Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait

The enzymes that are independently encoded by GA2ox, GA3ox and GA20ox genes control gibberellins (GA) biosynthesis and catabolism. This study analysed the promoter regions, transcription start site (TSS), motifs and CpG islands (CGIs) in 15 GA oxidase genes of Arabidopsis thaliana using 1-kb sequenc...

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Autores principales:	Shiferaw Teshome, Mulugeta Kebede
Formato:	article
Lenguaje:	EN
Publicado:	Taylor & Francis Group 2021
Materias:	cpg island motif ga gene promoter transcription start site Biotechnology TP248.13-248.65
Acceso en línea:	https://doaj.org/article/a79b5679c7ab46c482c1246bc5ddb700
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spelling	oai:doaj.org-article:a79b5679c7ab46c482c1246bc5ddb7002021-11-17T14:21:55ZAnalysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait1310-28181314-353010.1080/13102818.2021.1995494https://doaj.org/article/a79b5679c7ab46c482c1246bc5ddb7002021-01-01T00:00:00Zhttp://dx.doi.org/10.1080/13102818.2021.1995494https://doaj.org/toc/1310-2818https://doaj.org/toc/1314-3530The enzymes that are independently encoded by GA2ox, GA3ox and GA20ox genes control gibberellins (GA) biosynthesis and catabolism. This study analysed the promoter regions, transcription start site (TSS), motifs and CpG islands (CGIs) in 15 GA oxidase genes of Arabidopsis thaliana using 1-kb sequences. Excluding ATGA2ox5 and ATGA3ox4, promoter regions and TSS analysis showed that 60.00% of the genes have more than one TSS in 1000 bp. Relative to the ATG, 80.00% of TSSs with highest score were in the range of −100 bp. Sixty percent of investigated GA genes have TSS in their 5′ untranslated regions (UTRs) with highest prediction score at 0.8 cut-off values. A total of 5 motifs were discovered in 15 GA oxidase genes. More than half (53.33%) of the motifs were distributed throughout promoter regions on both strands. Positional clustering of more than half (55.31%) of motifs was found between +1 and −500 bp. MfIV was detected (100%) in all promoter regions of GA genes. Using the Plant CARE database, various similar motifs were identified in all promoter regions of GA genes. Including two gibberellin-responsive elements (GARE-motif, P-box), numerous motifs such as CAAT-box, TATA-box, ATC-motif, Gap-box and others were distinguished in the promoter regions of GA genes. CGIs were not detected in the promoter sequences of all GA oxidase genes. However, 86.66% of CGIs were discovered in the gene bodies of GA oxidase genes. Analysing the regulatory elements of GA genes is the first step to control crop height, increase yield and resistance to lodging.Shiferaw TeshomeMulugeta KebedeTaylor & Francis Grouparticlecpg islandmotifga genepromotertranscription start siteBiotechnologyTP248.13-248.65ENBiotechnology & Biotechnological Equipment, Vol 35, Iss 1, Pp 1603-1612 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	cpg island motif ga gene promoter transcription start site Biotechnology TP248.13-248.65
spellingShingle	cpg island motif ga gene promoter transcription start site Biotechnology TP248.13-248.65 Shiferaw Teshome Mulugeta Kebede Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait
description	The enzymes that are independently encoded by GA2ox, GA3ox and GA20ox genes control gibberellins (GA) biosynthesis and catabolism. This study analysed the promoter regions, transcription start site (TSS), motifs and CpG islands (CGIs) in 15 GA oxidase genes of Arabidopsis thaliana using 1-kb sequences. Excluding ATGA2ox5 and ATGA3ox4, promoter regions and TSS analysis showed that 60.00% of the genes have more than one TSS in 1000 bp. Relative to the ATG, 80.00% of TSSs with highest score were in the range of −100 bp. Sixty percent of investigated GA genes have TSS in their 5′ untranslated regions (UTRs) with highest prediction score at 0.8 cut-off values. A total of 5 motifs were discovered in 15 GA oxidase genes. More than half (53.33%) of the motifs were distributed throughout promoter regions on both strands. Positional clustering of more than half (55.31%) of motifs was found between +1 and −500 bp. MfIV was detected (100%) in all promoter regions of GA genes. Using the Plant CARE database, various similar motifs were identified in all promoter regions of GA genes. Including two gibberellin-responsive elements (GARE-motif, P-box), numerous motifs such as CAAT-box, TATA-box, ATC-motif, Gap-box and others were distinguished in the promoter regions of GA genes. CGIs were not detected in the promoter sequences of all GA oxidase genes. However, 86.66% of CGIs were discovered in the gene bodies of GA oxidase genes. Analysing the regulatory elements of GA genes is the first step to control crop height, increase yield and resistance to lodging.
format	article
author	Shiferaw Teshome Mulugeta Kebede
author_facet	Shiferaw Teshome Mulugeta Kebede
author_sort	Shiferaw Teshome
title	Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait
title_short	Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait
title_full	Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait
title_fullStr	Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait
title_full_unstemmed	Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait
title_sort	analysis of regulatory elements in ga2ox, ga3ox and ga20ox gene families in arabidopsis thaliana: an important trait
publisher	Taylor & Francis Group
publishDate	2021
url	https://doaj.org/article/a79b5679c7ab46c482c1246bc5ddb700
work_keys_str_mv	AT shiferawteshome analysisofregulatoryelementsinga2oxga3oxandga20oxgenefamiliesinarabidopsisthalianaanimportanttrait AT mulugetakebede analysisofregulatoryelementsinga2oxga3oxandga20oxgenefamiliesinarabidopsisthalianaanimportanttrait
_version_	1718425501675028480

Analysis of regulatory elements in GA2ox, GA3ox and GA20ox gene families in Arabidopsis thaliana: an important trait

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