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Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra

The glycolytic pathway involves phosphofructokinase (PFK), a rate-limiting enzyme that catalyzes the phosphorylation of fructose-6-phosphate. In plants, the two PFK members are ATP-dependent phosphofructokinase (PFK) and pyrophosphate-fructose-6-phosphate phosphotransferase (PFP). However, the funct...

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Autores principales: Kim, Tae-Lim, Lim, Hyemin, Denison, Michael Immanuel Jesse, Natarajan, Sathishkumar, Oh, Changyoung
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10665885/
https://www.ncbi.nlm.nih.gov/pubmed/38028631
http://dx.doi.org/10.3389/fgene.2023.1289557
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author Kim, Tae-Lim
Lim, Hyemin
Denison, Michael Immanuel Jesse
Natarajan, Sathishkumar
Oh, Changyoung
author_facet Kim, Tae-Lim
Lim, Hyemin
Denison, Michael Immanuel Jesse
Natarajan, Sathishkumar
Oh, Changyoung
author_sort Kim, Tae-Lim
collection PubMed
description The glycolytic pathway involves phosphofructokinase (PFK), a rate-limiting enzyme that catalyzes the phosphorylation of fructose-6-phosphate. In plants, the two PFK members are ATP-dependent phosphofructokinase (PFK) and pyrophosphate-fructose-6-phosphate phosphotransferase (PFP). However, the functions of the PFK family members in Quercus rubra are not well understood. The purpose of this study was to investigate the genome-wide distribution of the PFK family members and their roles in Q. rubra by performing a systematic study of the phylogenetic relationships, molecular characteristics, motifs, chromosomal and subcellular locations, and cis-elements of QrPFKs. We identified 14 QrPFK genes in the genome of Q. rubra, followed by examining their expression in different tissues, including the roots, stems, and leaves. The phylogenetic tree divided the 14 QrPFK genes into two groups: 11 belonging to PFK and three belonging to PFP. The expression profiles of all 14 proteins were relatively the same in leaves but differed between stems and roots. Four genes (Qurub.02G189400.1, Qurub.02G189400.2, Qurub.09G134300.1, and Qurub.09G134300.2) were expressed at very low levels in both stems and roots, while two (Qurub.05G235500.1 and Qurub.05G235500.1) were expressed at low levels and the others showed relatively high expression in all tissues.
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spelling pubmed-106658852023-11-09 Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra Kim, Tae-Lim Lim, Hyemin Denison, Michael Immanuel Jesse Natarajan, Sathishkumar Oh, Changyoung Front Genet Genetics The glycolytic pathway involves phosphofructokinase (PFK), a rate-limiting enzyme that catalyzes the phosphorylation of fructose-6-phosphate. In plants, the two PFK members are ATP-dependent phosphofructokinase (PFK) and pyrophosphate-fructose-6-phosphate phosphotransferase (PFP). However, the functions of the PFK family members in Quercus rubra are not well understood. The purpose of this study was to investigate the genome-wide distribution of the PFK family members and their roles in Q. rubra by performing a systematic study of the phylogenetic relationships, molecular characteristics, motifs, chromosomal and subcellular locations, and cis-elements of QrPFKs. We identified 14 QrPFK genes in the genome of Q. rubra, followed by examining their expression in different tissues, including the roots, stems, and leaves. The phylogenetic tree divided the 14 QrPFK genes into two groups: 11 belonging to PFK and three belonging to PFP. The expression profiles of all 14 proteins were relatively the same in leaves but differed between stems and roots. Four genes (Qurub.02G189400.1, Qurub.02G189400.2, Qurub.09G134300.1, and Qurub.09G134300.2) were expressed at very low levels in both stems and roots, while two (Qurub.05G235500.1 and Qurub.05G235500.1) were expressed at low levels and the others showed relatively high expression in all tissues. Frontiers Media S.A. 2023-11-09 /pmc/articles/PMC10665885/ /pubmed/38028631 http://dx.doi.org/10.3389/fgene.2023.1289557 Text en Copyright © 2023 Kim, Lim, Denison, Natarajan and Oh. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Kim, Tae-Lim
Lim, Hyemin
Denison, Michael Immanuel Jesse
Natarajan, Sathishkumar
Oh, Changyoung
Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra
title Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra
title_full Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra
title_fullStr Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra
title_full_unstemmed Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra
title_short Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra
title_sort genome-wide identification of the pfk gene family and their expression analysis in quercus rubra
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10665885/
https://www.ncbi.nlm.nih.gov/pubmed/38028631
http://dx.doi.org/10.3389/fgene.2023.1289557
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