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Author Chen Z., Zhou L., Jiang P., Lu R., Halford N.G., Liu C.
Title Genome-wide identification of sucrose nonfermenting-1-related protein kinase (SnRK) genes in barley and RNA-seq analyses of their expression in response to abscisic acid treatment.
Abstract:
Sucrose nonfermenting-1 (SNF1)-related protein kinases (SnRKs) play important roles in regulating metabolism and stress responses in plants, providing a conduit for crosstalk between metabolic and stress signalling, in some cases involving the stress hormone, abscisic acid (ABA). The burgeoning and divergence of the plant gene family has led to the evolution of three subfamilies, SnRK1, SnRK2 and SnRK3, of which SnRK2 and SnRK3 are unique to plants. Therefore, the study of SnRKs in crops may lead to the development of strategies for breeding crop varieties that are more resilient under stress conditions. In the present study, we describe the SnRK gene family of barley (Hordeum vulgare), the widespread cultivation of which can be attributed to its good adaptation to different environments. The barley HvSnRK gene family was elucidated in its entirety from publicly-available genome data and found to comprise 50 genes. Phylogenetic analyses assigned six of the genes to the HvSnRK1 subfamily, 10 to HvSnRK2 and 34 to HvSnRK3. The search was validated by applying it to Arabidopsis (Arabidopsis thaliana) and rice (Oryza sativa) genome data, identifying 50 SnRK genes in rice (four OsSnRK1, 11 OsSnRK2 and 35 OsSnRK3) and 39 in Arabidopsis (three AtSnRK1, 10 AtSnRK2 and 26 AtSnRK3). Specific motifs were identified in the encoded barley proteins, and multiple putative regulatory elements were found in the gene promoters, with light-regulated elements (LRE), ABA response elements (ABRE) and methyl jasmonate response elements (MeJa) the most common. RNA-seq analysis showed that many of the HvSnRK genes responded to ABA, some positively, some negatively and some with complex time-dependent responses. The barley HvSnRK gene family is large, comprising 50 members, subdivided into HvSnRK1 (6 members), HvSnRK2 (10 members) and HvSnRK3 (34 members), showing differential positive and negative responses to ABA.
Journal BMC Genomics
Country China
Volume 22(1)
Pages 300
Year 2021
PubMed ID 33902444
PubMed Central ID 8074225
DOI 10.1186/s12864-021-07601-6
URL -
Relation
Gene CIPK01 CIPK02 CIPK03 CIPK04 CIPK05 CIPK06 CIPK07 CIPK08 CIPK09 CIPK10 CIPK11 CIPK13 CIPK14 CIPK15 CIPK16 CIPK17 CIPK18 CIPK20 CIPK21 CIPK22 CIPK23 CIPK24 CIPK25 CIPK26 CIPK27 CIPK28 CIPK29 CIPK30 CIPK32 CIPK33 CK1 OSK1 OSK3 OSK4 PK4 PK7 SAPK1 SAPK10 SAPK2 SAPK3 SAPK4 SAPK5 SAPK6 SAPK7 SAPK8 SAPK9 SNRK1B SNRK2.11 SNRK3.19 _
INSD -
Strain Wild Core Collection -
Induced Mutation Lines(NIG Collection) -
Sterile Seed Strain -
Lethal Embryo
Mutantion Strain
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Stages in Each Organ
- Muant Lines (Gene)
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Cultivated Varieties(NIG Collection) -
Stages in Each Organ -
/rice/oryzabase