scholarly journals Genome-Wide Identification and Expression Profile Analysis of the PHT1 Gene Family in Gossypium hirsutum and Its Two Close Relatives of Subgenome Donor Species

2020 ◽  
Vol 21 (14) ◽  
pp. 4905
Author(s):  
Sheng Cai ◽  
Fujie Liu ◽  
Baoliang Zhou
Keyword(s):  
Gossypium Hirsutum ◽  
Profile Analysis ◽  
P Uptake ◽  
Phosphate Transporter ◽  
Expression Profile Analysis ◽  
Genome Wide ◽  
Phosphate Treatment ◽  
Close Relatives ◽  
P Absorption ◽  
Donor Species

Phosphate transporter (PHT) is responsible for plant phosphorus (P) absorption and transport. PHT1 is a component of the high-affinity phosphate transporter system and plays pivotal roles in P absorption under P starvation conditions. However, in cotton, the number and identity of PHT1 genes that are crucial for P absorption from soil remain unclear. Here, genome-wide identification detected twelve PHT1 genes in Gossypium hirsutum and seven and eight PHT1 genes in two close relatives of the G. hirsutum genome—G. arboreum and G. raimondii, respectively. In addition, under low-phosphate treatment, the expressions of GaPHT1;3, GaPHT1;4, and GaPHT1;5 in roots were upregulated after 3 h of induction, and GhPHT1;3-At, GhPHT1;4-At, GhPHT1;5-At, GhPHT1;3-Dt, GhPHT1;4-Dt, and GhPHT1;5-Dt in the roots began to respond after 1 h of induction. Homologous pairs—GaPHT1;4 and GhPHT1;4-At; GaPHT1;5 and GhPHT1;5-At; GrPHT1;4 and GhPHT1;4-Dt, with GhPHT1;5-Dt and GhPHT1;5-At being syntenic—were all highly expressed in the roots under normal conditions. Among the genes highly expressed in the roots, GhPHT1;4-At, GhPHT1;5-At, GhPHT1;4-Dt and GhPHT1;5-Dt were continuously upregulated by P starvation. Therefore, it is concluded that these four genes might be key genes for P uptake in cotton roots. The results of this study provide insights into the mechanisms of P absorption and transport in cotton.

scholarly journals Genome-Wide Identification of Barley ABC Genes and Their Expression in Response to Abiotic Stress Treatment

Plants ◽  
2020 ◽  
Vol 9 (10) ◽  
pp. 1281
Author(s):  
Ziling Zhang ◽  
Tao Tong ◽  
Yunxia Fang ◽  
Junjun Zheng ◽  
Xian Zhang ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Amino Acid ◽  
Stress Responses ◽  
Transmembrane Domain ◽  
Profile Analysis ◽  
Tissue Expression ◽  
Expression Profile Analysis ◽  
Genome Wide ◽  
Tissue Expression Profile ◽  
Amino Acid Length

Adenosine triphosphate-binding cassette transporters (ABC transporters) participate in various plant growth and abiotic stress responses. In the present study, 131 ABC genes in barley were systematically identified using bioinformatics. Based on the classification method of the family in rice, these members were classified into eight subfamilies (ABCA–ABCG, ABCI). The conserved domain, amino acid composition, physicochemical properties, chromosome distribution, and tissue expression of these genes were predicted and analyzed. The results showed that the characteristic motifs of the barley ABC genes were highly conserved and there were great diversities in the homology of the transmembrane domain, the number of exons, amino acid length, and the molecular weight, whereas the span of the isoelectric point was small. Tissue expression profile analysis suggested that ABC genes possess non-tissue specificity. Ultimately, 15 differentially expressed genes exhibited diverse expression responses to stress treatments including drought, cadmium, and salt stress, indicating that the ABCB and ABCG subfamilies function in the response to abiotic stress in barley.

scholarly journals Genome-wide identification and expression profile analysis of nuclear factor Y family genes in Sorghum bicolor L. (Moench)

PLoS ONE ◽  
2019 ◽  
Vol 14 (9) ◽  
pp. e0222203 ◽  
Author(s):  
P. Maheshwari ◽  
Divya Kummari ◽  
Sudhakar Reddy Palakolanu ◽  
U. Nagasai Tejaswi ◽  
M. Nagaraju ◽  
...  
Keyword(s):  
Sorghum Bicolor ◽  
Expression Profile ◽  
Profile Analysis ◽  
Nuclear Factor ◽  
Nuclear Factor Y ◽  
Expression Profile Analysis ◽  
Genome Wide ◽  
Y Family ◽  
Sorghum Bicolor L

scholarly journals Genome-Wide Expression Profile Analysis Reveals Coordinately Regulated Genes Associated with Stepwise Acquisition of Azole Resistance in Candida albicans Clinical Isolates

2003 ◽  
Vol 47 (4) ◽  
pp. 1220-1227 ◽  
Author(s):  
P. David Rogers ◽  
Katherine S. Barker
Keyword(s):  
Candida Albicans ◽  
Expression Profile ◽  
Profile Analysis ◽  
Clinical Isolates ◽  
Azole Resistance ◽  
Down Regulation ◽  
Human Fungal Pathogen ◽  
Expression Profile Analysis ◽  
Genome Wide ◽  
First Time

ABSTRACT Candida albicans is an opportunistic human fungal pathogen and a causative agent of oropharyngeal candidiasis (OPC), the most frequent opportunistic infection among patients with AIDS. Fluconazole and other azole antifungal agents have proven effective in the management of OPC; however, with increased use of these agents treatment failures have occurred. Such failures have been associated with the emergence of azole-resistant strains of C. albicans. In the present study we examined changes in the genome-wide gene expression profile of a series of C. albicans clinical isolates representing the stepwise acquisition of azole resistance. In addition to genes previously associated with azole resistance, we identified many genes whose differential expression was for the first time associated with this phenotype. Furthermore, the expression of these genes was correlated with that of the known resistance genes CDR1, CDR2, and CaMDR1. Genes coordinately regulated with the up-regulation of CDR1 and CDR2 included the up-regulation of GPX1 and RTA3 and the down-regulation of EBP1. Genes coordinately regulated with the up-regulation of CaMDR1 included the up-regulation of IFD1, IFD4, IFD5, IFD7, GRP2, DPP1, CRD2, and INO1 and the down-regulation of FET34, OPI3, and IPF1222. Several of these appeared to be coordinately regulated with both the CDR genes and CaMDR1. Many of these genes are involved in the oxidative stress response, suggesting that reduced susceptibility to oxidative damage may contribute to azole resistance. Further evaluation of the role these genes and their respective gene products play in azole antifungal resistance is warranted.

scholarly journals Genome-wide identification and evolution of HECT genes in wheat

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e10457
Author(s):  
Xianwen Meng ◽  
Ting Yang ◽  
Jing Liu ◽  
Mingde Zhao ◽  
Jiuli Wang
Keyword(s):  
Gene Family ◽  
Stress Responses ◽  
Segmental Duplication ◽  
Profile Analysis ◽  
Purifying Selection ◽  
Expression Profile Analysis ◽  
Genome Wide ◽  
A Genome ◽  
Ubiquitin Proteasome ◽  
Proteasome Pathway

Background As an important class of E3 ubiquitin ligases in the ubiquitin proteasome pathway, proteins containing homologous E6-AP carboxyl terminus (HECT) domains are crucial for growth, development, metabolism, and abiotic and biotic stress responses in plants. However, little is known about HECT genes in wheat (Triticum aestivum L.), one of the most important global crops. Methods Using a genome-wide analysis of high-quality wheat genome sequences, we identified 25 HECT genes classified into six groups based on the phylogenetic relationship among wheat, rice, and Arabidopsis thaliana. Results The predicted HECT genes were distributed evenly in 17 of 21 chromosomes of the three wheat subgenomes. Twenty-one of these genes were hypothesized to be segmental duplication genes, indicating that segmental duplication was significantly associated with the expansion of the wheat HECT gene family. The Ka/Ks ratios of the segmental duplication of these genes were less than 1, suggesting purifying selection within the gene family. The expression profile analysis revealed that the 25 wheat HECT genes were differentially expressed in 15 tissues, and genes in Group II, IV, and VI (UPL8, UPL6, UPL3) were highly expressed in roots, stems, and spikes. This study contributes to further the functional analysis of the HECT gene family in wheat.

scholarly journals Genome-wide characterization, evolution and expression profiling of UDP-glycosyltransferase family in pomelo (Citrus grandis) fruit

2020 ◽  
Author(s):  
Boping Wu ◽  
Xiaohong Liu ◽  
Kai Xu ◽  
Bo Zhang
Keyword(s):  
Secondary Metabolites ◽  
Profile Analysis ◽  
Intron Insertion ◽  
Genome Database ◽  
Expression Profile Analysis ◽  
Genome Wide ◽  
A Genome ◽  
Major Species ◽  
Screening And Identification ◽  
Available Information

Abstract Background: Pomelo is one of the three major species of citrus. The fruit accumulates a variety of abundant secondary metabolites that affect the flavor. UDP-glycosyltransferases (UGTs) are involved in the glycosylation of secondary metabolites. Results: In the present study, we performed a genome-wide analysis of pomelo UGT family, a total of 145 UGTs was identified based on the conserved plant secondary product glycosyltransferase (PSPG) motif. These UGT genes were clustered into 16 major groups through phylogenetic analysis of these genes with other plant UGTs (A-P). Pomelo UGTs were distributed unevenly among the chromosomes. At least 10 intron insertion events were observed in these UGT genome sequences, and I-5 was identified to be the highest conserved one. The expression profile analysis of pomelo UGT genes in different fruit tissues during development and ripening was carried out by RNA-seq. Conclusions: We identified 145 UGTs in pomelo fruit through transcriptome data and citrus genome database. Our research provides available information on UGTs studies in pomelo, and provides an important research foundation for screening and identification of functional UGT genes.

Sign in / Sign up

Export Citation Format

Share Document