scholarly journals Comprehensive Analysis and Expression Profiling of PIN, AUX/LAX, and ABCB Auxin Transporter Gene Families in Solanum tuberosum under Phytohormone Stimuli and Abiotic Stresses

Biology ◽  
2021 ◽  
Vol 10 (2) ◽  
pp. 127
Author(s):  
Chenghui Yang ◽  
Dongdong Wang ◽  
Chao Zhang ◽  
Minghui Ye ◽  
Nana Kong ◽  
...  
Keyword(s):  
Expression Profiling ◽  
Abiotic Stresses ◽  
Biological Significance ◽  
Gene Families ◽  
Comprehensive Analysis ◽  
Pcr Analysis ◽  
Transporter Gene ◽  
Potato Genome ◽  
Transport Inhibitors ◽  
Auxin Transporter

Auxin is the only plant hormone that exhibits transport polarity mediated by three families: auxin resistant (AUX) 1/like AUX1 (LAX) influx carriers, pin-formed (PIN) efflux carriers, and ATP-binding cassette B (ABCB) influx/efflux carriers. Extensive studies about the biological functions of auxin transporter genes have been reported in model plants. Information regarding these genes in potato remains scarce. Here, we conducted a comprehensive analysis of auxin transporter gene families in potato to examine genomic distributions, phylogeny, co-expression analysis, gene structure and subcellular localization, and expression profiling using bioinformatics tools and qRT-PCR analysis. From these analyses, 5 StLAXs, 10 StPINs, and 22 StABCBs were identified in the potato genome and distributed in 10 of 18 gene modules correlating to the development of various tissues. Transient expression experiments indicated that three representative auxin transporters showed plasma membrane localizations. The responsiveness to auxin and auxin transport inhibitors implied their possible roles in mediating intercellular auxin homoeostasis and redistribution. The differential expression under abscisic acid and abiotic stresses indicated their specific adaptive mechanisms regulating tolerance to environmental stimuli. A large number of auxin-responsive and stress-related cis-elements within their promoters could account for their responsiveness to diverse stresses. Our study aimed to understand the biological significance of potato auxin transporters in hormone signaling and tolerance to environmental stresses.

scholarly journals Comprehensive Analysis and Expression Profiling of PIN, AUX/LAX, and ABCB Auxin Transporter Gene Families in Solanum tuberosum under Phytohormone Stimuli and Abiotic Stresses

2020 ◽  
Author(s):  
Chenghui Yang ◽  
Dongdong Wang ◽  
Chao Zhang ◽  
Minghui Ye ◽  
Nana Kong ◽  
...  
Keyword(s):  
Expression Analysis ◽  
Abiotic Stresses ◽  
Expression Patterns ◽  
Biological Significance ◽  
Gene Families ◽  
Comprehensive Analysis ◽  
Pcr Analysis ◽  
Transporter Gene ◽  
A Genome ◽  
Auxin Transporter

Abstract Background:Auxin is the only plant hormone that exhibits transport polarity that is mediated by three classes of proteins, AUX/LAX influx carriers, the PIN and ABCB efflux carriers. Extensive studies have been conducted to examine the biological functions of auxin transporter genes using model plants systems and in several plant species. Despite this, information regarding the comprehensive analysis of auxin transporter genes in potato species and information regarding the expression patterns of these genes in response to external stresses remains scarce.Results: Here, we conducted a genome-wide annotation of the StLAX, StPIN, and StABCB auxin transporter gene families to examine genomic distributions, gene structures, phylogenic relationships and co-expression analysis. From these analyses, 5 StLAXs, 10 StPINs, and 22 StABCBs were identified in the potato genome and mapped to 12 chromosomes. Constructing co-expression networks revealed 18 gene modules and potato auxin transporter genes distributed in ten of them correlating to the development of various tissues. Tissue-specific expression analysis indicated that genes from the StLAX family were expressed at significantly higher levels compared to those of the other two gene families, suggesting that the StLAXs may be more important for these designated developmental stages in potato. Quantitative real-time PCR analysis indicated responsiveness of StLAXs, StPINs, and StABCBs to auxin and PATIs, implying their possible roles in mediating intercellular auxin homoeostasis and redistribution. Additionally, the differential expression levels of the StLAX, StPIN, and StABCB genes under ABA and abiotic stresses were indicative of their specific adaptive mechanisms regulating tolerance to various environmental stimuli. Promoter cis-regulatory element analyses were used to explore a large number of auxin-responsive and stress-related cis-elements within the promoters of the StLAX, StPIN, and StABCB genes that could account for their responsiveness to diverse stresses.Conclusions: In summary, we have provided comprehensive information on StLAX, StPIN, and StABCB auxin transporter gene families in potato. We are confident that our results provide a foundation for a better understanding of auxin transport in potato, as we have demonstrated the biological significance of these family genes in hormone signalling and adaption to environmental stresses.

scholarly journals Characterization of auxin transporter AUX, PIN and PILS gene families in pineapple and evaluation of expression profiles during reproductive development and under abiotic stresses

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e11410
Author(s):  
Heming Zhao ◽  
Yan Maokai ◽  
Han Cheng ◽  
Mingliang Guo ◽  
Yanhui Liu ◽  
...  
Keyword(s):  
Abiotic Stresses ◽  
Expression Profiles ◽  
Lateral Roots ◽  
Expression Patterns ◽  
Gene Families ◽  
Transporter Gene ◽  
Specific Expression ◽  
Protein Motifs ◽  
A Genome ◽  
Auxin Transporter

Polar auxin transport in plant is mediated by influx and efflux transporters, which are encoded by AUX/LAX, PIN and PILS genes, respectively. The auxin transporter gene families have been characterized in several species from monocots and eudicots. However, a genome-wide overview of auxin transporter gene families in pineapple is not yet available. In this study, we identified a total of threeAcAUX genes, 12 AcPIN genes, and seven AcPILS genes in the pineapple genome, which were variably located on 15 chromosomes. The exon-intron structure of these genes and properties of deduced proteins were relatively conserved within the same family. Most protein motifs were widespread in the AUX, PIN or PILS proteins, whereas a few motifs were absent in only one or two proteins. Analysis of the expression profiles of these genes elucidated that several genes exhibited either preferential or tissue-specific expression patterns in vegetative and/or reproductive tissues. AcAUX2 was specifically expressed in the early developmental ovules, while AcPIN1b and AcPILS2 were strongly expressed in stamens and ovules. AcPIN9b, AcPILS1, AcPILS6a, 6b and 6c were abundantly expressed in stamens. Furthermore, qRT-PCR results showed that several genes in these families were responsive to various abiotic stresses. Comparative analysis indicated that the genes with close evolutionary relationships among pineapple, rice and Arabidopsis exhibited similar expression patterns. Overexpression of the AcAUX1 in Arabidopsis rescued the phenotype in aux1-T, and resulted in increased lateral roots in WT. These results will provide new insights into auxin transporter genes of pineapple and facilitate our understanding of their roles in pineapple growth and development.

Genome-wide identification of polar auxin transporter gene families reveals a possible new polar auxin flow in inverted cuttings of Populus yunnanensis

Gene ◽  
2020 ◽  
pp. 145349
Author(s):  
An-Pei Zhou ◽  
Yuan-Yuan Zhong ◽  
Si-Qi Li ◽  
Xuan Fei ◽  
Pei-Hua Gan ◽  
...  
Keyword(s):  
Gene Families ◽  
Transporter Gene ◽  
Genome Wide ◽  
Auxin Transporter

scholarly journals Genome-wide analysis and expression profiling of the PIN auxin transporter gene family in soybean (Glycine max)

BMC Genomics ◽  
2015 ◽  
Vol 16 (1) ◽  
Author(s):  
Yongqin Wang ◽  
Chenglin Chai ◽  
Babu Valliyodan ◽  
Christine Maupin ◽  
Brad Annen ◽  
...  
Keyword(s):  
Glycine Max ◽  
Gene Family ◽  
Expression Profiling ◽  
Transporter Gene ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Auxin Transporter

scholarly journals Expression profile of PIN, AUX/LAX and PGP auxin transporter gene families in Sorghum bicolor under phytohormone and abiotic stress

FEBS Journal ◽  
2010 ◽  
Vol 277 (14) ◽  
pp. 2954-2969 ◽  
Author(s):  
ChenJia Shen ◽  
YouHuang Bai ◽  
SuiKang Wang ◽  
SaiNa Zhang ◽  
YunRong Wu ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Sorghum Bicolor ◽  
Expression Profile ◽  
Gene Families ◽  
Transporter Gene ◽  
Auxin Transporter

scholarly journals Comprehensive genomic analysis of the DUF4228 gene family in land plants and expression profiling of ATDUF4228 under abiotic stresses

BMC Genomics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Qi Yang ◽  
Xiaocui Niu ◽  
Xiaona Tian ◽  
Xiujuan Zhang ◽  
Jingyu Cong ◽  
...  
Keyword(s):  
Gene Family ◽  
Expression Profiling ◽  
Abiotic Stresses ◽  
Genomic Analysis ◽  
Gene Families ◽  
Land Plant ◽  
Biological Functions ◽  
Phylogenetic Groups ◽  
Functional Conservation ◽  
Group I

Abstract Background Domain of unknown function (DUF) proteins represent a number of gene families that encode functionally uncharacterized proteins in eukaryotes. The DUF4228 gene family is one of these families in plants that has not been described previously. Results In this study, we performed an extensive comparative analysis of DUF4228 proteins and determined their phylogeny in the plant lineage. A total of 489 high-confidence DUF4228 family members were identified from 14 land plant species, which sub-divided into three distinct phylogenetic groups: group I, group II and group III. A highly conserved DUF4228 domain and motif distribution existed in each group, implying their functional conservation. To reveal the possible biological functions of these DUF4228 genes, 25 ATDUF4228 sequences from Arabidopsis thaliana were selected for further analysis of characteristics such as their chromosomal position, gene duplications and gene structures. Ka/Ks analysis identified seven segmental duplication events, while no tandemly duplication gene pairs were found in A. thaliana. Some cis-elements responding to abiotic stress and phytohormones were identified in the upstream sequences of the ATDUF4228 genes. Expression profiling of the ATDUF4228 genes under abiotic stresses (mainly osmotic, salt and cold) and protein-protein interaction prediction suggested that some ATDUF4228 genes are may be involved in the pathways of plant resistance to abiotic stresses. Conclusion These results expand our knowledge of the evolution of the DUF4228 gene family in plants and will contribute to the elucidation of the biological functions of DUF4228 genes in the future.

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