scholarly journals Genome-Wide Identification and Expression, Protein–Protein Interaction and Evolutionary Analysis of the Seed Plant-Specific BIG GRAIN and BIG GRAIN LIKE Gene Family

2017 ◽  
Vol 8 ◽  
Author(s):  
Bhuwaneshwar S. Mishra ◽  
Muhammed Jamsheer K ◽  
Dhriti Singh ◽  
Manvi Sharma ◽  
Ashverya Laxmi
Keyword(s):  
Gene Family ◽  
Protein Interaction ◽  
Evolutionary Analysis ◽  
Seed Plant ◽  
Protein Protein Interaction ◽  
Genome Wide

scholarly journals Genome-Wide Identification, Expression Profiling and Protein-Protein Interaction Properties of the BEL-Like Homeodomain Gene Family in Apple

Phyton ◽  
2022 ◽  
Vol 91 (2) ◽  
pp. 315-331
Author(s):  
Huifeng Li ◽  
Qiang Zhao ◽  
Hai Wang ◽  
Qinglong Dong ◽  
Yi Xu
Keyword(s):  
Gene Family ◽  
Protein Interaction ◽  
Expression Profiling ◽  
Protein Protein Interaction ◽  
Genome Wide

scholarly journals Genome-Wide Characterization and Expression Analysis of bZIP Gene Family Under Abiotic Stress in Glycyrrhiza uralensis

2021 ◽  
Vol 12 ◽  
Author(s):  
Yuxuan Han ◽  
Zhuoni Hou ◽  
Qiuling He ◽  
Xuemin Zhang ◽  
Kaijing Yan ◽  
...  
Keyword(s):  
Gene Expression ◽  
Abiotic Stress ◽  
Gene Family ◽  
Protein Interaction ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Glycyrrhiza Uralensis ◽  
Protein Protein Interaction ◽  
Genome Wide ◽  
Protein Protein Interaction Networks

bZIP gene family is one of the largest transcription factor families. It plays an important role in plant growth, metabolic, and environmental response. However, complete genome-wide investigation of bZIP gene family in Glycyrrhiza uralensis remains unexplained. In this study, 66 putative bZIP genes in the genome of G. uralensis were identified. And their evolutionary classification, physicochemical properties, conserved domain, functional differentiation, and the expression level under different stress conditions were further analyzed. All the members were clustered into 13 subfamilies (A–K, M, and S). A total of 10 conserved motifs were found in GubZIP proteins. Members from the same subfamily shared highly similar gene structures and conserved domains. Tandem duplication events acted as a major driving force for the evolution of bZIP gene family in G. uralensis. Cis-acting elements and protein–protein interaction networks showed that GubZIPs in one subfamily are involved in multiple functions, while some GubZIPs from different subfamilies may share the same functional category. The miRNA network targeting GubZIPs showed that the regulation at the transcriptional level may affect protein–protein interaction networks. We suspected that domain-mediated interactions may categorize a protein family into subfamilies in G. uralensis. Furthermore, the tissue-specific gene expression patterns of GubZIPs were analyzed using the public RNA-seq data. Moreover, gene expression level of 66 bZIP family members under abiotic stress treatments was quantified by using qRT-PCR. The results of this study may serve as potential candidates for functional characterization in the future.

Genome-wide studies of protein–protein interaction

2003 ◽  
Vol 13 (3) ◽  
pp. 383-388 ◽  
Author(s):  
Joël Janin ◽  
Bertrand Séraphin
Keyword(s):  
Protein Interaction ◽  
Protein Protein Interaction ◽  
Genome Wide

scholarly journals Genome-wide identification and evolutionary analysis of MLO gene family in Rosaceae plants

2021 ◽  
Author(s):  
Yongxian Tian ◽  
Qigang Wang ◽  
Hao Zhang ◽  
Ningning Zhou ◽  
Huijun Yan ◽  
...  
Keyword(s):  
Gene Family ◽  
Evolutionary Analysis ◽  
Genome Wide ◽  
Mlo Gene Family

scholarly journals Genome Wide Analysis Approach Suggests Chromosome 2 Locus to be Associated with Thiazide and Thiazide Like-Diuretics Blood Pressure Response

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Sonal Singh ◽  
Caitrin W. McDonough ◽  
Yan Gong ◽  
Kent R. Bailey ◽  
Eric Boerwinkle ◽  
...  
Keyword(s):  
Blood Pressure ◽  
Protein Interaction ◽  
Interaction Analysis ◽  
Inositol Phosphate ◽  
Meta Analysis ◽  
Hypertensive Patients ◽  
Protein Protein Interaction ◽  
Genome Wide ◽  
A Genome ◽  
Β Blockers

AbstractChlorthalidone (CTD) is more potent than hydrochlorothiazide (HCTZ) in reducing blood pressure (BP) in hypertensive patients, though both are plagued with BP response variability. However, there is a void in the literature regarding the genetic determinants contributing to the variability observed in BP response to CTD. We performed a discovery genome wide association analysis of BP response post CTD treatment in African Americans (AA) and European Americans (EA) from the Pharmacogenomic Evaluation of Antihypertensive Responses-2 (PEAR-2) study and replication in an independent cohort of AA and EA treated with HCTZ from the PEAR study, followed by a race specific meta-analysis of the two studies. Successfully replicated SNPs were further validated in beta-blocker treated participants from PEAR-2 and PEAR for opposite direction of association. The replicated and validated signals were further evaluated by protein-protein interaction network analysis. An intronic SNP rs79237970 in the WDR92 (eQTL for PPP3R1) was significantly associated with better DBP response to CTD (p = 5.76 × 10−6, β = −15.75) in the AA cohort. This SNP further replicated in PEAR (p = 0.00046, β = −9.815) with a genome wide significant meta-analysis p-value of 8.49 × 10−9. This variant was further validated for opposite association in two β-blockers treated cohorts from PEAR-2 metoprolol (p = 9.9 × 10−3, β = 7.47) and PEAR atenolol (p = 0.04, β = 4.36) for association with DBP. Studies have implicated WDR92 in coronary artery damage. PPP3R1 is the regulatory subunit of the calcineurin complex. Use of calcineurin inhibitors is associated with HTN. Studies have also shown polymorphisms in PPP3R1 to be associated with ventricular hypertrophy in AA hypertensive patients. Protein-protein interaction analysis further identified important hypertension related pathways such as inositol phosphate-mediated signaling and calcineurin-NFAT signaling cascade as important biological process associated with PPP3R1 which further strengthen the potential importance of this signal. These data collectively suggest that WDR92 and PPP3R1 are novel candidates that may help explain the genetic underpinnings of BP response of thiazide and thiazide-like diuretics and help identify the patients better suited for thiazide and thiazide-like diuretics compared to β-blockers for improved BP management. This may further help advance personalized approaches to antihypertensive therapy.

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