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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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-11-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2023.1289557/full |
| _version_ | 1797629806149369856 |
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| author | Tae-Lim Kim Hyemin Lim Michael Immanuel Jesse Denison Sathishkumar Natarajan Changyoung Oh |
| author_facet | Tae-Lim Kim Hyemin Lim Michael Immanuel Jesse Denison Sathishkumar Natarajan Changyoung Oh |
| author_sort | Tae-Lim Kim |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-03-11T10:58:14Z |
| format | Article |
| id | doaj.art-70a21e35365642978399d5c3d67e7997 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-03-11T10:58:14Z |
| publishDate | 2023-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-70a21e35365642978399d5c3d67e79972023-11-13T02:59:39ZengFrontiers Media S.A.Frontiers in Genetics1664-80212023-11-011410.3389/fgene.2023.12895571289557Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubraTae-Lim Kim0Hyemin Lim1Michael Immanuel Jesse Denison2Sathishkumar Natarajan3Changyoung Oh4Department of Forest Bioresources, National Institute of Forest Science, Suwon, Republic of KoreaDepartment of Forest Bioresources, National Institute of Forest Science, Suwon, Republic of Korea3BIGS Company Limited, Hwaseong, Republic of Korea3BIGS Company Limited, Hwaseong, Republic of KoreaDepartment of Forest Bioresources, National Institute of Forest Science, Suwon, Republic of KoreaThe 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.https://www.frontiersin.org/articles/10.3389/fgene.2023.1289557/fullgene expression patterngene familygenome-wide analysisPFKQuercus rubra |
| spellingShingle | Tae-Lim Kim Hyemin Lim Michael Immanuel Jesse Denison Sathishkumar Natarajan Changyoung Oh Genome-wide identification of the PFK gene family and their expression analysis in Quercus rubra Frontiers in Genetics gene expression pattern gene family genome-wide analysis PFK 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 | gene expression pattern gene family genome-wide analysis PFK Quercus rubra |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2023.1289557/full |
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