The new facility under the supervision of Dr. Neil Andrew D. Bascos, has been preparing for this much-awaited launch since last year. Together with his team of young researchers, they have been working on standardizing and optimizing laboratory protocols, and establishing research networks, to promote the use of multi-Omics technologies throughout the Philippines.
Since the Philippine Genome Center is mentioned and we have received numerous queries from colleagues in the country and the region, we are compelled to issue this Statement to address the following:
– the possible inference (from the way the Statement is written) that the head of the Philippine Genome Center’s (PGC) Program on Forensics and Ethnicity connived with the National Commission on Indigenous Peoples (NCIP) and Philippine Health Ethics Research Board (PHREB) against Dr. Larena and Prof. Jakobsson’s research or is responsible for their actions; and
– the imputation that the ethical issues raised by these agencies and PGC aim to discredit “good research” because the head of PGC’s Program on Forensics and Ethnicity is pursuing similar genetic research.
The Oxford Nanopore MinION is a portable sequencer and has the lowest instrument cost among all sequencing platforms with a 97.5 to >99.3% raw read accuracy (Oxford Nanopore Technologies, 2021). The technology has demonstrated its utility for sequencing biological entities, from the simple nano-sized viruses to complex plants and animals, generating sequence information that is sufficient to provide comprehensive insights into the underlying genome architecture. It has also been validated to produce SARS-CoV-2 consensus sequences with the same accuracy as other sequencing platforms (Bull et al., 2020 and Charre et al., 2020).
As the first ever omics facility in Mindanao, PGC Mindanao aims to conduct advance and molecular genomic tests in Mindanao as its contribution to the government response in managing and controlling the Emerging and reemerging livestock diseases.
The recommendation is to use letters of the Greek Alphabet, i.e., Alpha, Beta, Gamma to label the variants. As such, Variant of Interest (VOI) P.3 which was first detected in the Philippines (Jan-21)1 is now labeled by WHO as Theta.
Bignay [Antidesma bunius (L). Spreng] fruit contains an array of polyphenols and information on how these bioactive compounds vary with cultivar type, maturity stage, and process treatment are unclear. Also, the effects of these variations on the lipid-lowering potential of this Philippine indigenous berry have not been reported.
A close examination of the mutation profile of the P.3 viruses revealed that apart from E484K and N501Y, they also share other spike protein mutations that are likely to have functional significance (Figure 2). This includes the P681H mutation, also found in lineage B.1.1.7 viruses, as well as a three-amino acid deletion at positions 141 to 143 (LGV141_143del).
#PGCTalks is back! The Philippine Genome Center is hosting mini webinar series #PGCTalks featuring various PGC experts and will cover topics on DNA sequencing, bioinformatics analysis, and testing related to COVID-19.
Through the biosurveillance efforts of the UP – Philippine Genome Center (PGC), in coordination with the Department of Health (DOH) – Epidemiology Bureau and the Inter-Agency Task Force (IATF) Task Force on COVID-19 Variants, we report the first confirmed case of the SARS-CoV-2 B.1.1.7 lineage, more commonly known as the UK variant, in the Philippines. An announcement of this finding can be found in an official DOH press release dated January 13, 2021.
In a report posted at the Global Initiative for Sharing All Influenza Data (GISAID) website, the UK variant is said to harbor multiple spike protein mutations within a single sample, including a combination of the following: H69del, V70del(69), Y145del(143), N501Y, A570D, D614G, P681H(674), T716I, S982A, and D1118H (GISAID, 2020). While the discovery of this new UK variant appears to be concerning, the report cautions that the detailed effects of these mutations remain to be fully determined.