Genome-wide identification of serine acetyltransferase (SAT) gene family in rice (Oryza sativa) and their expressions under salt stress

2021 ◽  
Author(s):  
Fırat Kurt ◽  
Ertugrul Filiz ◽  
Adnan Aydın
Keyword(s):  
Oryza Sativa ◽  
Salt Stress ◽  
Gene Family ◽  
Serine Acetyltransferase ◽  
Genome Wide

scholarly journals Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa)

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Zhixuan Du ◽  
Qitao Su ◽  
Zheng Wu ◽  
Zhou Huang ◽  
Jianzhong Bao ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Gene Family ◽  
Tandem Repeats ◽  
Expression Profiles ◽  
Functional Divergence ◽  
Expression Patterns ◽  
Regulatory Elements ◽  
Genome Wide ◽  
Comprehensive Information ◽  
Family Gene

AbstractMultidrug and toxic compound extrusion (MATE) proteins are involved in many physiological functions of plant growth and development. Although an increasing number of MATE proteins have been identified, the understanding of MATE proteins is still very limited in rice. In this study, 46 MATE proteins were identified from the rice (Oryza sativa) genome by homology searches and domain prediction. The rice MATE family was divided into four subfamilies based on the phylogenetic tree. Tandem repeats and fragment replication contribute to the expansion of the rice MATE gene family. Gene structure and cis-regulatory elements reveal the potential functions of MATE genes. Analysis of gene expression showed that most of MATE genes were constitutively expressed and the expression patterns of genes in different tissues were analyzed using RNA-seq. Furthermore, qRT-PCR-based analysis showed differential expression patterns in response to salt and drought stress. The analysis results of this study provide comprehensive information on the MATE gene family in rice and will aid in understanding the functional divergence of MATE genes.

scholarly journals Genome-Wide Analysis of the TCP Gene Family in Switchgrass (Panicum virgatum L.)

2019 ◽  
Vol 2019 ◽  
pp. 1-13 ◽  
Author(s):  
Yuzhu Huo ◽  
Wangdan Xiong ◽  
Kunlong Su ◽  
Yu Li ◽  
Yawen Yang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Plant Growth ◽  
Gene Family ◽  
Stress Responses ◽  
Panicum Virgatum ◽  
Expression Profiles ◽  
Specific Expression ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
A Genome

The plant-specific transcription factor TCPs play multiple roles in plant growth, development, and stress responses. However, a genome-wide analysis of TCP proteins and their roles in salt stress has not been declared in switchgrass (Panicum virgatum L.). In this study, 42 PvTCP genes (PvTCPs) were identified from the switchgrass genome and 38 members can be anchored to its chromosomes unevenly. Nine PvTCPs were predicted to be microRNA319 (miR319) targets. Furthermore, PvTCPs can be divided into three clades according to the phylogeny and conserved domains. Members in the same clade have the similar gene structure and motif localization. Although all PvTCPs were expressed in tested tissues, their expression profiles were different under normal condition. The specific expression may indicate their different roles in plant growth and development. In addition, approximately 20 cis-acting elements were detected in the promoters of PvTCPs, and 40% were related to stress response. Moreover, the expression profiles of PvTCPs under salt stress were also analyzed and 29 PvTCPs were regulated after NaCl treatment. Taken together, the PvTCP gene family was analyzed at a genome-wide level and their possible functions in salt stress, which lay the basis for further functional analysis of PvTCPs in switchgrass.

scholarly journals Genome-wide analysis of RopGEF gene family to identify genes contributing to pollen tube growth in rice (Oryza sativa)

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Eui-Jung Kim ◽  
Sung-Wook Park ◽  
Woo-Jong Hong ◽  
Jeniffer Silva ◽  
Wanqi Liang ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Pollen Tube ◽  
Gene Family ◽  
Pollen Tube Growth ◽  
Tube Growth ◽  
Genome Wide Analysis ◽  
Genome Wide

scholarly journals Genome-Wide Analyses of the Soybean F-Box Gene Family in Response to Salt Stress

2017 ◽  
Vol 18 (4) ◽  
pp. 818 ◽  
Author(s):  
Qi Jia ◽  
Zhi-Xia Xiao ◽  
Fuk-Ling Wong ◽  
Song Sun ◽  
Kang-Jing Liang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Gene Family ◽  
Genome Wide

Genome-wide identification of CAMTA gene family members in Phaseolus vulgaris L. and their expression profiling during salt stress

2019 ◽  
Vol 46 (3) ◽  
pp. 2721-2732 ◽  
Author(s):  
İlker Büyük ◽  
Emre İlhan ◽  
Dilara Şener ◽  
Ata Umut Özsoy ◽  
Sümer Aras
Keyword(s):  
Salt Stress ◽  
Phaseolus Vulgaris ◽  
Gene Family ◽  
Expression Profiling ◽  
Family Members ◽  
Phaseolus Vulgaris L ◽  
Genome Wide

scholarly journals Genome-Wide Identification and Characterization of the SHI-Related Sequence Gene Family in Rice

2020 ◽  
Vol 16 ◽  
pp. 117693432094149
Author(s):  
Jun Yang ◽  
Peng Xu ◽  
Diqiu Yu
Keyword(s):  
Oryza Sativa ◽  
Gene Family ◽  
Brachypodium Distachyon ◽  
Functional Divergence ◽  
Japonica Rice ◽  
Segmental Duplications ◽  
Related Sequence ◽  
Genome Wide ◽  
A Genome

Rice ( Oryza sativa) yield is correlated to various factors. Transcription regulators are important factors, such as the typical SHORT INTERNODES-related sequences (SRSs), which encode proteins with single zinc finger motifs. Nevertheless, knowledge regarding the evolutionary and functional characteristics of the SRS gene family members in rice is insufficient. Therefore, we performed a genome-wide screening and characterization of the OsSRS gene family in Oryza sativa japonica rice. We also examined the SRS proteins from 11 rice sub-species, consisting of 3 cultivars, 6 wild varieties, and 2 other genome types. SRS members from maize, sorghum, Brachypodium distachyon, and Arabidopsis were also investigated. All these SRS proteins exhibited species-specific characteristics, as well as monocot- and dicot-specific characteristics, as assessed by phylogenetic analysis, which was further validated by gene structure and motif analyses. Genome comparisons revealed that segmental duplications may have played significant roles in the recombination of the OsSRS gene family and their expression levels. The family was mainly subjected to purifying selective pressure. In addition, the expression data demonstrated the distinct responses of OsSRS genes to various abiotic stresses and hormonal treatments, indicating their functional divergence. Our study provides a good reference for elucidating the functions of SRS genes in rice.

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