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      KCI등재 SCOPUS

      Genome-wide identification and expression profiling of the pectin methylesterase gene family in Citrus sinensis (L.) Osbeck

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      https://www.riss.kr/link?id=A108396790

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      다국어 초록 (Multilingual Abstract)

      Pectin methylesterase (PME) plays an important role in vegetative and reproductive development and biotic/abiotic stress responses by regulating the degree of methyl-esterification of pectic polysaccharides in the plant cell wall. PMEs are encoded by a large multigene family in higher land plant genomes. In general, the expression of plant PME genes shows tissue- or cell-specific patterns and is induced by endogenous and exogenous stimuli. In this study, we identified PME multigene family members (CsPMEs) from the sweet orange genome and report detailed molecular characterization and expression profiling in different citrus tissues and two fruit developmental stages.
      We also discussed the possible functional roles of some CsPME genes by comparing them with the known functions of PMEs from other plant species. We identified 48 CsPME genes from the citrus genome. A phylogenetic tree analysis revealed that the identified CsPMEs were divided into two groups/types. Some CsPMEs showed very close phylogenetic relationships with the PMEs whose functions were formerly addressed in Arabidopsis, tomato, and maize.
      Expression profiling showed that some CsPME genes are highly or specifically expressed in the leaf, root, flower, or fruit. Based on the phylogenetic relationships and gene expression profiling results, we suggest that some CsPMEs could play functional roles in pollen development, pollen tube growth, cross incompatibility, root development, embryo/ seed development, stomata movement, and biotic/abiotic stress responses. Our results shed light on the biological roles of individual CsPME isoforms and contribute to the search for genetic variations in citrus genetic resources.
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      Pectin methylesterase (PME) plays an important role in vegetative and reproductive development and biotic/abiotic stress responses by regulating the degree of methyl-esterification of pectic polysaccharides in the plant cell wall. PMEs are encoded by ...

      Pectin methylesterase (PME) plays an important role in vegetative and reproductive development and biotic/abiotic stress responses by regulating the degree of methyl-esterification of pectic polysaccharides in the plant cell wall. PMEs are encoded by a large multigene family in higher land plant genomes. In general, the expression of plant PME genes shows tissue- or cell-specific patterns and is induced by endogenous and exogenous stimuli. In this study, we identified PME multigene family members (CsPMEs) from the sweet orange genome and report detailed molecular characterization and expression profiling in different citrus tissues and two fruit developmental stages.
      We also discussed the possible functional roles of some CsPME genes by comparing them with the known functions of PMEs from other plant species. We identified 48 CsPME genes from the citrus genome. A phylogenetic tree analysis revealed that the identified CsPMEs were divided into two groups/types. Some CsPMEs showed very close phylogenetic relationships with the PMEs whose functions were formerly addressed in Arabidopsis, tomato, and maize.
      Expression profiling showed that some CsPME genes are highly or specifically expressed in the leaf, root, flower, or fruit. Based on the phylogenetic relationships and gene expression profiling results, we suggest that some CsPMEs could play functional roles in pollen development, pollen tube growth, cross incompatibility, root development, embryo/ seed development, stomata movement, and biotic/abiotic stress responses. Our results shed light on the biological roles of individual CsPME isoforms and contribute to the search for genetic variations in citrus genetic resources.

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      참고문헌 (Reference)

      1 김호방 ; 김재준 ; 오창재 ; 윤수현 ; 송관정, "감귤 분자육종을 위한 분자표지 개발 현황 및 전망" 한국식물생명공학회 43 (43): 261-271, 2016

      2 Jiang L, "VANGUARD1 encodes a pectin methylesterase that enhances pollen tube growth in the Arabidopsis style and transmitting tract" 17 : 584-596, 2005

      3 Wang Y, "Three types of genes underlying the Gametophyte factor1 locus cause unilateral cross incompatibility in maize" 13 : 4498-, 2022

      4 Ruiz-May E, "The secreted plant N-glycoproteome and associated secretory pathways" 3 : 117-, 2012

      5 Liu H, "The emergence and evolution of intron-poor and intronless genes in intron-rich plant gene families" 105 : 1072-1082, 2021

      6 Xu Q, "The draft genome of sweet orange(Citrus sinensis)" 45 : 59-66, 2013

      7 Amsbury S, "Stomatal function requires pectin de-methylesterification of the guard cell wall" 26 : 2899-2906, 2016

      8 Simons H, "Simultaneous co-suppression of polygalacturonase and pectinesterase in tomato fruit : inheritance and effect on isoform profiles" 52 : 1017-1022, 1999

      9 Phan TD, "Silencing of the major salt-dependent isoform of pectinesterase in tomato alters fruit softening" 144 : 1960-1967, 2007

      10 Teufel F, "SignalP 6.0 predicts all five types of signal peptides using protein language models" 2022

      1 김호방 ; 김재준 ; 오창재 ; 윤수현 ; 송관정, "감귤 분자육종을 위한 분자표지 개발 현황 및 전망" 한국식물생명공학회 43 (43): 261-271, 2016

      2 Jiang L, "VANGUARD1 encodes a pectin methylesterase that enhances pollen tube growth in the Arabidopsis style and transmitting tract" 17 : 584-596, 2005

      3 Wang Y, "Three types of genes underlying the Gametophyte factor1 locus cause unilateral cross incompatibility in maize" 13 : 4498-, 2022

      4 Ruiz-May E, "The secreted plant N-glycoproteome and associated secretory pathways" 3 : 117-, 2012

      5 Liu H, "The emergence and evolution of intron-poor and intronless genes in intron-rich plant gene families" 105 : 1072-1082, 2021

      6 Xu Q, "The draft genome of sweet orange(Citrus sinensis)" 45 : 59-66, 2013

      7 Amsbury S, "Stomatal function requires pectin de-methylesterification of the guard cell wall" 26 : 2899-2906, 2016

      8 Simons H, "Simultaneous co-suppression of polygalacturonase and pectinesterase in tomato fruit : inheritance and effect on isoform profiles" 52 : 1017-1022, 1999

      9 Phan TD, "Silencing of the major salt-dependent isoform of pectinesterase in tomato alters fruit softening" 144 : 1960-1967, 2007

      10 Teufel F, "SignalP 6.0 predicts all five types of signal peptides using protein language models" 2022

      11 Francis KE, "Separation of Arabidopsis pollen tetrads is regulated by QUARTET1, a pectin methylesterase gene" 142 : 1004-1013, 2006

      12 Dorokhov YL, "Role of the leader sequence in tobacco pectin methylesterase secretion" 580 : 3329-3334, 2006

      13 Geisler-Lee J, "Poplar carbohydrateactive enzymes. Gene identification and expression analyses" 140 : 946-962, 2006

      14 Tian GW, "Pollenspecific pectin methylesterase involved in pollen tube growth" 294 : 83-91, 2006

      15 Markovič O, "Pectin methylesterases : sequencestructural features and phylogenetic relationships" 339 : 2281-2295, 2004

      16 Wu H-C, "Pectin methylesterases : cell wall remodeling proteins are required for plant response to heat stress" 9 : 1612-, 2018

      17 Micheli F, "Pectin methylesterases : cell wall enzymes with important roles in plant physiology" 6 : 414-418, 2001

      18 Raiola A, "Pectin methylesterase is induced in Arabidopsis upon infection and is necessary for a successful colonization by necrotrophic pathogens" 24 : 432-440, 2011

      19 Turbant A, "PME58 plays a role in pectin distribution during seed coat mucilage extrusion through homogalacturonan modification" 67 : 2177-2190, 2016

      20 Leroux C, "PECTIN METHYLESTERASE48 is involved in Arabidopsis pollen grain germination" 167 : 367-380, 2015

      21 Huang Y-C, "PECTIN METHYLESTERASE34 contributes to heat tolerance through its role in promoting stomatal movement" 174 : 748-763, 2017

      22 Rogozin IB, "Origin and evolution of spliceosomal introns" 7 : 11-, 2012

      23 Pelloux J, "New insights into pectin methylesterase structure and function" 12 : 267-277, 2007

      24 Love MI, "Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2" 15 : 550-, 2014

      25 Kumar S, "MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets" 33 : 1870-1874, 2016

      26 김성철 ; 엄윤경 ; 고승희 ; 오창재 ; 곽용범 ; 김홍림 ; 이이 ; 안창선 ; 박훤범 ; 김호방, "KiwiPME1 Encoding Pectin Methylesterase Is Specifically Expressed in the Pollen of a Dioecious Plant Species, Kiwifruit (Actinidia chinensis)" 한국원예학회 56 (56): 402-410, 2015

      27 Guénin S, "Identification of pectin methylesterase 3 as a basic pectin methylesterase isoform involved in adventitious rooting in Arabidopsis thaliana" 192 : 114-126, 2011

      28 Kim HB, "Identification of differentially expressed genes from male and female flowers of kiwifruit" 9 : 6684-6694, 2010

      29 Jin-Kyu Woo ; Su-Hyun Yun ; Kyung Uk Yi ; Young Chul Park ; Hye-Young Lee ; Minju Kim ; Yi Lee ; Kwan-Jeong Song ; 김호방, "Identification of Citrus Varieties Bred in Korea Using Microsatellite Markers" 한국원예학회 38 (38): 374-384, 2020

      30 Sénéchal F, "Homogalacturonan-modifying enzymes : structure, expression, and roles in plants" 65 : 5125-5160, 2014

      31 Wolf S, "Homogalacturonan methylesterification and plant development" 2 : 851-860, 2009

      32 Levesque-Tremblay G, "HIGHLY METHYL ESTERIFIED SEEDS is a pectin methyl esterase involved in embryo development" 167 : 725-737, 2015

      33 Wolf S, "Growth control by cell wall pectins" 249 : S169-S175, 2012

      34 Jeong HY, "Genome-wide identification and expression analysis of rice pectin methylesterases: implication of functional roles of pectin modification in rice physiology" 183 : 23-29, 2015

      35 Zhang P, "Genome-wide identifcation, phylogeny and expression analysis of the PME and PMEI gene families in maize" 9 : 19918-, 2019

      36 Wang L, "Genome-wide identifcation of PME genes, evolution and expression analyses in soybean (Glycine max L.)" 21 : 578-, 2021

      37 Atmodjo MA, "Galacturonosyltransferase(GAUT)1 and GAUT7 are the core of a plant cell wall pectin biosynthetic homogalacturonan : galacturonosyltransferase complex" 108 : 20225-20230, 2011

      38 Hu B, "GSDS2.0: an upgraded gene feature visualization server" 31 : 1296-1297, 2015

      39 Wang D, "Fruit softening : Revisiting the role of pectin" 23 : 302-310, 2018

      40 Moller S, "Evaluation of methods for the prediction of membrane spanning regions" 17 : 646-653, 2001

      41 Wen B, "Effect of silencing the two major tomato fruit pectin methylesterase isoforms on cell wall pectin metabolism" 15 : 1025-1032, 2013

      42 Louvet R, "Comprehensive expression profiling of the pectin methylesterase gene family during silique development in Arabidopsis thaliana" 224 : 782-791, 2006

      43 Gmitter FG, "Citrus genomics" 8 : 611-626, 2012

      44 Wen B, "Characterization of the tomato(Solanum lycopersicum)pectin methylesterases : evolution, activity of isoforms and expression during fruit ripening" 11 : 238-, 2020

      45 Panha Pok ; 오은의 ; 이경욱 ; 강종훈 ; 고부영 ; 김호방 ; 송관정, "Characterization of Microspore Development and Pollen Tube Growth Response to Self- and Cross-pollination in Jeju Old Local Citrus Species" 한국원예학회 56 (56): 225-232, 2015

      46 Hewezi T, "Cellulose binding protein from the parasitic nematode Heterodera schachtii interacts with Arabidopsis pectin methylesterase : cooperative cell wall modification during parasitism" 20 : 3080-3093, 2008

      47 Sénéchal F, "Arabidopsis PECTIN METHYLESTERASE17 is co-expressed with and processed by SBT3.5, a subtilisinlike serine protease" 114 : 1161-1175, 2014

      48 Putri G, "Analysing high-throughput sequencing data in Python with HTSeq 2. 0" 38 : 2943-2945, 2022

      49 Tieman DM, "An antisense pectin methylesterase gene alters pectin chemistry and soluble solids in tomato fruit" 4 : 667-679, 1992

      50 Eddy SR, "Accelerated profile HMM searches" 7 : e1002195-, 2011

      51 Amos RA, "A two-phase model for the non-processive biosynthesis of homogalacturonan polysaccharides by the GAUT1 : GAUT7 complex" 293 : 19047-19063, 2018

      52 Moran Lauter AN, "A Pectin methylesterase ZmPme3 is expressed in gametophyte factor1-s (Ga1-s) silks and maps to that locus in maize (Zea mays L.)" 8 : 1926-, 2017

      53 Zhang Z, "A PECTIN METHYLESTERASE gene at the maize Ga1 locus confers male function in unilateral crossincompatibility" 9 : 3678-, 2018

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