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 In Silico Genome-Wide Analysis of the ATP-Binding Cassette Transporter Gene Family in Soybean (Glycine max L.) and Their Expression Profiling

2019 ◽  
Vol 2019 ◽  
pp. 1-14 ◽  
Author(s):  
Awdhesh Kumar Mishra ◽  
Jinhee Choi ◽  
Muhammad Fazle Rabbee ◽  
Kwang-Hyun Baek
Keyword(s):  
Gene Family ◽  
Abc Transporter ◽  
Abc Transporters ◽  
In Silico ◽  
Gene Families ◽  
Protein Domain ◽  
Atp Binding ◽  
Transporter Gene ◽  
Genome Wide ◽  
Atp Binding Cassette

ATP-binding cassette (ABC) transporters constitute one of the largest gene families in all living organisms, most of which mediate transport across biological membranes by hydrolyzing ATP. However, detailed studies of ABC transporter genes in the important oil crop, soybean, are still lacking. In the present study, we carried out genome-wide identification and phylogenetic and transcriptional analyses of the ABC gene family in G. max. A total of 261 G. max ABC (GmABCs) genes were identified and unevenly localized onto 20 chromosomes. Referring to protein-domain orientation and phylogeny, the GmABC family could be classified into eight (ABCA-ABCG and ABCI) subfamilies and ABCG were the most abundantly present. Further, investigation of whole genome duplication (WGD) signifies the role of segmental duplication in the expansion of the ABC transporter gene family in soybean. The Ka/Ks ratio indicates that several duplicated genes are governed by intense purifying selection during evolution. In addition, in silico expression analysis based on RNA-sequence using publicly available database revealed that ABC transporters are differentially expressed in tissues and developmental stages and in dehydration. Overall, we provide an extensive overview of the GmABC transporter gene family and it promises the primary basis for the study in development and response to dehydration tolerance.

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 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.

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 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.

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