Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>)
Class III peroxidases (PRXs) are plant-specific enzymes that play key roles in the responses to biotic and abiotic stress during plant growth and development. In addition, some peroxidases also play roles in plant lignification. In this study, a total of 114 <i>PRX</i> (designated <i&...
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MDPI AG
2021-09-01
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| Online Access: | https://www.mdpi.com/2223-7747/10/9/1874 |
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| author | Zhihua Xie Weikang Rui Yazhou Yuan Xiaofei Song Xing Liu Xin Gong Jianping Bao Shaoling Zhang Khanizadeh Shahrokh Shutian Tao |
| author_facet | Zhihua Xie Weikang Rui Yazhou Yuan Xiaofei Song Xing Liu Xin Gong Jianping Bao Shaoling Zhang Khanizadeh Shahrokh Shutian Tao |
| author_sort | Zhihua Xie |
| collection | DOAJ |
| description | Class III peroxidases (PRXs) are plant-specific enzymes that play key roles in the responses to biotic and abiotic stress during plant growth and development. In addition, some peroxidases also play roles in plant lignification. In this study, a total of 114 <i>PRX</i> (designated <i>PbPRXs</i>) genes were identified in the pear (<i>Pyrus bretschneideri Rehd</i>) genome based on systematic analysis. These <i>PRX</i> genes were divided into 12 groups based on their phylogenetic relationships. We performed systematic bioinformatics analysis of the <i>PRX</i> genes, including analysis of gene structures, conserved motifs, phylogenetic relationships, and gene expression patterns during pear fruit growth. The <i>PbPRXs</i> are unevenly distributed on the 17 pear chromosomes and some of them on other scaffolds. Gene duplication event analysis indicated that whole-genome duplication (WGD) and segmental duplication play key roles in <i>PRX</i> gene amplification. Ka/Ks analysis suggested that most duplicated <i>PbPRXs</i> experienced purifying selection, with limited functional divergence during the duplication events. Furthermore, the analysis indicated that those highly expressed genes might play significant roles in the lignification of cells to form stone cells in pear fruit. We examined the expression of those highly expressed genes during fruit growth using quantitative real-time PCR (qRT-PCR), verifying differential expression patterns at different stages of fruit. This study provides useful information for further functional analysis of the <i>PRX</i> gene family in pears. |
| first_indexed | 2024-03-10T07:17:11Z |
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| language | English |
| last_indexed | 2024-03-10T07:17:11Z |
| publishDate | 2021-09-01 |
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| series | Plants |
| spelling | doaj.art-3611fb60abe6422da340dc05d97d5dbb2023-11-22T14:53:03ZengMDPI AGPlants2223-77472021-09-01109187410.3390/plants10091874Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>)Zhihua Xie0Weikang Rui1Yazhou Yuan2Xiaofei Song3Xing Liu4Xin Gong5Jianping Bao6Shaoling Zhang7Khanizadeh Shahrokh8Shutian Tao9Pear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaCollege of Plant Science, Tarim University, Ala’er 843300, ChinaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaELM Consulting Inc., St-Lazare, QC J7T 3C2, CanadaPear Engineering Research Centre, College of Horticulture, Nanjing Agricultural University, 1 Weigang, Nanjing 210095, ChinaClass III peroxidases (PRXs) are plant-specific enzymes that play key roles in the responses to biotic and abiotic stress during plant growth and development. In addition, some peroxidases also play roles in plant lignification. In this study, a total of 114 <i>PRX</i> (designated <i>PbPRXs</i>) genes were identified in the pear (<i>Pyrus bretschneideri Rehd</i>) genome based on systematic analysis. These <i>PRX</i> genes were divided into 12 groups based on their phylogenetic relationships. We performed systematic bioinformatics analysis of the <i>PRX</i> genes, including analysis of gene structures, conserved motifs, phylogenetic relationships, and gene expression patterns during pear fruit growth. The <i>PbPRXs</i> are unevenly distributed on the 17 pear chromosomes and some of them on other scaffolds. Gene duplication event analysis indicated that whole-genome duplication (WGD) and segmental duplication play key roles in <i>PRX</i> gene amplification. Ka/Ks analysis suggested that most duplicated <i>PbPRXs</i> experienced purifying selection, with limited functional divergence during the duplication events. Furthermore, the analysis indicated that those highly expressed genes might play significant roles in the lignification of cells to form stone cells in pear fruit. We examined the expression of those highly expressed genes during fruit growth using quantitative real-time PCR (qRT-PCR), verifying differential expression patterns at different stages of fruit. This study provides useful information for further functional analysis of the <i>PRX</i> gene family in pears.https://www.mdpi.com/2223-7747/10/9/1874class III peroxidasesgenome-widestone cellslignificationexpression patternsverification |
| spellingShingle | Zhihua Xie Weikang Rui Yazhou Yuan Xiaofei Song Xing Liu Xin Gong Jianping Bao Shaoling Zhang Khanizadeh Shahrokh Shutian Tao Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>) Plants class III peroxidases genome-wide stone cells lignification expression patterns verification |
| title | Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>) |
| title_full | Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>) |
| title_fullStr | Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>) |
| title_full_unstemmed | Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>) |
| title_short | Analysis of <i>PRX</i> Gene Family and Its Function on Cell Lignification in Pears (<i>Pyrus bretschneideri</i>) |
| title_sort | analysis of i prx i gene family and its function on cell lignification in pears i pyrus bretschneideri i |
| topic | class III peroxidases genome-wide stone cells lignification expression patterns verification |
| url | https://www.mdpi.com/2223-7747/10/9/1874 |
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