Transcriptome and metabolome analyses reveal molecular insights into waterlogging tolerance in Barley.

Publisher: BioMed Central Country of Publication: England NLM ID: 100967807 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2229 (Electronic) Linking ISSN: 14712229 NLM ISO Abbreviation: BMC Plant Biol Subsets: MEDLINE

Original Publication: London : BioMed Central, [2001-

Hordeum*/genetics ; Hordeum*/physiology ; Hordeum*/metabolism ; Transcriptome* ; Metabolome* ; Stress, Physiological*/genetics ; Gene Expression Profiling*; Water/metabolism ; Plant Leaves/genetics ; Plant Leaves/physiology ; Plant Leaves/metabolism ; Plant Roots/genetics ; Plant Roots/physiology ; Plant Roots/metabolism ; Gene Expression Regulation, Plant

Waterlogging stress is one of the major abiotic stresses affecting the productivity and quality of many crops worldwide. However, the mechanisms of waterlogging tolerance are still elusive in barley. In this study, we identify key differentially expressed genes (DEGs) and differential metabolites (DM) that mediate distinct waterlogging tolerance strategies in leaf and root of two barley varieties with contrasting waterlogging tolerance under different waterlogging treatments. Transcriptome profiling revealed that the response of roots was more distinct than that of leaves in both varieties, in which the number of downregulated genes in roots was 7.41-fold higher than that in leaves of waterlogging sensitive variety after 72 h of waterlogging stress. We also found the number of waterlogging stress-induced upregulated DEGs in the waterlogging tolerant variety was higher than that of the waterlogging sensitive variety in both leaves and roots in 1 h and 72 h treatment. This suggested the waterlogging tolerant variety may respond more quickly to waterlogging stress. Meanwhile, phenylpropanoid biosynthesis pathway was identified to play critical roles in waterlogging tolerant variety by improving cell wall biogenesis and peroxidase activity through DEGs such as Peroxidase (PERs) and Cinnamoyl-CoA reductases (CCRs) to improve resistance to waterlogging. Based on metabolomic and transcriptomic analysis, we found the waterlogging tolerant variety can better alleviate the energy deficiency via higher sugar content, reduced lactate accumulation, and improved ethanol fermentation activity compared to the waterlogging sensitive variety. In summary, our results provide waterlogging tolerance strategies in barley to guide the development of elite genetic resources towards waterlogging-tolerant crop varieties.
(© 2024. The Author(s).)

Annu Rev Plant Biol. 2008;59:313-39. (PMID: 18444902)
Int J Mol Sci. 2019 Feb 06;20(3):. (PMID: 30736310)
New Phytol. 2021 Jan;229(1):64-70. (PMID: 31856295)
Planta. 1974 Dec;118(4):297-310. (PMID: 24442374)
Nat Protoc. 2007;2(4):778-91. (PMID: 17446877)
Adv Sci (Weinh). 2021 Oct;8(20):e2101374. (PMID: 34390227)
Theor Appl Genet. 2016 Jun;129(6):1167-77. (PMID: 26908252)
Plant J. 2023 Nov;116(4):1118-1135. (PMID: 37248640)
Funct Plant Biol. 2008 Apr;35(2):131-140. (PMID: 32688764)
Nat Commun. 2023 Feb 10;14(1):765. (PMID: 36765112)
J Exp Bot. 2018 Jul 18;69(16):4065-4082. (PMID: 29788353)
J Exp Bot. 2022 Sep 3;73(15):5149-5169. (PMID: 35642593)
New Phytol. 2015 Apr;206(1):57-73. (PMID: 25580769)
Plant Cell Environ. 2014 Oct;37(10):2325-38. (PMID: 25132404)
Nat Metab. 2020 Jul;2(7):566-571. (PMID: 32694798)
Nat Protoc. 2010 Jun;5(6):1005-18. (PMID: 20448546)
Plant Cell Physiol. 2008 Jan;49(1):92-102. (PMID: 18077464)
Plant Physiol. 2007 May;144(1):218-31. (PMID: 17369434)
Front Plant Sci. 2013 Aug 14;4:313. (PMID: 23967003)
Immunol Rev. 2004 Apr;198:267-84. (PMID: 15199968)
Nucleic Acids Res. 2023 Jan 6;51(D1):D587-D592. (PMID: 36300620)
Plant Physiol. 2018 Feb;176(2):1118-1130. (PMID: 29118247)
Front Plant Sci. 2021 Feb 10;11:627331. (PMID: 33643336)
Mol Plant. 2020 Aug 3;13(8):1194-1202. (PMID: 32585190)
Plant J. 2020 Jan;101(1):156-170. (PMID: 31498930)
Proc Natl Acad Sci U S A. 2014 Sep 16;111(37):13403-8. (PMID: 25197090)
J Exp Bot. 2006;57(12):3079-89. (PMID: 16899523)
Analyst. 2006 Oct;131(10):1075-8. (PMID: 17003852)
Mol Plant. 2015 Jan;8(1):17-27. (PMID: 25578269)
J Exp Bot. 2018 Jan 23;69(3):667-680. (PMID: 29301054)
Plant Physiol. 2016 Feb;170(2):603-17. (PMID: 26697895)
BMC Plant Biol. 2023 Jan 30;23(1):62. (PMID: 36710329)
Planta. 2006 Dec;225(1):139-52. (PMID: 16802177)
New Phytol. 2023 Jan;237(2):497-514. (PMID: 36266957)
New Phytol. 2021 Jan;229(1):42-49. (PMID: 32045027)
Plant Cell Environ. 2014 Oct;37(10):2366-80. (PMID: 24450922)
Plant Sci. 2023 Apr;329:111607. (PMID: 36709004)
Plant Physiol. 2003 Jul;132(3):1292-302. (PMID: 12857811)
BMC Genet. 2020 Aug 28;21(1):93. (PMID: 32859149)
Protein Sci. 2019 Nov;28(11):1947-1951. (PMID: 31441146)
Plant Cell Environ. 2006 Jun;29(6):1107-21. (PMID: 17080937)
Mol Plant. 2010 Jan;3(1):2-20. (PMID: 20035037)
Plant J. 2008 Dec;56(5):743-55. (PMID: 18665916)
J Integr Plant Biol. 2021 Jan;63(1):180-209. (PMID: 33325112)
Int J Mol Sci. 2020 Feb 24;21(4):. (PMID: 32102473)
Proc Natl Acad Sci U S A. 2009 Nov 3;106(44):18843-8. (PMID: 19843695)
Proc Natl Acad Sci U S A. 2018 May 15;115(20):5223-5228. (PMID: 29712833)
Proc Natl Acad Sci U S A. 2012 Oct 16;109(42):16969-73. (PMID: 23033493)
Nucleic Acids Res. 2000 Jan 1;28(1):27-30. (PMID: 10592173)
Trends Plant Sci. 2012 Mar;17(3):129-38. (PMID: 22280796)
Breed Sci. 2021 Feb;71(1):51-61. (PMID: 33762876)
Funct Plant Biol. 2003 Mar;30(3):353. (PMID: 32689018)
Plant Cell Environ. 2014 Oct;37(10):2211-5. (PMID: 25074340)
Plant Physiol. 2007 Sep;145(1):266-76. (PMID: 17660351)
Front Plant Sci. 2023 May 09;14:1178065. (PMID: 37229117)
J Exp Bot. 2022 Jan 27;73(3):636-645. (PMID: 34718542)

Keywords: Hordeum vulgare L.; Ethanol fermentation; Hypoxia; Metabolites; Multi-omics; Phenylpropanoid biosynthesis; Waterlogging stress

059QF0KO0R (Water)

Date Created: 20240509 Date Completed: 20240509 Latest Revision: 20240512

20240512

PMC11080113

10.1186/s12870-024-05091-8

38724918