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Journal : Life Science and Biotechnology

In Silico Primer Design for geographical detection of Apis florea using Cytochrome c oxidase subunit 1 (COX1) gene Shullia, Nurul Insani; Kuswati, Kuswati; Kurniawan, Aditya; Fiarani, Hajar Syifa
Life Science and Biotechnology Vol. 1 No. 1 (2023): May
Publisher : Department of Biology, Faculty Mahematics and Natural Sciences, University of Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19184/lsb.v1i1.40052

Abstract

The yellow dwarf honey bee, Apis florea are well distributed in South Asia to South East Asia. This species is expanded and introduce area from their original distribution. However, the distribution of this honey bee in Indonesia is unexplored. The cytochrome c oxidase subunit 1 (COX1) gene are success to detect original geographic of introduce A. florea found in Egypt. The A. florea specific primer of COX1 gene are needed to produce the molecular marker for geographical origin detection. Thus, this study aims to in silico design the COX1 gene primer of A. florea using Primer3 and Primer-BLAST. This study results the best candidate primer of Af6_COX1_F and Af6_COX1_R primers that start from 212 to 983 regarding the A. florea COX1 gene (NC_021401) and produce 772 bp of amplicon. The melting temperature of forward primer are 54. 63 and 55.58°C, GC content of 40 and 45%, GC clamp of 3 and 2 for forward and reverse primer, respectively. There are no secondary structure of those primer and 100% homolog with A. florea COX1 sequences, thus those primer is potentially as the geographical origin marker of A. florea.
Co-Authors Afni, Amanda Lailia Nur Anugerah, Nabella Maya Ardi, Iwan Aminto Ardiyansyah, Nur Avido Yuliestyan Azmia, Fadhlan Barrul Badarsila, Adinda Citra Bambang Riyanta, Bambang Bevo Wahono Bhisma Murti Boni Swadesi Buinda , Meista Bilgis Dewi Arini, Liss Dyah Dhendy Zaki Ridwan Ernasari, Ernasari Erni Ummi Hasanah Fadjari, Kenny Taurian Fadullah, Ikhsan Fakhri Farida Indriani Fiarani, Hajar Syifa Gandakusuma, Imo Gusmiarni, Gusmiarni Hasanah, Erni Ummi Helmy Mukti Himawan, Helmy Mukti Hermawan Prasetyanto Ike Lusi Meilina Joko Pamungkas Kamalia Fikri Khamdani, Haris Kholilatul Wardani, Kholilatul Kuswati Kuswati Lazuardi, Muhammad Daffa Liss Dyah Dewi Arini Luky Adrianto M.Z, Yumarlin Maharani, Nadia Devi Maryani Maryani Muhajir Muhajir, Muhajir Muhamad Soleh Mujiyana Mujiyana Munandar, Syaiful Nadyatul Ilma Indah Savira Nanda Wulandari, Nanda Novianti, Ecliza Nurhidayat, Rojabita Dwirgahayu Nurina Rahmalia Nurul Insani Shullia Nuzuladzmi, Rafida Nariswari Oktaviane Rara Ayuningtias perwitasari Prabowo, Abram Setyo Pramadewi , Indrianti Pratiknyo, Avianto Kabul Raharti, Rini Rahman, Muhammad Budi Nur Ramadhan, Muhammad Redo Reny Yuniasanti Retno Lantarsih Reza, Agnanda Santosa, Tito Hadji Agung Sari, Mey Reza Selviana Selfi Julian Friski Sherly Aryanti Sitanggang, Tikkos Slamet Hariyadi Sosiati, Harini Sukamto Sukamto Suminto, Joko Suwardi Syafitri, Try Ssa Devi Tamtomo , Didik Taryo Totok Suwanda Ummi Hasanah, Erni Wahyudi, Danang Warso Warso, Warso Widodo Widodo Wulandari, Mutiara Yayuk Fatmawati, Yayuk Yudha, Fitroh Anugrah Kusuma Yulius Deddy Hermawan Yumarlin M. Z. Yusuf, Yusmardhany