Jan Bernel Padolina, News, Communication Management Office
For the first time, the Polytechnic University of the Philippines (PUP) team implementing the project LAMP (Loop-mediated isothermal amplification) Detection Assays for Anthracnose, Stem-end Rot, and Scab Disease Pathogens in Philippine ‘Carabao’ Mango” successfully deposited and published ITS 1-2 (Internal Transcribed Spacer 1 - 2) gene sequences of Lasiodiplodia sp. isolates to the GenBank. The sequences were obtained from the DNA of Lasiodiplodia sp. found to be the causative fungi of stem-end rot disease in Philippine mango.
GenBank is an international open access database for nucleotide sequences and their protein translations managed by the National Center for Biotechnology Information (NCBI) based in Bethesda, Maryland, USA.
Asst. Prof. Chester C. Deocaris, one of the proponents of the study, explained that the addition of the gene sequences to the GenBank database gives scientists and researchers all over the world new biological data to work on. He also stressed that the inclusion of their gene sequences in GenBank is a first for the College of Science and shows that PUP can also make notable contributions in the fields of biochemistry and molecular biology just as well as institutions with more funding.
With this, PUP now joins the ranks of only a handful of institutions that contributes gene sequences along with the University of the Philippines (UP), University of Santo Tomas (UST), De La Salle University (DLSU), and Ateneo de Manila University (ADMU).
The following are the accession numbers for locating the gene sequences deposited in the GenBank database found at https://www.ncbi.nlm.nih.gov/genbank/: MW052557 (PH2018_B18), MW052558 (PH2018_B22), MW052559 (PH2018_CS2), MW052560 (PH2018_CS2.3), and MW052561 (PH2018_RS2.3).
As of this writing, the research team has also submitted rpb2 (RNA Polymerase II), β-tubulin (Beta Tubulin), and tef1a (Elongation Factor 1-Alpha) gene sequences of Lasiodiplodia sp. in GenBank provided with accession numbers and is awaiting the eventual inclusion of said gene sequences in the database (See table for the accession numbers of other submissions).
Table 1. Genbank accessions of the Lasiodiplodia sp. strains collected by PUP researches.
Strain
tef1a
β-tubulin
rpb2
PH2018_18
MW033225
MW001694
MT921817
PH2018_22
MW033226
MW001695
MT921818
PH2018_45
-
MW001696
MT921819
PH2018_CS2
MW033227
MW001697
MT921820
PH2018_CS2.3
MW033228
MW001698
MT921821
PH2018_RS3.2
MW033229
MW001699
MT921822
The project is funded by the Japan Society for Promotion of Science (JSPS) - Department of Science and Technology (DOST) Joint Research Program and the Philippine Council for Agriculture, Aquatic and Natural Resources Research and Development (PCAARRD) and headed by Dr. Lourdes V. Alvarez from the Department of Biology, College of Science. ###
*J.B.P. Padolina is the University Research Associate of the Joint JSPS-DOST-PCAARD and PUP project for the development of LAMP primers for Anthracnose and Stem-End-Rot disease of Carabao Mango. He is an alumnus of the BS Biology program of Polytechnic University of the Philippines and currently taking his MS degree in Biochemistry with minors in Molecular Biology and Biotechnology in UP Los Banos.
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