scholarly journals The Sugar Transporter Inventory of Tomato: Genome-Wide Identification and Expression Analysis

2014 ◽  
Vol 55 (6) ◽  
pp. 1123-1141 ◽  
Author(s):  
Stefan Reuscher ◽  
Masahito Akiyama ◽  
Tomohide Yasuda ◽  
Haruko Makino ◽  
Koh Aoki ◽  
...  
Keyword(s):  
Expression Analysis ◽  
Sugar Transporter ◽  
Tomato Genome ◽  
Genome Wide

scholarly journals Title: Genome-Wide Survey and Expression Analysis of NIN-Like Protein (NLP) Genes Reveals Its Potential Roles in the Response to Nutrition Deficiency in Tomato

2021 ◽  
Author(s):  
Mengyuan Liu ◽  
Xiaona Zhi ◽  
Yi Wang ◽  
Yang Wang
Keyword(s):  
Expression Analysis ◽  
Nitrate Uptake ◽  
Molecular Mechanisms ◽  
Inorganic Nitrogen ◽  
Expression Patterns ◽  
Potassium Deficiency ◽  
Comparative Genomic ◽  
Tomato Genome ◽  
Inorganic Nitrogen Source ◽  
Genome Wide

Abstract Background: Tomato (Solanum lycopersicum) is one of the most important horticultural crops, with a marked preference of nitrate as inorganic nitrogen source. The molecular mechanisms of nitrate uptake and assimilation are poorly understood in tomato. NIN-Like Proteins (NLPs) are conserved, plant-specific transcription factors that play crucial roles in nitrate signaling. Results: In this study, genome-wide analysis revealed six NLP members in tomato genome. They were clustered into three clades in a phylogenic tree. Comparative genomic analysis showed that SlNLP genes had collinear relationships to NLPs in Arabidopsis, canola, maize and rice, and that the expansion of the SlNLP family mainly resulted from segmental duplications in tomato genome. Tissue-specific expression analysis showed that the close homologues of AtNLP6/7, SlNLP3, was strongly expressed in roots during both seedling and flowering stages; SlNLP4 and SlNLP6 exhibited preferential expression in stems and leaves; and SlNLP6 were expressed in high levels in fruits. Further, the nitrate uptake in tomato roots and expression patterns of SlNLP genes were measured under nitrogen/phosphate/potassium deficiency and nitrate resupply conditions. The transcript abundance of SlNLP3 decreased to 70% under phosphate/potassium deficiency. Most of SlNLPs were up-regulated after nitrogen starvation. SlNLP1 and SlNLP5 were induced rapidly and temporally by nitrate. Conclusions: These results provided significant insights into the potential diverse functions of SlNLPs to regulate nitrate uptake.

scholarly journals Genome‐wide Characterization and Expression Analysis of Sugar Transporter Family Genes in Woodland Strawberry

2018 ◽  
Vol 11 (3) ◽  
pp. 170103 ◽  
Author(s):  
Songtao Jiu ◽  
Muhammad Salman Haider ◽  
Mahantesh M. Kurjogi ◽  
Kekun Zhang ◽  
Xudong Zhu ◽  
...  
Keyword(s):  
Expression Analysis ◽  
Sugar Transporter ◽  
Woodland Strawberry ◽  
Transporter Family ◽  
Genome Wide

scholarly journals Genome-Wide Function, Evolutionary Characterization and Expression Analysis of Sugar Transporter Family Genes in Pear (Pyrus bretschneideriRehd)

2015 ◽  
Vol 56 (9) ◽  
pp. 1721-1737 ◽  
Author(s):  
Jia-ming Li ◽  
Dan-man Zheng ◽  
Lei-ting Li ◽  
Xin Qiao ◽  
Shu-wei Wei ◽  
...  
Keyword(s):  
Expression Analysis ◽  
Sugar Transporter ◽  
Transporter Family ◽  
Genome Wide

scholarly journals Genome-wide survey and expression analysis of NIN-like Protein (NLP) genes reveals its potential roles in the response to nitrate signaling in tomato

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Mengyuan Liu ◽  
Xiaona Zhi ◽  
Yi Wang ◽  
Yang Wang
Keyword(s):  
Expression Analysis ◽  
Nitrate Uptake ◽  
Inorganic Nitrogen ◽  
Expression Patterns ◽  
Nitrogen Deficiency ◽  
Comparative Genomic ◽  
Tomato Genome ◽  
Inorganic Nitrogen Source ◽  
Genome Wide ◽  
Nitrate Signaling

Abstract Background Tomato (Solanum lycopersicum) is one of the most important horticultural crops, with a marked preference for nitrate as an inorganic nitrogen source. The molecular mechanisms of nitrate uptake and assimilation are poorly understood in tomato. NIN-like proteins (NLPs) are conserved, plant-specific transcription factors that play crucial roles in nitrate signaling. Results In this study, genome-wide analysis identified six NLP members in tomato genome. These members were clustered into three clades in a phylogenetic tree. Comparative genomic analysis showed that SlNLP genes exhibited collinear relationships to NLPs in Arabidopsis, canola, maize and rice, and that the expansion of the SlNLP family mainly resulted from segmental duplications in the tomato genome. Tissue-specific expression analysis showed that one of the close homologs of AtNLP6/7, SlNLP3, was strongly expressed in roots during both the seedling and flowering stages, that SlNLP4 and SlNLP6 exhibited preferential expression in stems and leaves and that SlNLP6 was expressed at high levels in fruits. Furthermore, the nitrate uptake in tomato roots and the expression patterns of SlNLP genes were measured under nitrogen deficiency and nitrate resupply conditions. Four SlNLPs, SlNLP1, SlNLP2, SlNLP4 and SlNLP6, were upregulated after nitrogen starvation. And SlNLP1 and SlNLP5 were induced rapidly and temporally by nitrate. Conclusions These results provide significant insights into the potential diverse functions of SlNLPs to regulate nitrate uptake.

scholarly journals Genome-wide identification of cyclin-dependent kinase (CDK) genes affecting adipocyte differentiation in cattle

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Cuili Pan ◽  
Zhaoxiong Lei ◽  
Shuzhe Wang ◽  
Xingping Wang ◽  
Dawei Wei ◽  
...  
Keyword(s):  
Gene Family ◽  
Expression Analysis ◽  
Adipocyte Differentiation ◽  
Bos Taurus ◽  
Adipogenic Differentiation ◽  
Critical Role ◽  
Bos Indicus ◽  
Specific Expression ◽  
Genome Wide ◽  
A Genome

Abstract Background Cyclin-dependent kinases (CDKs) are protein kinases regulating important cellular processes such as cell cycle and transcription. Many CDK genes also play a critical role during adipogenic differentiation, but the role of CDK gene family in regulating bovine adipocyte differentiation has not been studied. Therefore, the present study aims to characterize the CDK gene family in bovine and study their expression pattern during adipocyte differentiation. Results We performed a genome-wide analysis and identified a number of CDK genes in several bovine species. The CDK genes were classified into 8 subfamilies through phylogenetic analysis. We found that 25 bovine CDK genes were distributed in 16 different chromosomes. Collinearity analysis revealed that the CDK gene family in Bos taurus is homologous with Bos indicus, Hybrid-Bos taurus, Hybrid Bos indicus, Bos grunniens and Bubalus bubalis. Several CDK genes had higher expression levels in preadipocytes than in differentiated adipocytes, as shown by RNA-seq analysis and qPCR, suggesting a role in the growth of emerging lipid droplets. Conclusion In this research, 185 CDK genes were identified and grouped into eight distinct clades in Bovidae, showing extensively homology. Global expression analysis of different bovine tissues and specific expression analysis during adipocytes differentiation revealed CDK4, CDK7, CDK8, CDK9 and CDK14 may be involved in bovine adipocyte differentiation. The results provide a basis for further study to determine the roles of CDK gene family in regulating adipocyte differentiation, which is beneficial for beef quality improvement.

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