Instructor I
Molecular Biologist
Research Technical Consultant



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Mobile Phone: (+63-915-905-7373)



Ph.D. in Medical Science, 2007 (Straight PhD Program)
Tottori University, Division of Functional Genomics, Research Center for Bioscience and Technology, Tottori Prefecture, Yonago City, Japan

Major Field: Molecular Biology and Biotechnology, Human Neurogenetics

Doctoral dissertation:

HOXA1 gene: Implicated as one of the target genes in Autism:

1. Expanded polyhistidine variants of HOXA1 inhibit neuronal differentiation and reduce PBX1-coupled transcriptional activity.
2. Enhanced autophagic cell death in expanded polyhistidine variants of HOXA1 reduces PBX1-coupled transcriptional activity and inhibits neuronal differentiation.

Research Fellow, Department of Agriculture Research Fellowship Program October, 2008 to September, 2010. RT-PCR and RT-LAMP detection kits for rapid screening of FMD virus infection



Neurogenetics, Gene expression analysis, Molecular diagnostics, DNA-based screening and selection for genetic conditions and traits in livestock animals, Mutagenesis, PCR and Loop-mediated Isothermal Amplification (LAMP) assay in diagnosing various diseases.



Formulation and Assessment of the Recombinase Polymerase Amplification (RPA), Polymerase Chain Reaction (PCR) and Loop-Mediated Isothermal Amplification (LAMP) for the Rapid Detection of Important Pathogens in Organic Farming (Discovery-Applied Research and Extension for Trans/Inter-disciplinary Opportunities DARE TO, CHED)

This research program endeavors in the establishment of the standard protocol for DNA-based detection of the important pathogens present in our local organic fertilizer and liquid supplement that can be potential hazards in human health. This also provides a robust confirmatory tool for the earliest and routine high capacity detection of tomato viruses that can also be applied in other crops catering the local farmers of our country.

Loop-Mediated Isothermal Amplification (LAMP) Detection for Schistosoma japonicum in Environmental and Flood Waters: Risk-Based Surveillance of Suspected Transmission Sites (PCHRD, in progress)
This project will attempt to establish a LAMP assay for field-based diagnostic system wherein nucleic acid extraction and LAMP assay are included that can be applied away from the laboratory where access to expensive equipment is not possible. This assay will provide evidence that LAMP is a potential tool for epidemiological S. japonicum surveys in environmental and flood waters and to recommend feasible in the SOP of surveillance of the suspected infested areas. The method holds promise for Schistosoma japonicum detection in countries with resource-limited settings. As a response to the DOH schistosomiasis program, the procedure recommends the advancement for the comprehensive field surveillance-response approach in the Philippines.

Molecular Genetic Markers in Screening Economically Important Traits in the Philippine Poultry (Proposal in progress)

Gene markers for functional traits in poultry will be screened involving egg production, the induction of vitellogenin synthesis and related to resistance of the birds to heat stress that reduces feathering.



RT-PCR and RT-LAMP detection kits for rapid screening of FMD virus infection Rapid DNA-based detection of viral infection suggests an indispensable procedure in tandem with our country's preventive strategies for the disease control. Here, the use of our own designed RT-PCR and RT-LAMP detection kits was proven efficient in detecting the FMD virus. The techniques, to a certain extent use our laboratory-made buffers, reagents and enzymes that can sever the cost of commercially-made components.

Multiplex Polymerase Chain Reaction for Simultaneous Detection of Major Mastitis-Causing Pathogens in Buffalo Milk. Results of this study could advance the diagnostic strategies for fast, efficient and cost-effective PCR-based screening methods for the epidemiological status of the raw milk produced by the Philippine Carabao Center and local farmers. This may also be useful for other livestock research stations in the Philippines.

Use of Molecular Markers in Genetic Resource Conservation and Improvement of Water Buffaloes. This study involves the use of the modified Random Amplification of DNA and the use of microsatellite markers.

Screening for positive traits and genetic defect-associated DNA polymorphisms in water buffalo, cattle, swine, goat and poultry. The purpose is to identify animals with positive traits such as litter size, good egg layers, etc. and whose genotype places them or their offspring at risk for a genetic disease or threatens the health of their future offspring (carrier screening). Genetic screening can be used for medical intervention and research, for reproductive information, monitoring and surveillance, and for records of genetic diseases and disabilities and genetic improvement.

Development of RT-LAMP Assay and Quick Test Kit for Viral Gastro Intestinal Infections (PED and TGE) of Swine. Developing a fast, simple and reliable test using RT-LAMP, PED and TGE viral antigens can be detected promptly, even before signs of diarrhea are observed. Prompt and reliable diagnosis of theses enteric viral diseases would greatly reduce morbidity and mortality among pigs thus promote high efficiency and profitability in swine farms.

Assessment of Loop-Mediated Isothermal Amplification (LAMP) in Rice Viruses in the Philippines. This study endeavored to assess the use of Loop-Mediated Isothermal Amplification (LAMP) as a quick and accurate method to diagnose rice viruses in host rice plants. LAMP assay was employed to detect four virus threats in rice crops: rice tungro bacilliform virus (RTBV), rice tungro spherical virus (RTSV), rice ragged stunt virus (RRSV) and rice grassy stunt virus (RGSV).



Rubigilda Paraguison-Alili, Ma. Jonah C. Duque, Xuan Hoai Truong and Emmanuel R. Tiongco. 2017 Assessment of Loop-Mediated Isothermal Amplification In Rice Tungro Viruses. Philippine Journal of Crop Science (PJCS) April 2017,42 (1):1-14

Rubigilda Paraguison-Alili and Clarissa Yvonne J. Domingo. 2016 Phylogenetic Tracking of Current Porcine Epidemic Diarrhea Virus (PEDV) Strains in the Philippines
Arch Virol. 2016 Sep;161(9):2601-4. doi: 10.1007/s00705-016-2938-0. Epub 2016 Jun 28.

Clarissa Yvonne J. Domingo and Rubigilda Paraguison-Alili. 2015 RT-LAMP Test Kit: A New Generation of Molecular Quick Test Kit for Porcine Epidemic Diarrhea Virus (PEDV). Journal of Agricultural Technology 2015 Vol. 11(8): 1987-2008 Available online ISSN 1686-9141

Jessica G. Manalaysay, Claro N. Mingala, Domina Flor L. Gamboa, Rubigilda Paraguison-Alili and Jocelyn G. Rafanan. Genetic Testing for Porcine Stress Syndrome Using Mutagenically Separated-Polymerase Chain Reaction Philipp. J. Vet. Med., 51(2): 125-130, 2014

Rubigilda Paraguison-Alili, Joseph Rae R Alili and Clarissa Yvonne J Domingo Practical Molecular Strategy for Generating Synthetic Positive Control for Diagnostic PCR and LAMP in Porcine Enzootic Pneumonia Research 2014;1:795 DOI 2014-05-15

Rubigilda Paraguison-Alili, Sung Min Kim, Hyeon Ju Lee, Charito A Gutierrez, Nancy S Abes, Ester B Flores and Claro N Mingala. Multiplex polymerase chain reaction for simultaneous detection of major mastitis-causing pathogens in buffalo milk Research 2014;1:784. DOI

Paraguison RC, Faylon MP, Flores EB, Cruz LC. Improved RAPD-PCR for Discriminating Breeds of Water Buffalo. Biochem Genet. 2012 Mar 9.

Higaki K, Li L, Bahrudin U, Okuzawa S, Takamura A, Yamamoto K, Adachi K, Paraguison RC, Takai T, Ikehata H, Tominaga L, Hisatome I, Iida M, Ogawa S, Matsuda J, Ninomiya H, Sakakibara Y, Ohno K, Suzuki Y, Nanba E. Chemical chaperone therapy: chaperone effect on mutant enzyme and cellular pathophysiology in β-galactosidase deficiency. Hum Mutat. 2011 Apr 21. doi: 10.1002/humu.21516.

Paraguison RC, Flores EB, Cruz LC. Possible use of RNA isolate from inactivated vaccine for external positive control in reverse transcription-based detection of foot-and-mouth disease virus in bull semen. Biochem Biophys Res Commun. 2010 Feb 19;392(4):557-60. Epub 2010 Jan 25.

Matsumoto N, Gondo K, Kukita J, Higaki K, Paraguison RC, Nanba E. A case of galactosialidosis with a homozygous Q49R point mutation. Brain Dev. 2008 Oct;30(9):595-8. Epub 2008 Apr 18.

Paraguison RC, Higaki K, Yamamoto K, Matsumoto H, Sasaki T, Kato N, Nanba E.
Enhanced autophagic cell death in expanded polyhistidine variants of HOXA1 reduces PBX1-coupled transcriptional activity and inhibits neuronal differentiation. Neurosci Res. 2007 Feb 15; 85(3):479-87.

Paraguison RC, Higaki K, Sakamoto Y, Hashimoto O, Miyake N, Matsumoto H, Yamamoto K, Sasaki T, Kato N, Nanba E. Polyhistidine tract expansions in HOXA1 result in intranuclear aggregation and increased cell death. Biochem Biophys Res Commun. 2005 Nov 4; 336(4):1033-9.

Miranda JJ, Sugimoto C, Paraguison R, Takasaka T, Zheng HY, Yogo Y. Genetic diversity of JC virus in the modern Filipino population: Implications for the peopling of the Philippines. Am J Phys Anthropol. 2003 Feb; 120(2):125-32. National Institute of Molecular Biology and Biotechnology, University of the Philippines, Quezon City 1101, Philippines.