An ABA Synthesis Enzyme Allele OsNCED2 Promotes the Aerobic Adaption in Upland Rice

There are two ecotypes, upland rice and irrigate rice, during its evolution in rice. Upland rice exhibits aerobic adaptive phenotype via its stronger root system and more rapid drought responses compared with its counterpart, irrigated rice. We assessed the functional variation and applications of the aerobic adaptive allele OsNCED2T cloned from IRAT104 which is a cultivar of upland rice. OsNCED2-overexpressing transgenic rice and OsNCED2T-NILs exhibited significantly higher ABA contents at the seedling and reproductive stages, which can improve root development (RD) and drought tolerance (DT) to promote aerobic adaptation in upland rice. RNA-Seq-based expression profiling of transgenic versus wild-type rice identified OsNCED2-mediated pathways that regulate RD and DT. Meanwhile, OsNCED2-overexpressing rice exhibited significantly increased reactive oxygen species (ROS)-scavenging abilities and transcription levels of many stress- and development-related genes, which regulate RD and DT. A SNP mutation (C to T) from irrigated rice to upland rice, caused the functional variation of OsNCED2, and the enhanced RD and DT mediated by this site under aerobic conditions could promote higher yield of upland rice. These results show that OsNCED2T, through ABA synthesis, positively modulates RD and DT which confers aerobic adaptation in upland rice and might serve as a novel gene for breeding aerobic adaptive or water-saving rice.

[1]  Xiaohong Zhu,et al.  Trehalose‐6‐phosphate phosphatase E modulates ABA‐controlled root growth and stomatal movement in Arabidopsis , 2020, Journal of integrative plant biology.

[2]  J. Wen,et al.  The root-specific NF-Y family transcription factor, PdNF-YB21, positively regulates root growth and drought resistance by ABA-mediated IAA transport in Populus. , 2020, The New phytologist.

[3]  Y. van de Peer,et al.  The hornwort genome and early land plant evolution , 2020, Nature Plants.

[4]  Yuan Li,et al.  A RAF-SnRK2 kinase cascade mediates early osmotic stress signaling in higher plants , 2020, Nature Communications.

[5]  W. Khan,et al.  Genetic deletion of mast cell serotonin synthesis prevents the development of obesity and insulin resistance , 2020, Nature Communications.

[6]  Jian‐Kang Zhu,et al.  Abscisic acid dynamics, signaling and functions in plants. , 2019, Journal of integrative plant biology.

[7]  Sunil Kumar Sahu,et al.  Genomes of early-diverging streptophyte algae shed light on plant terrestrialization , 2019, Nature Plants.

[8]  Huanming Yang,et al.  Genomes of Subaerial Zygnematophyceae Provide Insights into Land Plant Evolution , 2019, Cell.

[9]  Zhi Luo,et al.  Bi-directional Selection in Upland Rice Leads to Its Adaptive Differentiation from Lowland Rice in Drought Resistance and Productivity. , 2019, Molecular plant.

[10]  K. Chong,et al.  Cold signaling in plants: Insights into mechanisms and regulation. , 2018, Journal of integrative plant biology.

[11]  Jian Wang,et al.  WEGO 2.0: a web tool for analyzing and plotting GO annotations, 2018 update , 2018, Nucleic Acids Res..

[12]  Xuelu Wang,et al.  Abscisic Acid Signaling Inhibits Brassinosteroid Signaling through Dampening the Dephosphorylation of BIN2 by ABI1 and ABI2. , 2017, Molecular plant.

[13]  S. Clouse.  Brassinosteroid/Abscisic Acid Antagonism in Balancing Growth and Stress. , 2016, Developmental cell.

[14]  B. Di Camillo,et al.  FunPat: function-based pattern analysis on RNA-seq time series data , 2015, BMC Genomics.

[15]  A. Scopa,et al.  Ascorbate Peroxidase and Catalase Activities and Their Genetic Regulation in Plants Subjected to Drought and Salinity Stresses , 2015, International journal of molecular sciences.

[16]  S. Chen,et al.  Ethylene Responses in Rice Roots and Coleoptiles Are Differentially Regulated by a Carotenoid Isomerase-Mediated Abscisic Acid Pathway[OPEN] , 2015, Plant Cell.

[17]  Chia-Hung Chien,et al.  EXPath: a database of comparative expression analysis inferring metabolic pathways for plants , 2015, BMC Genomics.

[18]  Weiming He,et al.  A genomic perspective on the important genetic mechanisms of upland adaptation of rice , 2014, BMC Plant Biology.

[19]  Jun Wang,et al.  Analysis of elite variety tag SNPs reveals an important allele in upland rice , 2013, Nature Communications.

[20]  D. Golldack,et al.  Gibberellins and abscisic acid signal crosstalk: living and developing under unfavorable conditions , 2013, Plant Cell Reports.

[21]  Le Cong,et al.  Multiplex Genome Engineering Using CRISPR/Cas Systems , 2013, Science.

[22]  W. Zong,et al.  The SNAC1-targeted gene OsSRO1c modulates stomatal closure and oxidative stress tolerance by regulating hydrogen peroxide in rice , 2012, Journal of experimental botany.

[23]  Cunyu Yan,et al.  Simple, Rapid, and Simultaneous Assay of Multiple Carboxyl Containing Phytohormones in Wounded Tomatoes by UPLC-MS/MS Using Single SPE Purification and Isotope Dilution , 2012, Analytical Sciences.

[24]  Hao Li,et al.  An efficient and high-throughput protocol for Agrobacterium-mediated transformation based on phosphomannose isomerase positive selection in Japonica rice (Oryza sativa L.) , 2012, Plant Cell Reports.

[25]  K. Yeh,et al.  Copper Chaperone Antioxidant Protein1 Is Essential for Copper Homeostasis1[W][OA] , 2012, Plant Physiology.

[26]  J. Kumar,et al.  Biochemical and physiological responses of rice (Oryza sativa L.) as influenced by Trichoderma harzianum under drought stress. , 2012, Plant physiology and biochemistry : PPB.

[27]  S. Cutler,et al.  Structural and functional insights into core ABA signaling. , 2010, Current opinion in plant biology.

[28]  S. Cutler,et al.  Abscisic acid: emergence of a core signaling network. , 2010, Annual review of plant biology.

[29]  J. Kangasjärvi,et al.  Reactive oxygen species in abiotic stress signaling. , 2010, Physiologia plantarum.

[30]  Tiegang Lu,et al.  A putative leucine-rich repeat receptor kinase, OsBRR1, is involved in rice blast resistance , 2009, Planta.

[31]  P. McCourt,et al.  Abscisic Acid Inhibits Type 2C Protein Phosphatases via the PYR/PYL Family of START Proteins , 2009, Science.

[32]  Karen S. Osmont,et al.  The Short-Rooted Phenotype of the brevis radix Mutant Partly Reflects Root Abscisic Acid Hypersensitivity1[C][W][OA] , 2009, Plant Physiology.

[33]  K. Dietz,et al.  The relationship between metal toxicity and cellular redox imbalance. , 2009, Trends in plant science.

[34]  R. Serraj,et al.  Breeding upland rice for drought resistance , 2008 .

[35]  John A. Hamilton,et al.  The TIGR Rice Genome Annotation Resource: improvements and new features , 2006, Nucleic Acids Res..

[36]  C. Hawes,et al.  Rapid, transient expression of fluorescent fusion proteins in tobacco plants and generation of stably transformed plants , 2006, Nature Protocols.

[37]  Pengcheng Wang,et al.  An Arabidopsis Glutathione Peroxidase Functions as Both a Redox Transducer and a Scavenger in Abscisic Acid and Drought Stress Responses[W] , 2006, The Plant Cell Online.

[38]  J. Knoblich.  Pins for spines , 2005, Nature Cell Biology.

[39]  Gerrit T. S. Beemster,et al.  Root gravitropism requires lateral root cap and epidermal cells for transport and response to a mobile auxin signal , 2005, Nature Cell Biology.

[40]  J. Malamy,et al.  Osmotic regulation of root system architecture. , 2005, The Plant journal : for cell and molecular biology.

[41]  Viswanathan Chinnusamy,et al.  Molecular genetic perspectives on cross-talk and specificity in abiotic stress signalling in plants. , 2003, Journal of experimental botany.

[42]  Ricardo Z. N. Vêncio,et al.  Using credibility intervals instead of hypothesis tests in SAGE analysis , 2003, Bioinform..

[43]  U. Grossniklaus,et al.  A Gateway Cloning Vector Set for High-Throughput Functional Analysis of Genes in Planta[w] , 2003, Plant Physiology.

[44]  Chiara Romualdi,et al.  IDEG6: a web tool for detection of differentially expressed genes in multiple tag sampling experiments. , 2003, Physiological genomics.

[45]  Thomas D. Schmittgen,et al.  Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. , 2001, Methods.

[46]  J. Zeevaart,et al.  The 9-cis-epoxycarotenoid cleavage reaction is the key regulatory step of abscisic acid biosynthesis in water-stressed bean. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[47]  R. Arora,et al.  Water-stress-induced heat tolerance in geranium leaf tissues a possible linkage through stress proteins? , 1998 .

[48]  D. McCarty,et al.  Specific oxidative cleavage of carotenoids by VP14 of maize. , 1997, Science.

[49]  K. Shinozaki,et al.  Environmental stress response in plants: the role of mitogen-activated protein kinases. , 1997, Trends in biotechnology.

[50]  H. Hirt,et al.  Stress signaling in plants: a mitogen-activated protein kinase pathway is activated by cold and drought. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[51]  S. Fukai,et al.  Development of drought-resistant cultivars using physiomorphological traits in rice , 1995 .

[52]  A. Holaday,et al.  Increased resistance to oxidative stress in transgenic plants that overexpress chloroplastic Cu/Zn superoxide dismutase. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[53]  A. Pomfret.  An Overview of Upland Rice Research. Proceedings of the 1982 Bouaké, Ivory Coast, Upland Rice Workshop . IRRI, PO Box 933, Manila, Philippines (1984), pp. 566, $17.50 plus postage ($11.50 airmail, $1.00 surface) ($7.00 plus postage to developing countries). , 1986, Experimental Agriculture.

[54]  J. Friend,et al.  The role of xanthoxin in the inhibition of pea seedling growth by red light , 1975 .