs) dan RNA kecil (sRNAs) dalam Mtb, terutamanya dalam pelbagai rangsangan tekanan persekitaran. Ini menginspirasikan usaha dalam pengenalpastian TSSs dan sRNAs yang terlibat dalam pelbagai rangsangan tekanan persekitaran. Untuk mengenal pasti TSSs dalam Mtb, perpustakaan cDNA yang diperkaya dengan transkrip utama telah dibina untuk RNA sequencing, dan TSSpredator telah diguna untuk menganalisis TSSs bagi Mtb dalam pelbagai rangsangan tekanan persekitaran. Sebanyak 8,173 TSSs telah dikenal pasti dalam enam keadaan. Kebanyakan TSSs (3,904) terletak dalam gen (TSS dalaman) dan 1,932 TSSs primer yang terletak dalam lingkungan 300 nt daripada titik permulaan translasi. 2,861 TSSs merupakan permulaan bagi sRNAs antisense yang berpotensi (TSS antisense). Selain itu, 215 TSSs yang terletak dalam kawasan intergen merupakan permulaan yang berpotensi bagi sRNA berkod trans. The adaptability of Mycobacterium tuberculosis (Mtb) to various environmental changes presented by host immune systems enables its persistence within infected hosts for decades. Various aspects of gene expression regulation in response to environmental stress have been extensively analyzed in Mtb. However, the roles of transcriptional start sites (TSSs) and the small regulatory RNAs (sRNAs) in regulating gene expression within Mtb are given very little attention, particularly under stress condition. This ignites the effort to map TSSs and identify sRNAs involved in different stress environments. In order to map the TSSs in Mtb, cDNA libraries that specifically enriched with primary transcripts were constructed for RNA sequencing, and TSSpredator was integrated for the analysis of TSSs in Mtb monitored in different stress environments. Here, a total of 8,173 TSSs were mapped in six conditions. The majority of TSSs (3,904) were detected within annotated genes (internal TSS), and 1,932 primary TSSs reside within 300 nt upstream of translation start site. 2,861 TSSs correspond to potential antisense sRNAs (antisense TSS). Finally, 215 novel TSSs are located within intergenic regions and represent potentially novel trans-encoded sRNAs. 2016-09 Thesis http://eprints.usm.my/32190/ http://eprints.usm.my/32190/1/LEE_LI_PIN_24%28NN%29.pdf application/pdf en public phd doctoral Universiti Sains Malaysia Institut Perubatan & Pergigian Termaju (Advanced Medical & Dental Institute)
institution	Universiti Sains Malaysia
collection	USM Institutional Repository
language	English
topic	RK1-715 Dentistry
spellingShingle	RK1-715 Dentistry Lee, Li Pin Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv
description	Penyesuaian Mycobacterium tuberculosis (Mtb) terhadap pelbagai perubahan persekitaran dalam sistem imun membolehkan bakteria tersebut untuk hidup berterusan dalam individu yang dijangkiti selama beberapa dekad. Pelbagai aspek dalam pengawalan ekspresi gen terhadap perubahan tekanan persekitaran telah dikaji secara meluas dalam Mtb. Namun, tidak banyak perhatian yang diberi terhadap fungsi pengawalan ekspresi gen oleh titik awal transkripsi (TSSs) dan RNA kecil (sRNAs) dalam Mtb, terutamanya dalam pelbagai rangsangan tekanan persekitaran. Ini menginspirasikan usaha dalam pengenalpastian TSSs dan sRNAs yang terlibat dalam pelbagai rangsangan tekanan persekitaran. Untuk mengenal pasti TSSs dalam Mtb, perpustakaan cDNA yang diperkaya dengan transkrip utama telah dibina untuk RNA sequencing, dan TSSpredator telah diguna untuk menganalisis TSSs bagi Mtb dalam pelbagai rangsangan tekanan persekitaran. Sebanyak 8,173 TSSs telah dikenal pasti dalam enam keadaan. Kebanyakan TSSs (3,904) terletak dalam gen (TSS dalaman) dan 1,932 TSSs primer yang terletak dalam lingkungan 300 nt daripada titik permulaan translasi. 2,861 TSSs merupakan permulaan bagi sRNAs antisense yang berpotensi (TSS antisense). Selain itu, 215 TSSs yang terletak dalam kawasan intergen merupakan permulaan yang berpotensi bagi sRNA berkod trans. The adaptability of Mycobacterium tuberculosis (Mtb) to various environmental changes presented by host immune systems enables its persistence within infected hosts for decades. Various aspects of gene expression regulation in response to environmental stress have been extensively analyzed in Mtb. However, the roles of transcriptional start sites (TSSs) and the small regulatory RNAs (sRNAs) in regulating gene expression within Mtb are given very little attention, particularly under stress condition. This ignites the effort to map TSSs and identify sRNAs involved in different stress environments. In order to map the TSSs in Mtb, cDNA libraries that specifically enriched with primary transcripts were constructed for RNA sequencing, and TSSpredator was integrated for the analysis of TSSs in Mtb monitored in different stress environments. Here, a total of 8,173 TSSs were mapped in six conditions. The majority of TSSs (3,904) were detected within annotated genes (internal TSS), and 1,932 primary TSSs reside within 300 nt upstream of translation start site. 2,861 TSSs correspond to potential antisense sRNAs (antisense TSS). Finally, 215 novel TSSs are located within intergenic regions and represent potentially novel trans-encoded sRNAs.
format	Thesis
qualification_name	Doctor of Philosophy (PhD.)
qualification_level	Doctorate
author	Lee, Li Pin
author_facet	Lee, Li Pin
author_sort	Lee, Li Pin
title	Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv
title_short	Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv
title_full	Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv
title_fullStr	Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv
title_full_unstemmed	Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv
title_sort	mapping of transcriptional start site and the identification of novel srna in mycobacterium tuberculosis h37rv
granting_institution	Universiti Sains Malaysia
granting_department	Institut Perubatan & Pergigian Termaju (Advanced Medical & Dental Institute)
publishDate	2016
url	http://eprints.usm.my/32190/1/LEE_LI_PIN_24%28NN%29.pdf
_version_	1747820540482027520

Mapping Of Transcriptional Start Site And The Identification Of Novel sRNA In Mycobacterium Tuberculosis H37Rv

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