Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus

Fertilization is defined as the fusion of sperm to an ovum to form a fertilized egg. As capacitated sperm fuse with the ovum, the acrosome reaction occurs to digest the corona radiata and zona pellucida that surrounds the ovum. A single sperm will then bind to the oocyte's membrane receptor, wh...

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Main Author:	Samsul Baharil, Nur Hayati
Format:	Thesis
Language:	English
Published:	2013
Subjects:	Fertilization - genetics Sperm-Ovum Interactions Spermatozoa - enzymology
Online Access:	http://psasir.upm.edu.my/id/eprint/99074/1/FPSK%28m%29%202013%2069%20IR.pdf
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spelling	my-upm-ir.990742023-01-25T02:11:26Z Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus 2013-11 Samsul Baharil, Nur Hayati Fertilization is defined as the fusion of sperm to an ovum to form a fertilized egg. As capacitated sperm fuse with the ovum, the acrosome reaction occurs to digest the corona radiata and zona pellucida that surrounds the ovum. A single sperm will then bind to the oocyte's membrane receptor, while its nucleus is engulfed by the ooplasm. A sperm specific factor, the Phospholipase C ζ (PLC ζ) is then released from the sperm which led to activation of the ovum, embryo development as well as block to polyspermy. Recent studies have demonstrated that sperm RNA is known to play essential roles during fertilization since it sustains long-lasting calcium response. Nevertheless, there is no established method to extract RNA from sperm pertaining to little amount in spermatic RNA. Therefore, the isolation of RNA from sperm Oryctolagus cuniculus (O. cuniculus) was studied. Optimization on four different methods with different chemical reagents were conducted; the method of collecting fresh semen alone, centrifuged at 4000 rpm for 10 minutes prior to RNA extraction using Easy Blue Total RNA Extraction kit was done as control group. For methodology 1, the pooled ejaculate was centrifuged with the same speed and duration before proceeding with total RNA extraction using Easy Blue Total RNA Extraction kit. Fresh semen was collected for methodology 2 and was centrifuged prior to total RNA extraction using Easy Red Total RNA Extraction kit. Next, methodology 3 was done by collecting fresh semen that was washed in phosphate buffered saline (PBS) during centrifugation before the usage of Easy Blue Total RNA Extraction kit. Finally, fresh semen washed in PBS was further purified using EquiPure and total RNA was extracted using Easy Blue Total RNA Extraction kit was performed as methodology 4. Besides sperm, total RNA from testis and epididymis were also extracted using Easy-Blue Total RNA Extraction kit. The RNA obtained from sperm, testis and epididymis were quantified in spectrophotometer to verify the concentration and purity of total RNA obtained. The target gene was then amplified using One-Step Reverse Transcriptase (RT)-PCR. The band that appeared on gel electrophoresis was excised and purified using Fermentas Gel Extraction kit before sending to sequencing company. Hence, by performing methodology 3, the total RNA from sperm of Oryctolagus cuniculus with the best total RNA purity and concentration ranging from 1.6 to 1.8 at absorbance of A260/280 and 440 to 570 ng/μl respectively was successfully isolated. Beside sperm, testis and epididymis that carried specific code for sperm factor known as PLC ζ was successfully isolated and amplified. Thus, all three samples size is from 400 to 500 base pairs. Target protein from testis and epididymis indicated 87% and 85% highly similar to Nomascus leucogenys PLC ζ sequence in NCBI database respectively. The sequence obtained from this study could be the reference for future studies. Fertilization - genetics Sperm-Ovum Interactions Spermatozoa - enzymology 2013-11 Thesis http://psasir.upm.edu.my/id/eprint/99074/ http://psasir.upm.edu.my/id/eprint/99074/1/FPSK%28m%29%202013%2069%20IR.pdf text en public masters Universiti Putra Malaysia Fertilization - genetics Sperm-Ovum Interactions Spermatozoa - enzymology Sukardi, Sabrina
institution	Universiti Putra Malaysia
collection	PSAS Institutional Repository
language	English
advisor	Sukardi, Sabrina
topic	Fertilization - genetics Sperm-Ovum Interactions Spermatozoa - enzymology
spellingShingle	Fertilization - genetics Sperm-Ovum Interactions Spermatozoa - enzymology Samsul Baharil, Nur Hayati Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus
description	Fertilization is defined as the fusion of sperm to an ovum to form a fertilized egg. As capacitated sperm fuse with the ovum, the acrosome reaction occurs to digest the corona radiata and zona pellucida that surrounds the ovum. A single sperm will then bind to the oocyte's membrane receptor, while its nucleus is engulfed by the ooplasm. A sperm specific factor, the Phospholipase C ζ (PLC ζ) is then released from the sperm which led to activation of the ovum, embryo development as well as block to polyspermy. Recent studies have demonstrated that sperm RNA is known to play essential roles during fertilization since it sustains long-lasting calcium response. Nevertheless, there is no established method to extract RNA from sperm pertaining to little amount in spermatic RNA. Therefore, the isolation of RNA from sperm Oryctolagus cuniculus (O. cuniculus) was studied. Optimization on four different methods with different chemical reagents were conducted; the method of collecting fresh semen alone, centrifuged at 4000 rpm for 10 minutes prior to RNA extraction using Easy Blue Total RNA Extraction kit was done as control group. For methodology 1, the pooled ejaculate was centrifuged with the same speed and duration before proceeding with total RNA extraction using Easy Blue Total RNA Extraction kit. Fresh semen was collected for methodology 2 and was centrifuged prior to total RNA extraction using Easy Red Total RNA Extraction kit. Next, methodology 3 was done by collecting fresh semen that was washed in phosphate buffered saline (PBS) during centrifugation before the usage of Easy Blue Total RNA Extraction kit. Finally, fresh semen washed in PBS was further purified using EquiPure and total RNA was extracted using Easy Blue Total RNA Extraction kit was performed as methodology 4. Besides sperm, total RNA from testis and epididymis were also extracted using Easy-Blue Total RNA Extraction kit. The RNA obtained from sperm, testis and epididymis were quantified in spectrophotometer to verify the concentration and purity of total RNA obtained. The target gene was then amplified using One-Step Reverse Transcriptase (RT)-PCR. The band that appeared on gel electrophoresis was excised and purified using Fermentas Gel Extraction kit before sending to sequencing company. Hence, by performing methodology 3, the total RNA from sperm of Oryctolagus cuniculus with the best total RNA purity and concentration ranging from 1.6 to 1.8 at absorbance of A260/280 and 440 to 570 ng/μl respectively was successfully isolated. Beside sperm, testis and epididymis that carried specific code for sperm factor known as PLC ζ was successfully isolated and amplified. Thus, all three samples size is from 400 to 500 base pairs. Target protein from testis and epididymis indicated 87% and 85% highly similar to Nomascus leucogenys PLC ζ sequence in NCBI database respectively. The sequence obtained from this study could be the reference for future studies.
format	Thesis
qualification_level	Master's degree
author	Samsul Baharil, Nur Hayati
author_facet	Samsul Baharil, Nur Hayati
author_sort	Samsul Baharil, Nur Hayati
title	Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus
title_short	Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus
title_full	Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus
title_fullStr	Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus
title_full_unstemmed	Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus
title_sort	optimization of total rna extraction from sperm and detection of phospholipase c zeta gene fragments from sperm, testis and epididymis of oryctolagus cuniculus
granting_institution	Universiti Putra Malaysia
publishDate	2013
url	http://psasir.upm.edu.my/id/eprint/99074/1/FPSK%28m%29%202013%2069%20IR.pdf
_version_	1776100288684359680

Optimization of total RNA extraction from sperm and detection of phospholipase C zeta gene fragments from sperm, testis and epididymis of Oryctolagus cuniculus

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