Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome

Abstract. Subroto AP, Aditama R, Tanjung ZA, Utomo C, Liwang T. 2021. Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome. Biodiversitas 22: 1829-1838. Upstream open reading frame (uORF) translation serves as one of several modulating mec...

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Autores principales:	ANDREA PUTRI SUBROTO, REDI ADITAMA, ZULFIKAR ACHMAD TANJUNG, CONDRO UTOMO, TONY LIWANG
Formato:	article
Lenguaje:	EN
Publicado:	MBI & UNS Solo 2021
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/54e46067948b4271aa3283549093004f
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spelling	oai:doaj.org-article:54e46067948b4271aa3283549093004f2021-11-22T00:57:38ZIdentification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome1412-033X2085-472210.13057/biodiv/d220428https://doaj.org/article/54e46067948b4271aa3283549093004f2021-03-01T00:00:00Zhttps://smujo.id/biodiv/article/view/8042https://doaj.org/toc/1412-033Xhttps://doaj.org/toc/2085-4722Abstract. Subroto AP, Aditama R, Tanjung ZA, Utomo C, Liwang T. 2021. Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome. Biodiversitas 22: 1829-1838. Upstream open reading frame (uORF) translation serves as one of several modulating mechanisms in gene expression. Conserved peptide uORF is a rare subset of uORF containing a peptide sequence that is conserved among eudicot families and negatively regulates the translation of its adjacent main ORF (mORF). This research aimed to identify oil palm CPuORFs by conducting a homology search between Arabidopsis (Arabidopsis thaliana) and rice (Oryza sativa) CPuORF databases against the existing oil palm (Elaeis guineensis) genome. Using alignment by Hidden Markov Model (HMM) approach, 48 oil palm CPuORFs were discovered which were later divided into 24 homology groups (HG) based on its gene ontology. The high degree of sequence homology indicates a high conservation CPuORFs among oil palm, Arabidopsis and rice. The CPuORFs peptide sequence conservation between oil palm progenies was later validated by sequencing of CPuORF22 and CPuORF29 as a reference, from several DxP Tenera crosses, individual Duras from different origins and American oil palm (Elaeis oleifera). This is the first study of oil palm CPuORF discovery which might provide a better understanding of gene expression regulation in oil palm.ANDREA PUTRI SUBROTOREDI ADITAMAZULFIKAR ACHMAD TANJUNGCONDRO UTOMOTONY LIWANGMBI & UNS SoloarticleBiology (General)QH301-705.5ENBiodiversitas, Vol 22, Iss 4 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 ANDREA PUTRI SUBROTO REDI ADITAMA ZULFIKAR ACHMAD TANJUNG CONDRO UTOMO TONY LIWANG Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome
description	Abstract. Subroto AP, Aditama R, Tanjung ZA, Utomo C, Liwang T. 2021. Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome. Biodiversitas 22: 1829-1838. Upstream open reading frame (uORF) translation serves as one of several modulating mechanisms in gene expression. Conserved peptide uORF is a rare subset of uORF containing a peptide sequence that is conserved among eudicot families and negatively regulates the translation of its adjacent main ORF (mORF). This research aimed to identify oil palm CPuORFs by conducting a homology search between Arabidopsis (Arabidopsis thaliana) and rice (Oryza sativa) CPuORF databases against the existing oil palm (Elaeis guineensis) genome. Using alignment by Hidden Markov Model (HMM) approach, 48 oil palm CPuORFs were discovered which were later divided into 24 homology groups (HG) based on its gene ontology. The high degree of sequence homology indicates a high conservation CPuORFs among oil palm, Arabidopsis and rice. The CPuORFs peptide sequence conservation between oil palm progenies was later validated by sequencing of CPuORF22 and CPuORF29 as a reference, from several DxP Tenera crosses, individual Duras from different origins and American oil palm (Elaeis oleifera). This is the first study of oil palm CPuORF discovery which might provide a better understanding of gene expression regulation in oil palm.
format	article
author	ANDREA PUTRI SUBROTO REDI ADITAMA ZULFIKAR ACHMAD TANJUNG CONDRO UTOMO TONY LIWANG
author_facet	ANDREA PUTRI SUBROTO REDI ADITAMA ZULFIKAR ACHMAD TANJUNG CONDRO UTOMO TONY LIWANG
author_sort	ANDREA PUTRI SUBROTO
title	Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome
title_short	Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome
title_full	Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome
title_fullStr	Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome
title_full_unstemmed	Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome
title_sort	identification of conserved peptide upstream open reading frames (cpuorfs) in oil palm (elaeis guineensis) genome
publisher	MBI & UNS Solo
publishDate	2021
url	https://doaj.org/article/54e46067948b4271aa3283549093004f
work_keys_str_mv	AT andreaputrisubroto identificationofconservedpeptideupstreamopenreadingframescpuorfsinoilpalmelaeisguineensisgenome AT rediaditama identificationofconservedpeptideupstreamopenreadingframescpuorfsinoilpalmelaeisguineensisgenome AT zulfikarachmadtanjung identificationofconservedpeptideupstreamopenreadingframescpuorfsinoilpalmelaeisguineensisgenome AT condroutomo identificationofconservedpeptideupstreamopenreadingframescpuorfsinoilpalmelaeisguineensisgenome AT tonyliwang identificationofconservedpeptideupstreamopenreadingframescpuorfsinoilpalmelaeisguineensisgenome
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Identification of conserved peptide upstream open reading frames (CPuORFs) in oil palm (Elaeis guineensis) genome

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