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Journal : Nusantara Science and Technology Proceedings

Development of Microsatellite Markers to Determine Genetic Diversity of Indonesian Betel Nut (Areca catechu L.) Muhammad Roiyan Romadhon; Sobir; Willy Bayuardi Suwarno; Deden Derajat Matra
Nusantara Science and Technology Proceedings Multi-Conference Proceeding Series D
Publisher : Future Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/nstp.2023.3002

Abstract

Areca nut (Areca catechu) belongs to the monocotyledonous and palm family of plants known as betel nut or supari plants. The Center of origin areca nut comes from India. Areca nut is a cross-pollinated plant with a heterozygous heterogeneous genetic constitution. Next-generation sequencing is widely used for plant breeding activities, including developing SSR markers with an in-silico approach. This research aims to develop an SSR marker to detect genetic diversity in local areca nut from Indonesia. The genomic data used to develop SSR markers were obtained from the Whole Genome Sequencing of Pinang Reyan Hainan Cultivars obtained from NCBI. Fragments containing SSR regions were isolated using MISA software, and primers were designed with Primer3web v.4.1.0 (https://bioinfo.ut.ee/primer3/). The average total size of the sequences tested was 168770731.8, with a total number of SSRs identified as many as 1149,813. SSR motifs are used as a step in genetic diversity research because these motifs will be used in primary attachments which in turn can affect genetic diversity. There were twenty-eight primers generated from four amplicons (100-150, 150-200, 200-250, and 250-300 bp) used for multiplex primers with motifs (AAT)37, (TA)53, (TA)54, (TC)52, (TC)52, (TG)53, and (AG)54.
Development of Microsatellite Markers to Determine Genetic Diversity of Indonesian Betel Nut (Areca catechu L.) Muhammad Roiyan Romadhon; Sobir; Willy Bayuardi Suwarno; Deden Derajat Matra
Nusantara Science and Technology Proceedings Multi-Conference Proceeding Series D
Publisher : Future Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/nstp.2023.3002

Abstract

Areca nut (Areca catechu) belongs to the monocotyledonous and palm family of plants known as betel nut or supari plants. The Center of origin areca nut comes from India. Areca nut is a cross-pollinated plant with a heterozygous heterogeneous genetic constitution. Next-generation sequencing is widely used for plant breeding activities, including developing SSR markers with an in-silico approach. This research aims to develop an SSR marker to detect genetic diversity in local areca nut from Indonesia. The genomic data used to develop SSR markers were obtained from the Whole Genome Sequencing of Pinang Reyan Hainan Cultivars obtained from NCBI. Fragments containing SSR regions were isolated using MISA software, and primers were designed with Primer3web v.4.1.0 (https://bioinfo.ut.ee/primer3/). The average total size of the sequences tested was 168770731.8, with a total number of SSRs identified as many as 1149,813. SSR motifs are used as a step in genetic diversity research because these motifs will be used in primary attachments which in turn can affect genetic diversity. There were twenty-eight primers generated from four amplicons (100-150, 150-200, 200-250, and 250-300 bp) used for multiplex primers with motifs (AAT)37, (TA)53, (TA)54, (TC)52, (TC)52, (TG)53, and (AG)54.
Co-Authors , Krisantini , Supartopo , Suwarno Abdul Qadir Adlan Adriwan Siregar, Heri Agus Purwito Ajitama, Trio Fanny Akbar, Miftahur Rizqi Alfian Helmi Amalia Nurul Huda AMIN NUR Amin Nur Amy Estiati Anas Dinurrohman Susila Andayani, Nining Anggara, Heru Anggita Duhita Anindyajati Anggraeny, Bunga Anshori, Muhammad Fuad Aprilianti, Devi Kurnia Aris Hairmansis Awang Maharijaya Ayub Darmanto Azis Boing Sitanggang Azrai, dan Muhammad Badrieh, Haian Amin Baharuddin Baharuddin Bambang Sapta Purwoko Bambang Suprihatno Bayu Pramono Wibowo Budi Indra Setiawan Butarbutar, Lidya Kristina Sari Chusnah, Uswatun Chusnul Arif Constantin, Mondjeli Cucu Gunarsih da Cunha, Rojino Danu Kuncoro Deden Derajat Matra Desi Anugra Safitri Dewi Sukma Dewi, dan Iswari Saraswati Diah Setiowati, Retno Dian Rakhmad Diny Dinarti Efendi, Darda Efendy, Roy Ekasari Putri, Nurwanita Endang Gunawan Eny Widajati Fadhilah Sitepu, Annisa Fadhli, Nur Farid, Muh Fidya Novita Firmansyah, Muh HAJRIAL ASWIDINNOOR Hishar Mirsam I Made Legawa I Putu Adi Saputra, I Putu Indrastuti A. Rumanti Indrastuti Apri Rumanti Iskandar Lubis Iskandar Lubis Iswari Saraswati Dewi Iswari Saraswati Dewi Iswari Saraswati Dewi Jayaningsih, Elvita Dwi Juharni Jundi Aiman Abdullah Kusuma, I Gede Artha Surya Kuswandi Kuswandi Lianda Dewi Sartika Lopes Hornai, Ermelinda Maria Maharijaya, dan Awang Matsuda, Hiroshi Maya Melati Mohammad Syafii Muhamad Askari Muhamad Syukur Muhammad Azrai, Muhammad Muhammad Jauhar Firdaus Muhammad Roiyan Romadhon Munandar, Arief Munif Ghulamahdi Nafisah Nailatul Karomah Ni Made Armini Wiendi Nindita, Anggi Novianti, Fira Nugroho, Rizki Anjal Puji Nugroho, Rizki Bagus Nugroho, Syarul Nurul Khumaida Pahlevi, M Reza Priyanto, Slamet Bambang Purwoko, Bambang Sapta Purwoko Purwoko, Bambang Sapto Rahmah, Syifaur Ramadaniarto Rizqullah Ramadhan, Fitrah Ramadhani, Nabilah Zulfah Reswari, Helvi Ardana Ridwani, Sobir Rika Miftakhul Jannah Rina Hapsari Wening, Rina Hapsari Rizqullah, Ramadaniarto Rokhana Faizah rudiyanto Rusianto Saenal, Nirwanti Safitri, dan Heni Salengke, Salengke Sani, Mutiyara Sari, Dewi Citra Sari, Siti Hapita Satyanto Krido Saptomo Sherly Rahayu Sintho Wahyuning Ardie Siti Nurhidayah Siti Nurhidayah Siti Yuriyah Slamet Susanto Sobir Sobir Sobir Sri Ratnawati Sri Wahjuni Sri Wening Sri Wening, Sri Wening Sugiyanta, dan Suriani Suriani Surjono Hadi Sutjahjo Susila, Anas Dinnurohman Suwarno, Punjung Medaraji Syah, Uswah Trywulan Syaifullah Rahim Syawaluddin, Dwi Dana Syilvia Nosya Pratama Tamura, Koremasa THAMRIN, SULAEHA TRI HASTINI Trias Sitaresmi Trikoesoemaningtyas Tsugama, Daisuke Tutik Kuswinanti Umi Salamah Untung Susanto Wage Ratna Rohaeni Wida W. Khumaero Widodo Widodo Wijaya, Aldi Kamal Winarso D. Widodo Wira Hadianto, Wira Yudiwanti Wahyu E. Kusumo Yuli Irvana Dewi Yuli Rahmadi, Hernawan YUNUS MUSA Z, Bunyamin Zakiah, Rizqi Alifahasni