Home LiteratureArticle Details
PMID: 20499123 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Auxin-related gene families in abiotic stress response in Sorghum bicolor.

Functional & integrative genomics ·Vol. 10 ·No. 4 ·2010-11-00 ·Pages 533-46

Wang S, Bai Y, Shen C, Wu Y, Zhang S, Jiang D, Guilfoyle TJ, Chen M, Qi Y

Abstract

Sorghum, a C4 model plant, has been studied to develop an understanding of the molecular mechanism of resistance to stress. The auxin-response genes, auxin/indole-3-acetic acid (Aux/IAA), auxin-response factor (ARF), Gretchen Hagen3 (GH3), small auxin-up RNAs, and lateral organ boundaries (LBD), are involved in growth/development and stress/defense responses in Arabidopsis and rice, but they have not been studied in sorghum. In the present paper, the chromosome distribution, gene duplication, promoters, intron/exon, and phylogenic relationships of Aux/IAA, ARF, GH3, and LBD genes in sorghum are presented. Furthermore, real-time PCR analysis demonstrated these genes are differently expressed in leaf/root of sorghum and indicated the expression profile of these gene families under IAA, brassinosteroid (BR), salt, and drought treatments. The SbGH3 and SbLBD genes, expressed in low level under natural condition, were highly induced by salt and drought stress consistent with their products being involved in both abiotic stresses. Three genes, SbIAA1, SbGH3-13, and SbLBD32, were highly induced under all the four treatments, IAA, BR, salt, and drought. The analysis provided new evidence for role of auxin in stress response, implied there are cross talk between auxin, BR and abiotic stress signaling pathways.

MeSH Terms
Animals Chromosome Mapping Genes, Plant Indoleacetic Acids Plant Growth Regulators/genetics Plant Proteins/genetics,metabolism Promoter Regions, Genetic Sorghum/genetics,physiology Stress, Physiological/genetics
Chemicals
Indoleacetic Acids Plant Growth Regulators Plant Proteins
Authors & Affiliations
9 authors, click to expand affiliations / ORCID
Wang SuiKang
State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Zijingang Campus, Hangzhou 310058, China.
Bai YouHuang
Shen ChenJia
Wu YunRong
Zhang SaiNa
Jiang DeAn
Guilfoyle Tom J
Chen Ming
Qi YanHua
References (86)
86 references, click to expand
  1. T-Coffee: A novel method for fast and accurate multiple sequence alignment.
    J Mol Biol. 2000 Sep 8;302(1):205-17 PMID: 10964570
  2. Induction and superinduction of auxin-responsive mRNAs with auxin and protein synthesis inhibitors.
    J Biol Chem. 1990 Sep 15;265(26):15845-9 PMID: 2394751
  3. Jalview Version 2--a multiple sequence alignment editor and analysis workbench.
    Bioinformatics. 2009 May 1;25(9):1189-91 PMID: 19151095
  4. Expression of the AtGH3a gene, an Arabidopsis homologue of the soybean GH3 gene, is regulated by phytochrome B.
    Plant Cell Physiol. 2002 Mar;43(3):281-9 PMID: 11917082
  5. Brassinolide induces IAA5, IAA19, and DR5, a synthetic auxin response element in Arabidopsis, implying a cross talk point of brassinosteroid and auxin signaling.
    Plant Physiol. 2003 Dec;133(4):1843-53 PMID: 14605219
  6. Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array.
    Plant Cell Physiol. 2008 Aug;49(8):1135-49 PMID: 18625610
  7. The lateral organ boundaries gene defines a novel, plant-specific gene family.
    Plant Physiol. 2002 Jun;129(2):747-61 PMID: 12068116
  8. A rapid bootstrap algorithm for the RAxML Web servers.
    Syst Biol. 2008 Oct;57(5):758-71 PMID: 18853362
  9. ARF7 and ARF19 regulate lateral root formation via direct activation of LBD/ASL genes in Arabidopsis.
    Plant Cell. 2007 Jan;19(1):118-30 PMID: 17259263
  10. Rice JASMONATE RESISTANT 1 is involved in phytochrome and jasmonate signalling.
    Plant Cell Environ. 2008 Jun;31(6):783-92 PMID: 18266905
  11. Interdependency of brassinosteroid and auxin signaling in Arabidopsis.
    PLoS Biol. 2004 Sep;2(9):E258 PMID: 15328536
  12. Auxin response factors.
    Curr Opin Plant Biol. 2007 Oct;10(5):453-60 PMID: 17900969
  13. Crown rootless1, which is essential for crown root formation in rice, is a target of an AUXIN RESPONSE FACTOR in auxin signaling.
    Plant Cell. 2005 May;17(5):1387-96 PMID: 15829602
  14. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform.
    Nucleic Acids Res. 2002 Jul 15;30(14):3059-66 PMID: 12136088
  15. The GH3 family in plants: genome wide analysis in rice and evolutionary history based on EST analysis.
    Gene. 2006 Apr 26;371(2):279-90 PMID: 16488558
  16. Mechanism of auxin-regulated gene expression in plants.
    Annu Rev Genet. 2009;43:265-85 PMID: 19686081
  17. MASSUGU2 encodes Aux/IAA19, an auxin-regulated protein that functions together with the transcriptional activator NPH4/ARF7 to regulate differential growth responses of hypocotyl and formation of lateral roots in Arabidopsis thaliana.
    Plant Cell. 2004 Feb;16(2):379-93 PMID: 14729917
  18. ARL1, a LOB-domain protein required for adventitious root formation in rice.
    Plant J. 2005 Jul;43(1):47-56 PMID: 15960615
  19. Brassinosteroid signals control expression of the AXR3/IAA17 gene in the cross-talk point with auxin in root development.
    Biosci Biotechnol Biochem. 2006 Apr;70(4):768-73 PMID: 16636440
  20. The Sorghum bicolor genome and the diversification of grasses.
    Nature. 2009 Jan 29;457(7229):551-6 PMID: 19189423
  21. Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana: unique and overlapping functions of ARF7 and ARF19.
    Plant Cell. 2005 Feb;17(2):444-63 PMID: 15659631
  22. Domain II mutations in CRANE/IAA18 suppress lateral root formation and affect shoot development in Arabidopsis thaliana.
    Plant Cell Physiol. 2008 Jul;49(7):1025-38 PMID: 18505759
  23. Soybean GH3 promoter contains multiple auxin-inducible elements.
    Plant Cell. 1994 May;6(5):645-57 PMID: 8038604
  24. Identification and expression analysis of genes in response to high-salinity and drought stresses in Brassica napus.
    Acta Biochim Biophys Sin (Shanghai). 2010 Feb;42(2):154-64 PMID: 20119627
  25. Developmental specificity of auxin response by pairs of ARF and Aux/IAA transcriptional regulators.
    EMBO J. 2005 May 18;24(10):1874-85 PMID: 15889151
  26. The Arabidopsis BODENLOS gene encodes an auxin response protein inhibiting MONOPTEROS-mediated embryo patterning.
    Genes Dev. 2002 Jul 1;16(13):1610-5 PMID: 12101120
  27. The neighbor-joining method: a new method for reconstructing phylogenetic trees.
    Mol Biol Evol. 1987 Jul;4(4):406-25 PMID: 3447015
  28. Protein-protein interactions among the Aux/IAA proteins.
    Proc Natl Acad Sci U S A. 1997 Oct 28;94(22):11786-91 PMID: 9342315
  29. Java Treeview--extensible visualization of microarray data.
    Bioinformatics. 2004 Nov 22;20(17):3246-8 PMID: 15180930
  30. [GSDS: a gene structure display server].
    Yi Chuan. 2007 Aug;29(8):1023-6 PMID: 17681935
  31. SyMAP: A system for discovering and viewing syntenic regions of FPC maps.
    Genome Res. 2006 Sep;16(9):1159-68 PMID: 16951135
  32. ProbCons: Probabilistic consistency-based multiple sequence alignment.
    Genome Res. 2005 Feb;15(2):330-40 PMID: 15687296
  33. Auxin regulates SCF(TIR1)-dependent degradation of AUX/IAA proteins.
    Nature. 2001 Nov 15;414(6861):271-6 PMID: 11713520
  34. The ASYMMETRIC LEAVES2 gene of Arabidopsis thaliana, required for formation of a symmetric flat leaf lamina, encodes a member of a novel family of proteins characterized by cysteine repeats and a leucine zipper.
    Plant Cell Physiol. 2002 May;43(5):467-78 PMID: 12040093
  35. ProtTest: selection of best-fit models of protein evolution.
    Bioinformatics. 2005 May 1;21(9):2104-5 PMID: 15647292
  36. ramosa2 encodes a LATERAL ORGAN BOUNDARY domain protein that determines the fate of stem cells in branch meristems of maize.
    Plant Cell. 2006 Mar;18(3):574-85 PMID: 16399802
  37. Comprehensive transcriptome analysis of auxin responses in Arabidopsis.
    Mol Plant. 2008 Mar;1(2):321-37 PMID: 19825543
  38. DH1, a LOB domain-like protein required for glume formation in rice.
    Plant Mol Biol. 2008 Mar;66(5):491-502 PMID: 18180880
  39. Novel as1 and as2 defects in leaf adaxial-abaxial polarity reveal the requirement for ASYMMETRIC LEAVES1 and 2 and ERECTA functions in specifying leaf adaxial identity.
    Development. 2003 Sep;130(17):4097-107 PMID: 12874130
  40. Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events.
    Nature. 2003 Mar 27;422(6930):433-8 PMID: 12660784
  41. Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses.
    Genome Biol. 2009;10(6):R68 PMID: 19549309
  42. Auxin: a trigger for change in plant development.
    Cell. 2009 Mar 20;136(6):1005-16 PMID: 19303845
  43. Multiple transcription-factor genes are early targets of phytochrome A signaling.
    Proc Natl Acad Sci U S A. 2001 Jul 31;98(16):9437-42 PMID: 11481498
  44. ydk1-D, an auxin-responsive GH3 mutant that is involved in hypocotyl and root elongation.
    Plant J. 2004 Feb;37(4):471-83 PMID: 14756757
  45. Auxin-responsive gene expression: genes, promoters and regulatory factors.
    Plant Mol Biol. 2002 Jun-Jul;49(3-4):373-85 PMID: 12036261
  46. The indeterminate gametophyte1 gene of maize encodes a LOB domain protein required for embryo Sac and leaf development.
    Plant Cell. 2007 Jan;19(1):46-62 PMID: 17209126
  47. Early auxin-induced genes encode short-lived nuclear proteins.
    Proc Natl Acad Sci U S A. 1994 Jan 4;91(1):326-30 PMID: 8278386
  48. Rapid induction of specific mRNAs by auxin in pea epicotyl tissue.
    J Mol Biol. 1985 May 5;183(1):53-68 PMID: 4009721
  49. Auxin homeostasis during lateral root development under drought condition.
    Plant Signal Behav. 2009 Oct;4(10):1002-4 PMID: 19826230
  50. Mechanisms that control knox gene expression in the Arabidopsis shoot.
    Development. 2000 Dec;127(24):5523-32 PMID: 11076771
  51. Sequence and characterization of two auxin-regulated genes from soybean.
    J Biol Chem. 1988 Aug 5;263(22):10658-66 PMID: 2899079
  52. Comparison and evolution analysis of two rice subspecies LATERAL ORGAN BOUNDARIES domain gene family and their evolutionary characterization from Arabidopsis.
    Mol Phylogenet Evol. 2006 Apr;39(1):248-62 PMID: 16290186
  53. Overlapping and non-redundant functions of the Arabidopsis auxin response factors MONOPTEROS and NONPHOTOTROPIC HYPOCOTYL 4.
    Development. 2004 Mar;131(5):1089-100 PMID: 14973283
  54. Cluster analysis and display of genome-wide expression patterns.
    Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):14863-8 PMID: 9843981
  55. Profile hidden Markov models.
    Bioinformatics. 1998;14(9):755-63 PMID: 9918945
  56. Role of auxin-responsive genes in biotic stress responses.
    Plant Signal Behav. 2009 Sep;4(9):846-8 PMID: 19847104
  57. Rapid redistribution of auxin-regulated RNAs during gravitropism.
    Science. 1989 Jan 6;243:91-3 PMID: 11540631
  58. Members of the LBD family of transcription factors repress anthocyanin synthesis and affect additional nitrogen responses in Arabidopsis.
    Plant Cell. 2009 Nov;21(11):3567-84 PMID: 19933203
  59. Characterization of an Arabidopsis enzyme family that conjugates amino acids to indole-3-acetic acid.
    Plant Cell. 2005 Feb;17(2):616-27 PMID: 15659623
  60. ASYMMETRIC LEAVES2-LIKE1 gene, a member of the AS2/LOB family, controls proximal-distal patterning in Arabidopsis petals.
    Plant Mol Biol. 2005 Mar;57(4):559-75 PMID: 15821980
  61. The tobacco bZIP transcription factor BZI-1 binds the GH3 promoter in vivo and modulates auxin-induced transcription.
    Plant J. 2004 Apr;38(2):298-309 PMID: 15078332
  62. Auxin response in Arabidopsis under cold stress: underlying molecular mechanisms.
    Plant Cell. 2009 Dec;21(12):3823-38 PMID: 20040541
  63. Tissue-specific expression of stabilized SOLITARY-ROOT/IAA14 alters lateral root development in Arabidopsis.
    Plant J. 2005 Nov;44(3):382-95 PMID: 16236149
  64. GH3-mediated auxin homeostasis links growth regulation with stress adaptation response in Arabidopsis.
    J Biol Chem. 2007 Mar 30;282(13):10036-10046 PMID: 17276977
  65. Arabidopsis GH3-LIKE DEFENSE GENE 1 is required for accumulation of salicylic acid, activation of defense responses and resistance to Pseudomonas syringae.
    Plant J. 2007 Jul;51(2):234-46 PMID: 17521413
  66. Auxin in action: signalling, transport and the control of plant growth and development.
    Nat Rev Mol Cell Biol. 2006 Nov;7(11):847-59 PMID: 16990790
  67. The ASYMMETRIC LEAVES2 gene of Arabidopsis thaliana regulates formation of a symmetric lamina, establishment of venation and repression of meristem-related homeobox genes in leaves.
    Development. 2001 May;128(10):1771-83 PMID: 11311158
  68. A GH3-like gene, CcGH3, isolated from Capsicum chinense L. fruit is regulated by auxin and ethylene.
    Plant Mol Biol. 2005 Jul;58(4):447-64 PMID: 16021332
  69. TOPLESS mediates auxin-dependent transcriptional repression during Arabidopsis embryogenesis.
    Science. 2008 Mar 7;319(5868):1384-6 PMID: 18258861
  70. Early genes and auxin action.
    Plant Physiol. 1996 May;111(1):9-17 PMID: 8685277
  71. ASYMMETRIC LEAVES2-LIKE19/LATERAL ORGAN BOUNDARIES DOMAIN30 and ASL20/LBD18 regulate tracheary element differentiation in Arabidopsis.
    Plant Cell. 2008 Dec;20(12):3359-73 PMID: 19088331
  72. Disruption and overexpression of auxin response factor 8 gene of Arabidopsis affect hypocotyl elongation and root growth habit, indicating its possible involvement in auxin homeostasis in light condition.
    Plant J. 2004 Nov;40(3):333-43 PMID: 15469491
  73. ARF1, a transcription factor that binds to auxin response elements.
    Science. 1997 Jun 20;276(5320):1865-8 PMID: 9188533
  74. OsIAA1, an Aux/IAA cDNA from rice, and changes in its expression as influenced by auxin and light.
    DNA Res. 2001 Oct 31;8(5):193-203 PMID: 11759839
  75. Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics.
    Proc Natl Acad Sci U S A. 2004 Jun 29;101(26):9903-8 PMID: 15161969
  76. LATERAL ORGAN BOUNDARIES defines a new family of DNA-binding transcription factors and can interact with specific bHLH proteins.
    Nucleic Acids Res. 2007;35(19):6663-71 PMID: 17913740
  77. LBD18/ASL20 regulates lateral root formation in combination with LBD16/ASL18 downstream of ARF7 and ARF19 in Arabidopsis.
    Plant Physiol. 2009 Nov;151(3):1377-89 PMID: 19717544
  78. The maize (Zea mays L.) RTCS gene encodes a LOB domain protein that is a key regulator of embryonic seminal and post-embryonic shoot-borne root initiation.
    Plant J. 2007 May;50(4):649-59 PMID: 17425722
  79. MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences.
    Brief Bioinform. 2008 Jul;9(4):299-306 PMID: 18417537
  80. The ARF family of transcription factors and their role in plant hormone-responsive transcription.
    Cell Mol Life Sci. 1998 Jul;54(7):619-27 PMID: 9711229
  81. MUSCLE: multiple sequence alignment with high accuracy and high throughput.
    Nucleic Acids Res. 2004 Mar 19;32(5):1792-7 PMID: 15034147
  82. A plant miRNA contributes to antibacterial resistance by repressing auxin signaling.
    Science. 2006 Apr 21;312(5772):436-9 PMID: 16627744
  83. Transcript profiling reveals diverse roles of auxin-responsive genes during reproductive development and abiotic stress in rice.
    FEBS J. 2009 Jun;276(11):3148-62 PMID: 19490115
  84. Arabidopsis thaliana GH3.9 influences primary root growth.
    Planta. 2007 Jun;226(1):21-34 PMID: 17216483
  85. Identification of genes up-regulated in response to Cd exposure in Brassica juncea L.
    Gene. 2005 Dec 19;363:151-8 PMID: 16226851
  86. Dual regulation role of GH3.5 in salicylic acid and auxin signaling during Arabidopsis-Pseudomonas syringae interaction.
    Plant Physiol. 2007 Oct;145(2):450-64 PMID: 17704230
Article Info
Journal
Functional & integrative genomics
Abbr.
Funct Integr Genomics
ISSN
1438-7948
DOI
10.1007/s10142-010-0174-3
Published
2010-11-00
Epub
2010-00-25
Pages
533-46
Language
English
Region
Germany
NLM ID
100939343
Subset
IM
External Links
PubMed source DOI: 10.1007/s10142-010-0174-3 View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2