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Title: The grapevine kinome: annotation, classification and expression patterns in developmental processes and stress responses

Abstract

Protein kinases (PKs) have evolved as the largest family of molecular switches that regulate protein activities associated with almost all essential cellular functions. Only a fraction of plant PKs, however, have been functionally characterized even in model plant species. In the present study, the entire grapevine kinome was identified and annotated using the most recent version of the grapevine genome. A total of 1168 PK-encoding genes were identified and classified into 20 groups and 121 families, with the RLK-Pelle group being the largest, with 872 members. The 1168 kinase genes were unevenly distributed over all 19 chromosomes, and both tandem and segmental duplications contributed to the expansion of the grapevine kinome, especially of the RLK-Pelle group. Ka/Ks values indicated that most of the tandem and segmental duplication events were under purifying selection. The grapevine kinome families exhibited different expression patterns during plant development and in response to various stress treatments, with many being coexpressed. The comprehensive annotation of grapevine kinase genes, their patterns of expression and coexpression, and the related information facilitate a more complete understanding of the roles of various grapevine kinases in growth and development, responses to abiotic stress, and evolutionary history.

Authors:
 [1];  [1];  [2]; ORCiD logo [3];  [4]; ORCiD logo [5];  [1]
  1. Nanjing Agricultural University (China). College of Horticulture; Univ. of Tennessee, Knoxville, TN (United States). Department of Plant Sciences
  2. Nanjing Agricultural University (China). College of Horticulture
  3. Jiangsu Academy of Agricultural Sciences, Nanjing (China). Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Institute of Horticulture
  4. Univ. of Tennessee, Knoxville, TN (United States). Department of Entomology and Plant Pathology
  5. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Biosciences Division
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1468060
Grant/Contract Number:  
AC05-00OR22725
Resource Type:
Accepted Manuscript
Journal Name:
Horticulture Research (online)
Additional Journal Information:
Journal Name: Horticulture Research (online); Journal Volume: 5; Journal Issue: 1; Journal ID: ISSN 2052-7276
Publisher:
Springer Nature - Nanjing Agricultural University
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Zhu, Kaikai, Wang, Xiaolong, Liu, Jinyi, Tang, Jun, Cheng, Qunkang, Chen, Jin-Gui, and Cheng, Zong-Ming. The grapevine kinome: annotation, classification and expression patterns in developmental processes and stress responses. United States: N. p., 2018. Web. doi:10.1038/s41438-018-0027-0.
Zhu, Kaikai, Wang, Xiaolong, Liu, Jinyi, Tang, Jun, Cheng, Qunkang, Chen, Jin-Gui, & Cheng, Zong-Ming. The grapevine kinome: annotation, classification and expression patterns in developmental processes and stress responses. United States. doi:10.1038/s41438-018-0027-0.
Zhu, Kaikai, Wang, Xiaolong, Liu, Jinyi, Tang, Jun, Cheng, Qunkang, Chen, Jin-Gui, and Cheng, Zong-Ming. Sun . "The grapevine kinome: annotation, classification and expression patterns in developmental processes and stress responses". United States. doi:10.1038/s41438-018-0027-0. https://www.osti.gov/servlets/purl/1468060.
@article{osti_1468060,
title = {The grapevine kinome: annotation, classification and expression patterns in developmental processes and stress responses},
author = {Zhu, Kaikai and Wang, Xiaolong and Liu, Jinyi and Tang, Jun and Cheng, Qunkang and Chen, Jin-Gui and Cheng, Zong-Ming},
abstractNote = {Protein kinases (PKs) have evolved as the largest family of molecular switches that regulate protein activities associated with almost all essential cellular functions. Only a fraction of plant PKs, however, have been functionally characterized even in model plant species. In the present study, the entire grapevine kinome was identified and annotated using the most recent version of the grapevine genome. A total of 1168 PK-encoding genes were identified and classified into 20 groups and 121 families, with the RLK-Pelle group being the largest, with 872 members. The 1168 kinase genes were unevenly distributed over all 19 chromosomes, and both tandem and segmental duplications contributed to the expansion of the grapevine kinome, especially of the RLK-Pelle group. Ka/Ks values indicated that most of the tandem and segmental duplication events were under purifying selection. The grapevine kinome families exhibited different expression patterns during plant development and in response to various stress treatments, with many being coexpressed. The comprehensive annotation of grapevine kinase genes, their patterns of expression and coexpression, and the related information facilitate a more complete understanding of the roles of various grapevine kinases in growth and development, responses to abiotic stress, and evolutionary history.},
doi = {10.1038/s41438-018-0027-0},
journal = {Horticulture Research (online)},
number = 1,
volume = 5,
place = {United States},
year = {2018},
month = {4}
}

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