RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing

This study employed several RNA extraction methods for mangosteen pericarps prior to RNA sequencing. The sequencing platform heavily relies on a high quality RNA yield. However, pericarp tissues contain a lot of phenolic compounds that results in low RNA quality. Hence, we studied several RNA extrac...

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Main Authors:	Azhani Abdul-Rahman, Najah Izzati Suleman, Wan Adibah Zakaria, Goh, Hoe-Han, Normah Mohd Noor, Wan Mohd Aizat
Format:	Article
Language:	English
Published:	Penerbit Universiti Kebangsaan Malaysia 2017
Online Access:	http://journalarticle.ukm.my/11142/ http://journalarticle.ukm.my/11142/ http://journalarticle.ukm.my/11142/1/08%20Azhani%20Abdul%20Rahman.pdf

id	ukm-11142
recordtype	eprints
spelling	ukm-111422017-12-22T08:35:52Z http://journalarticle.ukm.my/11142/ RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing Azhani Abdul-Rahman, Najah Izzati Suleman, Wan Adibah Zakaria, Goh, Hoe-Han Normah Mohd Noor, Wan Mohd Aizat, This study employed several RNA extraction methods for mangosteen pericarps prior to RNA sequencing. The sequencing platform heavily relies on a high quality RNA yield. However, pericarp tissues contain a lot of phenolic compounds that results in low RNA quality. Hence, we studied several RNA extraction methods to obtain the most suitable method for the best RNA quality from the pericarps of mangosteen. Five different methods including Lopez and Gomez, modified hexadecyltrimethyl ammonium bromide (CTAB) method, several commercial kits from TranszolUP, Favorgen and Qiagen RNeasy were compared. By optimising the CTAB method, it was found to be the best method to obtain pure RNA (high A260/A280 ratio) with the highest yields (up to approximately 600-800 ng/μL concentration). The QC control of these samples using bioanalyzer validated their suitability for the downstream RNA sequencing. This report details the method for extracting high quality and high yield RNA samples from fruit that are rich in polyphenolic compounds such as mangosteen. Penerbit Universiti Kebangsaan Malaysia 2017-08 Article PeerReviewed application/pdf en http://journalarticle.ukm.my/11142/1/08%20Azhani%20Abdul%20Rahman.pdf Azhani Abdul-Rahman, and Najah Izzati Suleman, and Wan Adibah Zakaria, and Goh, Hoe-Han and Normah Mohd Noor, and Wan Mohd Aizat, (2017) RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing. Sains Malaysiana, 46 (8). pp. 1231-1240. ISSN 0126-6039 http://www.ukm.my/jsm/malay_journals/jilid46bil8_2017/KandunganJilid46Bil8_2017.html
repository_type	Digital Repository
institution_category	Local University
institution	Universiti Kebangasaan Malaysia
building	UKM Institutional Repository
collection	Online Access
language	English
description	This study employed several RNA extraction methods for mangosteen pericarps prior to RNA sequencing. The sequencing platform heavily relies on a high quality RNA yield. However, pericarp tissues contain a lot of phenolic compounds that results in low RNA quality. Hence, we studied several RNA extraction methods to obtain the most suitable method for the best RNA quality from the pericarps of mangosteen. Five different methods including Lopez and Gomez, modified hexadecyltrimethyl ammonium bromide (CTAB) method, several commercial kits from TranszolUP, Favorgen and Qiagen RNeasy were compared. By optimising the CTAB method, it was found to be the best method to obtain pure RNA (high A260/A280 ratio) with the highest yields (up to approximately 600-800 ng/μL concentration). The QC control of these samples using bioanalyzer validated their suitability for the downstream RNA sequencing. This report details the method for extracting high quality and high yield RNA samples from fruit that are rich in polyphenolic compounds such as mangosteen.
format	Article
author	Azhani Abdul-Rahman, Najah Izzati Suleman, Wan Adibah Zakaria, Goh, Hoe-Han Normah Mohd Noor, Wan Mohd Aizat,
spellingShingle	Azhani Abdul-Rahman, Najah Izzati Suleman, Wan Adibah Zakaria, Goh, Hoe-Han Normah Mohd Noor, Wan Mohd Aizat, RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing
author_facet	Azhani Abdul-Rahman, Najah Izzati Suleman, Wan Adibah Zakaria, Goh, Hoe-Han Normah Mohd Noor, Wan Mohd Aizat,
author_sort	Azhani Abdul-Rahman,
title	RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing
title_short	RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing
title_full	RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing
title_fullStr	RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing
title_full_unstemmed	RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing
title_sort	rna extractions of mangosteen (garcinia mangostana l.) pericarps for sequencing
publisher	Penerbit Universiti Kebangsaan Malaysia
publishDate	2017
url	http://journalarticle.ukm.my/11142/ http://journalarticle.ukm.my/11142/ http://journalarticle.ukm.my/11142/1/08%20Azhani%20Abdul%20Rahman.pdf
first_indexed	2023-09-18T19:59:29Z
last_indexed	2023-09-18T19:59:29Z
_version_	1777406752353943552

RNA extractions of mangosteen (Garcinia mangostana L.) pericarps for sequencing

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