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Characterization of Lignin Biosynthesis Encoding Gene, SiCOMT, from Nine Indonesian Foxtail Millet (Setaria italica (L.) P. Beauv.) Genotypes

HAYATI Journal of Biosciences · Vol. 33 No. 3 (2026) · hlm. 575–583

DOI
10.4308/hjb.33.3.575-583
ISSN
2086-4094, 1978-3019
Terbit
2026-03-01
Penerbit
Bogor Agricultural University, Indonesia
Bahasa
eng
Lisensi
creativecommons.org/licenses/by-nc/4.0

Abstrak

Caffeic acid O-methyltransferase (COMT) is an essential enzyme that catalyzes the biosynthesis of lignin monomer units. Foxtail millet (Setaria italica) possesses three COMT-encoding genes. However, only SiCOMT1 and SiCOMT2 are considered expressed. This study investigates the characteristics of the two COMT-encoding genes across nine Indonesian foxtail millet genotypes. Phylogenetic analysis revealed that SiCOMT1 is closely related to N-methyltransferase genes, which are not involved in the lignin biosynthesis pathway. Meanwhile, SiCOMT2 is closely related to O-methyltransferase genes involved in lignin biosynthesis. SiCOMT2 from nine Indonesian foxtail millet genotypes exhibits 15 synonymous and three non-synonymous SNPs. SiCOMT2 amino acid showed Ala67Thr and Pro72Ala variations within the methyltransferase dimerization domain, and Glu146Asp within the O-methyltransferase domain. Among these, the Pro72Ala substitution is predicted to reduce the structural stability of the encoded protein. These findings suggest that SiCOMT2 may serve as a promising target for future genetic research and crop improvement strategies aimed at enhancing biomass quality by modifying lignin content and composition.

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  • IPB University
  • National Research and Innovation Agency
  • Indonesian Agency for Agricultural Research and Development
  • Asian Research Center for Bioresource and Environmental Sciences
  • Universitas Airlangga
  • Muhammadiyah University of Yogyakarta
  • Universiti Malaysia Terengganu
  • Organisasi lain
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Tampilkan sebagai tabel
Rekan penulisOrganisasiArtikel bersama
Hajrial AswidinnoorIPB University6
Bambang Sapta PurwokoIPB University5
Marisa Vidya LuthfianiIPB University4
Nurul KhumaidaIPB University2
Iswari Saraswati DewiNational Research and Innovation Agency2
Munif GhulamahdiIPB University2
Indrastuti Apri RumantiNational Research and Innovation Agency2
Trias SitaresmiAfiliasi tidak diketahui2
Wage Ratna RohaeniIndonesian Agency for Agricultural Research and Development1
Untung SusantoIndonesian Agency for Agricultural Research and Development1
TRIKOESOEMANINGTYAS TRIKOESOEMANINGTYASIPB University1
Yudhistira NugrahaNational Research and Innovation Agency1
Suwarno SuwarnoUniversitas Airlangga1
Muhamad SyukurIPB University1
Rahmi Henda YaniIPB University1
Syaifullah RahimIPB University1
Ika RoostikaNational Research and Innovation Agency1
Dwi Arizna ArofahIPB University1
Natasya NafilaIPB University1
Ahmad JunaediIPB University1
Siti NurhidayahIPB University1
Iskandar LubisIPB University1
Siti YuriyahNational Research and Innovation Agency1
Hayu Widi YuanaIPB University1
Cucu GunarsihAfiliasi tidak diketahui1
Budi Indra SetiawanIPB University1
RudiyantoAfiliasi tidak diketahui1
Chusnul ArifIPB University1
Satyanto Krido SaptomoIPB University1
Muhamad AskariMuhammadiyah University of Yogyakarta1
AdlanIPB University1
RusiantoUniversiti Malaysia Terengganu1
Koremasa TamuraAfiliasi tidak diketahui1
Hiroshi MatsudaYamaguchi University1

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Sumber metadata: OAI-PMH (metadata jurnal) http://journal.ipb.ac.id/index.php/hayati/oai, pertama di-harvest 8 Nov 2026, terakhir terlihat 8 Nov 2026.
Metadata asli (oai_dc) 
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	<dc:title xml:lang="en">Characterization of Lignin Biosynthesis Encoding Gene, SiCOMT, from Nine Indonesian Foxtail Millet (Setaria italica (L.) P. Beauv.) Genotypes</dc:title>
	<dc:creator xml:lang="en">Rizqullah, Ramadaniarto</dc:creator>
	<dc:creator xml:lang="en">Saenal, Nirwanti</dc:creator>
	<dc:creator xml:lang="en">Pahlevi, M Reza</dc:creator>
	<dc:creator xml:lang="en">Suwarno, Willy Bayuardi</dc:creator>
	<dc:creator xml:lang="en">Tsugama, Daisuke</dc:creator>
	<dc:creator xml:lang="en">Ardie, Sintho Wahyuning</dc:creator>
	<dc:description xml:lang="en">Caffeic acid O-methyltransferase (COMT) is an essential enzyme that catalyzes the biosynthesis of lignin monomer units. Foxtail millet (Setaria italica) possesses three COMT-encoding genes. However, only SiCOMT1 and SiCOMT2 are considered expressed. This study investigates the characteristics of the two COMT-encoding genes across nine Indonesian foxtail millet genotypes. Phylogenetic analysis revealed that SiCOMT1 is closely related to N-methyltransferase genes, which are not involved in the lignin biosynthesis pathway. Meanwhile, SiCOMT2 is closely related to O-methyltransferase genes involved in lignin biosynthesis. SiCOMT2 from nine Indonesian foxtail millet genotypes exhibits 15 synonymous and three non-synonymous SNPs. SiCOMT2 amino acid showed Ala67Thr and Pro72Ala variations within the methyltransferase dimerization domain, and Glu146Asp within the O-methyltransferase domain. Among these, the Pro72Ala substitution is predicted to reduce the structural stability of the encoded protein. These findings suggest that SiCOMT2 may serve as a promising target for future genetic research and crop improvement strategies aimed at enhancing biomass quality by modifying lignin content and composition.</dc:description>
	<dc:publisher xml:lang="en">Bogor Agricultural University, Indonesia</dc:publisher>
	<dc:date>2026-03-01</dc:date>
	<dc:type>info:eu-repo/semantics/article</dc:type>
	<dc:type>info:eu-repo/semantics/publishedVersion</dc:type>
	<dc:type xml:lang="en">Peer-reviewed Article</dc:type>
	<dc:format>application/pdf</dc:format>
	<dc:identifier>http://journal.ipb.ac.id/hayati/article/view/68493</dc:identifier>
	<dc:identifier>10.4308/hjb.33.3.575-583</dc:identifier>
	<dc:source xml:lang="en">HAYATI Journal of Biosciences; Vol. 33 No. 3 (2026): May 2026; 575-583</dc:source>
	<dc:source>2086-4094</dc:source>
	<dc:source>1978-3019</dc:source>
	<dc:language>eng</dc:language>
	<dc:relation>http://journal.ipb.ac.id/hayati/article/view/68493/32203</dc:relation>
	<dc:rights xml:lang="en">Copyright (c) 2026 Ramadaniarto Rizqullah, Nirwanti Saenal, M Reza Pahlevi, Willy Bayuardi Suwarno, Daisuke Tsugama, Sintho Wahyuning Ardie</dc:rights>
	<dc:rights xml:lang="en">https://creativecommons.org/licenses/by-nc/4.0</dc:rights>
</oai_dc:dc>