Classification of barley U-box E3 ligases and their expression patterns in response to drought and pathogen stresses

TY - JOUR

T1 - Classification of barley U-box E3 ligases and their expression patterns in response to drought and pathogen stresses

AU - Ryu, Moon Young

AU - Cho, Seok Keun

AU - Hong, Yourae

AU - Kim, Jinho

AU - Kim, Jong Hum

AU - Kim, Gu Min

AU - Chen, Yan-Jun

AU - Knoch, Eva

AU - Møller, Birger Lindberg

AU - Kim, Woo Taek

AU - Lyngkjær, Michael Foged

AU - Yang, Seong Wook

PY - 2019/4/29

Y1 - 2019/4/29

N2 - Background: Controlled turnover of proteins as mediated by the ubiquitin proteasome system (UPS) is an important element in plant defense against environmental and pathogen stresses. E3 ligases play a central role in subjecting proteins to hydrolysis by the UPS. Recently, it has been demonstrated that a specific class of E3 ligases termed the U-box ligases are directly associated with the defense mechanisms against abiotic and biotic stresses in several plants. However, no studies on U-box E3 ligases have been performed in one of the important staple crops, barley. Results: In this study, we identified 67 putative U-box E3 ligases from the barley genome and expressed sequence tags (ESTs). Similar to Arabidopsis and rice U-box E3 ligases, most of barley U-box E3 ligases possess evolutionary well-conserved domain organizations. Based on the domain compositions and arrangements, the barley U-box proteins were classified into eight different classes. Along with this new classification, we refined the previously reported classifications of U-box E3 ligase genes in Arabidopsis and rice. Furthermore, we investigated the expression profile of 67 U-box E3 ligase genes in response to drought stress and pathogen infection. We observed that many U-box E3 ligase genes were specifically up-and-down regulated by drought stress or by fungal infection, implying their possible roles of some U-box E3 ligase genes in the stress responses. Conclusion: This study reports the classification of U-box E3 ligases in barley and their expression profiles against drought stress and pathogen infection. Therefore, the classification and expression profiling of barley U-box genes can be used as a platform to functionally define the stress-related E3 ligases in barley.

AB - Background: Controlled turnover of proteins as mediated by the ubiquitin proteasome system (UPS) is an important element in plant defense against environmental and pathogen stresses. E3 ligases play a central role in subjecting proteins to hydrolysis by the UPS. Recently, it has been demonstrated that a specific class of E3 ligases termed the U-box ligases are directly associated with the defense mechanisms against abiotic and biotic stresses in several plants. However, no studies on U-box E3 ligases have been performed in one of the important staple crops, barley. Results: In this study, we identified 67 putative U-box E3 ligases from the barley genome and expressed sequence tags (ESTs). Similar to Arabidopsis and rice U-box E3 ligases, most of barley U-box E3 ligases possess evolutionary well-conserved domain organizations. Based on the domain compositions and arrangements, the barley U-box proteins were classified into eight different classes. Along with this new classification, we refined the previously reported classifications of U-box E3 ligase genes in Arabidopsis and rice. Furthermore, we investigated the expression profile of 67 U-box E3 ligase genes in response to drought stress and pathogen infection. We observed that many U-box E3 ligase genes were specifically up-and-down regulated by drought stress or by fungal infection, implying their possible roles of some U-box E3 ligase genes in the stress responses. Conclusion: This study reports the classification of U-box E3 ligases in barley and their expression profiles against drought stress and pathogen infection. Therefore, the classification and expression profiling of barley U-box genes can be used as a platform to functionally define the stress-related E3 ligases in barley.

KW - Abiotic stress

KW - Barley

KW - Biotic stress

KW - Hordeum vulgare

KW - Ubiquitin proteasome system (UPS)

UR - http://www.scopus.com/inward/record.url?scp=85065024074&partnerID=8YFLogxK

U2 - 10.1186/s12864-019-5696-z

DO - 10.1186/s12864-019-5696-z

M3 - Journal article

C2 - 31035917

AN - SCOPUS:85065024074

SN - 1471-2164

VL - 20

SP - 1

EP - 15

JO - BMC Genomics

JF - BMC Genomics

M1 - 326

ER -