Genome-wide Analysis of the CCCH Zinc-Finger Gene Family in Banana (Musa acuminata): An Insight Into Motif and Gene Structure Arrangement, Evolution and Salt Stress Responses

2017 ◽  
Vol 10 (4) ◽  
pp. 177-193 ◽  
Author(s):  
Purabi Mazumdar ◽  
Su-Ee Lau ◽  
Wei Yee Wee ◽  
Pooja Singh ◽  
Jennifer Ann Harikrishna
Keyword(s):  
Salt Stress ◽  
Zinc Finger ◽  
Gene Structure ◽  
Stress Responses ◽  
Musa Acuminata ◽  
Zinc Finger Gene ◽  
Genome Wide Analysis ◽  
Ccch Zinc Finger ◽  
Genome Wide ◽  
Insight Into

Genome-wide analysis of the CCCH zinc finger gene family in Medicago truncatula

2013 ◽  
Vol 32 (10) ◽  
pp. 1543-1555 ◽  
Author(s):  
Cuiqin Zhang ◽  
Hongmei Zhang ◽  
Yang Zhao ◽  
Haiyang Jiang ◽  
Suwen Zhu ◽  
...  
Keyword(s):  
Gene Family ◽  
Zinc Finger ◽  
Medicago Truncatula ◽  
Zinc Finger Gene ◽  
Genome Wide Analysis ◽  
Ccch Zinc Finger ◽  
Genome Wide

scholarly journals Genome-Wide Analysis of Poplar SQUAMOSA-Promoter-Binding Protein (SBP) Family under Salt Stress

Forests ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 413
Author(s):  
Qing Guo ◽  
Li Li ◽  
Kai Zhao ◽  
Wenjing Yao ◽  
Zihan Cheng ◽  
...  
Keyword(s):  
Salt Stress ◽  
Abiotic Stress ◽  
Stress Responses ◽  
Growth And Development ◽  
Binding Protein ◽  
Gene Segment ◽  
Gene Expression Pattern ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Squamosa Promoter Binding Protein

SQUAMOSA promoter binding protein (SBP) is a kind of plant-specific transcription factor, which plays a crucial role in stress responses and plant growth and development by activating and inhibiting the transcription of multiple target genes. In this study, a total of 30 SBP genes were identified from Populus trichocarpa genome and randomly distributed on 16 chromosomes in poplar. According to phylogenetic analysis, the PtSBPs can be divided into six categories, and 14 out of the genes belong to VI. Furthermore, the SBP genes in VI were proved to have a targeting relationship with miR156. The homeopathic element analysis showed that the promoters of poplar SBP genes mainly contain the elements involved in growth and development, abiotic stress and hormone response. In addition, there existed 10 gene segment duplication events in the SBP gene duplication analysis. Furthermore, there were four poplar and Arabidopsis orthologous gene pairs among the poplar SBP members. What is more, poplar SBP gene family has diverse gene expression pattern under salt stress. As many as nine SBP members were responding to high salt stress and six members possibly participated in growth development and abiotic stress. Yeast two-hybrid experiments indicated that PtSBPs can form heterodimers to interact in the transcriptional regulatory networks. The genome-wide analysis of poplar SBP family will contribute to function characterization of SBP genes in woody plants.

scholarly journals Genome-wide analysis of the CCCH zinc finger family in longan: Characteristic identification and expression profiles in Dimocarpus longan Lour

2022 ◽  
Vol 21 (1) ◽  
pp. 113-130
Author(s):  
Li-yao SU ◽  
Xue-chen XIAO ◽  
Meng-qi JIANG ◽  
Shu-qi HUANG ◽  
Xiao-dong XUE ◽  
...  
Keyword(s):  
Zinc Finger ◽  
Expression Profiles ◽  
Genome Wide Analysis ◽  
Ccch Zinc Finger ◽  
Genome Wide ◽  
Dimocarpus Longan

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 CCCH zinc finger family in Arabidopsis and rice

BMC Genomics ◽  
2008 ◽  
Vol 9 (1) ◽  
pp. 44 ◽  
Author(s):  
Dong Wang ◽  
Yinghui Guo ◽  
Changai Wu ◽  
Guodong Yang ◽  
Yingying Li ◽  
...  
Keyword(s):  
Zinc Finger ◽  
Genome Wide Analysis ◽  
Ccch Zinc Finger ◽  
Genome Wide

scholarly journals Genome-Wide Analysis of DEAD-box RNA Helicase Family in Wheat (Triticum aestivum) and Functional Identification of TaDEAD-box57 in Abiotic Stress Responses

2021 ◽  
Vol 12 ◽  
Author(s):  
Jing-Na Ru ◽  
Ze-Hao Hou ◽  
Lei Zheng ◽  
Qi Zhao ◽  
Feng-Zhi Wang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Abiotic Stress ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Survival Rates ◽  
Rna Helicase ◽  
Genome Wide Analysis ◽  
Dead Box ◽  
Genome Wide ◽  
Transgenic Lines

DEAD-box RNA helicases constitute the largest subfamily of RNA helicase superfamily 2 (SF2), and play crucial roles in plant growth, development, and abiotic stress responses. Wheat is one of the most important cereal crops in worldwide, and abiotic stresses greatly restrict its production. So far, the DEAD-box RNA helicase family has yet to be characterized in wheat. Here, we performed a comprehensive genome-wide analysis of the DEAD-box RNA helicase family in wheat, including phylogenetic relationships, chromosomal distribution, duplication events, and protein motifs. A total of 141 TaDEAD-box genes were identified and found to be unevenly distributed across all 21 chromosomes. Whole genome/segmental duplication was identified as the likely main driving factor for expansion of the TaDEAD-box family. Expression patterns of the 141 TaDEAD-box genes were compared across different tissues and under abiotic stresses to identify genes to be important in growth or stress responses. TaDEAD-box57-3B was significantly up-regulated under multiple abiotic stresses, and was therefore selected for further analysis. TaDEAD-box57-3B was localized to the cytoplasm and plasma membrane. Ectopic expression of TaDEAD-box57-3B in Arabidopsis improved tolerance to drought and salt stress as measured by germination rates, root lengths, fresh weights, and survival rates. Transgenic lines also showed higher levels of proline and chlorophyll and lower levels of malonaldehyde (MDA) than WT plants in response to drought or salt stress. In response to cold stress, the transgenic lines showed significantly better growth and higher survival rates than WT plants. These results indicate that TaDEAD-box57-3B may increase tolerance to drought, salt, and cold stress in transgenic plants through regulating the degree of membrane lipid peroxidation. This study provides new insights for understanding evolution and function in the TaDEAD-box gene family.

scholarly journals Genome-wide analysis and stress-responsive expression of CCCH zinc finger family genes in Brassica rapa

2018 ◽  
Vol 18 (1) ◽  
Author(s):  
Boyi Pi ◽  
Xinghui He ◽  
Ying Ruan ◽  
Jyan-Chyun Jang ◽  
Yong Huang
Keyword(s):  
Zinc Finger ◽  
Brassica Rapa ◽  
Genome Wide Analysis ◽  
Ccch Zinc Finger ◽  
Genome Wide

scholarly journals Genome-wide analysis and comparison of the DNA-binding one zinc finger gene family in diploid and tetraploid cotton (Gossypium)

PLoS ONE ◽  
2020 ◽  
Vol 15 (6) ◽  
pp. e0235317
Author(s):  
YuZhe Li ◽  
Zhen Liu ◽  
KaiYue Zhang ◽  
SenYi Chen ◽  
MengJie Liu ◽  
...  
Keyword(s):  
Dna Binding ◽  
Gene Family ◽  
Zinc Finger ◽  
Tetraploid Cotton ◽  
Zinc Finger Gene ◽  
Genome Wide Analysis ◽  
Genome Wide

scholarly journals Genome-wide analysis and expression profiling of zinc finger homeodomain (ZHD) family genes reveal likely roles in organ development and stress responses in tomato

BMC Genomics ◽  
2017 ◽  
Vol 18 (1) ◽  
Author(s):  
Khadiza Khatun ◽  
Ujjal Kumar Nath ◽  
Arif Hasan Khan Robin ◽  
Jong-In Park ◽  
Do-Jin Lee ◽  
...  
Keyword(s):  
Zinc Finger ◽  
Stress Responses ◽  
Expression Profiling ◽  
Organ Development ◽  
Genome Wide Analysis ◽  
Genome Wide
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