scholarly journals Identification and Characterization of microRNA319a and Its Putative Target Gene, PvPCF5, in the Bioenergy Grass Switchgrass (Panicum virgatum)

2017 ◽  
Vol 8 ◽  
Author(s):  
Qi Xie ◽  
Xue Liu ◽  
Yinbing Zhang ◽  
Jinfu Tang ◽  
Dedong Yin ◽  
...  
Keyword(s):  
Panicum Virgatum ◽  
Target Gene ◽  
Putative Target Gene ◽  
Putative Target ◽  
Identification And Characterization

p22/PACAP Response Gene 1 (PRG1): A Putative Target Gene for the Tumor Suppressor p53

1998 ◽  
Vol 865 (1 VIP, PACAP, A) ◽  
pp. 27-36 ◽  
Author(s):  
HEINER SCHAFER ◽  
ANNA TRAUZOLD ◽  
THORSTEN SEBENS ◽  
WOLFGANG DEPPERT ◽  
ULRICH R. FOLSCH ◽  
...  
Keyword(s):  
Tumor Suppressor ◽  
Target Gene ◽  
Tumor Suppressor P53 ◽  
Putative Target Gene ◽  
Response Gene ◽  
Putative Target

Identification, expression, and putative target gene analysis of nuclear factor-Y (NF-Y) transcription factors in tea plant (Camellia sinensis)

Planta ◽  
2019 ◽  
Vol 250 (5) ◽  
pp. 1671-1686 ◽  
Author(s):  
Pengjie Wang ◽  
Yucheng Zheng ◽  
Yongchun Guo ◽  
Xuejin Chen ◽  
Yun Sun ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Camellia Sinensis ◽  
Target Gene ◽  
Tea Plant ◽  
Gene Analysis ◽  
Nuclear Factor ◽  
Putative Target Gene ◽  
Nuclear Factor Y ◽  
Putative Target

scholarly journals MyDGR: a server for identification and characterization of diversity-generating retroelements

2019 ◽  
Vol 47 (W1) ◽  
pp. W289-W294 ◽  
Author(s):  
Fatemeh Sharifi ◽  
Yuzhen Ye
Keyword(s):  
Target Gene ◽  
Target Genes ◽  
Web Server ◽  
Nucleotide Sequences ◽  
Bacterial Genomes ◽  
Fasta Format ◽  
Reverse Transcriptases ◽  
Identification And Characterization ◽  
The Web

Abstract MyDGR is a web server providing integrated prediction and visualization of Diversity-Generating Retroelements (DGR) systems in query nucleotide sequences. It is built upon an enhanced version of DGRscan, a tool we previously developed for identification of DGR systems. DGR systems are remarkable genetic elements that use error-prone reverse transcriptases to generate vast sequence variants in specific target genes, which have been shown to benefit their hosts (bacteria, archaea or phages). As the first web server for annotation of DGR systems, myDGR is freely available on the web at http://omics.informatics.indiana.edu/myDGR with all major browsers supported. MyDGR accepts query nucleotide sequences in FASTA format, and outputs all the important features of a predicted DGR system, including a reverse transcriptase, a template repeat and one (or more) variable repeats and their alignment featuring A-to-N (N can be C, T or G) substitutions, and VR-containing target gene(s). In addition to providing the results as text files for download, myDGR generates a visual summary of the results for users to explore the predicted DGR systems. Users can also directly access pre-calculated, putative DGR systems identified in currently available reference bacterial genomes and a few other collections of sequences (including human microbiomes).

scholarly journals Identification and characterization of differentially expressed exosomal microRNAs in bovine milk infected with Staphylococcus aureus

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Shaoyang Ma ◽  
Chao Tong ◽  
Eveline M. Ibeagha-Awemu ◽  
Xin Zhao
Keyword(s):  
Staphylococcus Aureus ◽  
Target Gene ◽  
Protein Transport ◽  
Target Genes ◽  
Bovine Milk ◽  
Differentially Expressed ◽  
Control Group ◽  
Mastitic Milk ◽  
Identification And Characterization

Abstract Background MicroRNAs (miRNAs) in milk-derived exosomes may reflect pathophysiological changes caused by mastitis. This study profiled miRNAs in exosomes from both normal milk and mastitic milk infected by Staphylococcus aureus (S. aureus). The potential targets for differentially expressed (DE) miRNAs were predicted and the target genes for bta-miR-378 and bta-miR-185 were also validated. Results Total RNA from milk exosomes was collected from healthy cows (n = 3, the control group) and S. aureus infected cows (n = 6, the SA group). Two hundred ninety miRNAs (221 known and 69 novel ones) were identified. Among them, 22 known and 15 novel miRNAs were differentially expressed. Target genes of DE miRNAs were significantly enriched in intracellular protein transport, endoplasmic reticulum and identical protein binding. The expression of two miRNAs (bta-miR-378 and bta-miR-185) with high read counts and log2 fold changes (> 3.5) was significantly higher in mastitic milk infected with S. aureus. One target gene (VAT1L) of bta-miR-378 and five target genes (DYRK1B, MLLT3, HP1BP3, NPR2 and PGM1) of bta-miR-185 were validated. Conclusion DE miRNAs in exosomes from normal and S. aureus infected milk were identified. The predicted targets for two DE miRNAs (bta-miR-378 and bta-miR-185) were further validated. The linkage between the validated target genes and diseases suggested that we should pay particular attention to exosome miRNAs from mastitic milk in terms of milk safety.

Identification ofPAK4as a putative target gene for amplification within 19q13.12-q13.2 in oral squamous-cell carcinoma

2009 ◽  
Vol 100 (10) ◽  
pp. 1908-1916 ◽  
Author(s):  
Asma Begum ◽  
Issei Imoto ◽  
Ken-ichi Kozaki ◽  
Hitoshi Tsuda ◽  
Emina Suzuki ◽  
...  
Keyword(s):  
Squamous Cell Carcinoma ◽  
Oral Squamous Cell Carcinoma ◽  
Cell Carcinoma ◽  
Squamous Cell ◽  
Target Gene ◽  
Putative Target Gene ◽  
Putative Target

scholarly journals Identification and characterization of differentially expressed exosomal microRNAs in bovine milk infected with Staphylococcus aureus

2019 ◽  
Author(s):  
Shaoyang Ma ◽  
Chao Tong ◽  
Eveline M. Ibeagha-Awemu ◽  
Xin Zhao
Keyword(s):  
Staphylococcus Aureus ◽  
Target Gene ◽  
Protein Transport ◽  
Target Genes ◽  
Bovine Milk ◽  
Differentially Expressed ◽  
Control Group ◽  
Mastitic Milk ◽  
Identification And Characterization

Abstract Background: MicroRNAs (miRNA) in milk-derived exosomes may reflect pathophysiological changes caused by mastitis. This study profiled miRNAs in exosomes from both normal milk and mastitic milk infected by Staphylococcus aureus (S. aureus). The potential targets for differentially expressed (DE) miRNAs were predicted and the target genes for bta-miR-378 and bta-miR-185 were also validated. Results: Total RNA from milk exosomes was collected from healthy cows (n=3, the control group) and S. aureus infected cows (n=6, the SA group). Two hundred ninety miRNAs (221 known and 69 novel ones) were identified. Among them, 22 known and 15 novel miRNAs were differentially expressed. Target genes of DE miRNAs were significantly enriched in intracellular protein transport, endoplasmic reticulum and identical protein binding. Two miRNAs (bta-miR-378 and bta-miR-185) with high read counts and log 2 fold changes (>3.5) were significantly higher in mastitic milk infected with S. aureus. One target gene (VAT1L) of bta-miR-378 and five target genes (DYRK1B, MLLT3, HP1BP3, NPR2 and PGM1) of bta-miR-185 were validated. Conclusion: DE miRNAs in exosomes from normal and S. aureus infected milk were identified. The predicted targets for two DE miRNAs (bta-miR-378 and bta-miR-185) were further validated. The linkage between the validated target genes and diseases suggested that we should pay particular attention to exosome miRNAs from mastitic milk in terms of milk safety.

scholarly journals Identification and characterization of differentially expressed exosomal microRNAs in bovine milk infected with Staphylococcus aureus

2019 ◽  
Author(s):  
Shaoyang Ma ◽  
Chao Tong ◽  
Eveline M. Ibeagha-Awemu ◽  
Xin Zhao
Keyword(s):  
Staphylococcus Aureus ◽  
Target Gene ◽  
Protein Transport ◽  
Target Genes ◽  
Bovine Milk ◽  
Differentially Expressed ◽  
Control Group ◽  
Mastitic Milk ◽  
Identification And Characterization

Abstract Background: MicroRNAs (miRNA) in milk-derived exosomes may reflect pathophysiological changes caused by mastitis. This study profiled miRNAs in exosomes from both normal milk and mastitic milk infected by Staphylococcus aureus (S. aureus). The potential targets for differentially expressed (DE) miRNAs were predicted and the target genes for bta-miR-378 and bta-miR-185 were also validated. Results: Total RNA from milk exosomes was collected from healthy cows (n=3, the control group) and S. aureus infected cows (n=6, the SA group). Two hundred ninety miRNAs (221 known and 69 novel ones) were identified. Among them, 22 known and 15 novel miRNAs were differentially expressed. Target genes of DE miRNAs were significantly enriched in intracellular protein transport, endoplasmic reticulum and identical protein binding. Two miRNAs (bta-miR-378 and bta-miR-185) with high read counts and log 2 fold changes (>3.5) were significantly higher in mastitic milk infected with S. aureus. One target gene (V AT1L) of bta-miR-378 and five target genes (DYRK1B , MLLT3 , HP1BP3 , NPR2 and PGM1) of bta-miR-185 were validated. Conclusion: DE miRNAs in exosomes from normal and S. aureus infected milk were identified. The predicted targets for two DE miRNAs (bta-miR-378 and bta-miR-185) were further validated. The linkage between the validated target genes and diseases suggested that we should pay particular attention to exosome miRNAs from mastitic milk in terms of milk safety.

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