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1.
iScience ; 26(5): 106684, 2023 May 19.
Article in English | MEDLINE | ID: mdl-37182100

ABSTRACT

Creatine kinase (CK) is an essential metabolic enzyme mediating creatine/phosphocreatine interconversion and shuttle to replenish ATP for energy needs. Ablation of CK causes a deficiency in energy supply that eventually results in reduced muscle burst activity and neurological disorders in mice. Besides the well-established role of CK in energy-buffering, the mechanism underlying the non-metabolic function of CK is poorly understood. Here we demonstrate that creatine kinase brain-type (CKB) may function as a protein kinase to regulate BCAR1 Y327 phosphorylation that enhances the association between BCAR1 and RBBP4. Then the complex of BCAR1 and RPPB4 binds to the promoter region of DNA damage repair gene RAD51 and activates its transcription by modulating histone H4K16 acetylation to ultimately promote DNA damage repair. These findings reveal the possible role of CKB independently of its metabolic function and depict the potential pathway of CKB-BCAR1-RBBP4 operating in DNA damage repair.

2.
Cell Rep ; 42(4): 112309, 2023 04 25.
Article in English | MEDLINE | ID: mdl-36966392

ABSTRACT

Cyclic GMP-AMP synthase (cGAS), as the major DNA sensor, initiates DNA-stimulated innate immune responses and is essential for a healthy immune system. Although some regulators of cGAS have been reported, it still remains largely unclear how cGAS is precisely and dynamically regulated and how many potential regulators govern cGAS. Here we carry out proximity labeling of cGAS with TurboID in cells and identify a number of potential cGAS-interacting or -adjacent proteins. Deubiquitinase OTUD3, one candidate identified in cytosolic cGAS-DNA complex, is further validated to not only stabilize cGAS but also enhance cGAS enzymatic activity, which eventually promotes anti-DNA virus immune response. We show that OTUD3 can directly bind DNA and is recruited to the cytosolic DNA complex, increasing its association with cGAS. Our findings reveal OTUD3 as a versatile cGAS regulator and find one more layer of regulatory mechanism in DNA-stimulated innate immune responses.


Subject(s)
Immunity, Innate , Nucleotidyltransferases , Nucleotidyltransferases/metabolism , DNA/metabolism , Cytosol/metabolism , Deubiquitinating Enzymes
3.
Cell Chem Biol ; 29(1): 133-144.e20, 2022 01 20.
Article in English | MEDLINE | ID: mdl-34478637

ABSTRACT

2'3'-cyclic GMP-AMP (2'3'-cGAMP), generated by cyclic GMP-AMP synthase (cGAS) under activation by cytosolic DNA, has a vital role in innate immune response via its receptor protein stimulator of interferon genes (STING) to fight viral infections and tumors. In order to have a complete understanding of biological functions of 2'3'-cGAMP, it is important to find out whether 2'3'-cGAMP has other unrevealed binding proteins present in mammalian cells and executes unknown functions. Here we report the 2'3'-cGAMP-based photoaffinity probes that capture and isolate 2'3'-cGAMP-binding proteins. These probes enable the identification of some potential 2'3'-cGAMP-binding proteins from HeLa cells. EF1A1, an essential protein regulating protein synthesis, is further validated to associate with 2'3'-cGAMP in vitro and in cells to impede protein synthesis. Thus, our studies provide a powerful approach to enable identification of the 2'3'-cGAMP interactome, discover unknown functions of 2'3'-cGAMP, and understand its physiological/pathological roles in tumor immunity and immune-related diseases.


Subject(s)
Nucleotides, Cyclic/chemistry , Peptide Elongation Factor 1/analysis , Photoaffinity Labels/chemistry , Cell Line , Humans , Molecular Structure , Nucleotides, Cyclic/immunology , Peptide Elongation Factor 1/immunology
4.
Mol Plant ; 8(9): 1366-84, 2015 Sep.
Article in English | MEDLINE | ID: mdl-25917758

ABSTRACT

During reproductive development, rice plants develop unique flower organs which determine the final grain yield. OsMADS1, one of SEPALLATA-like MADS-box genes, has been unraveled to play critical roles in rice floral organ identity specification and floral meristem determinacy. However, the molecular mechanisms underlying interactions of OsMADS1 with other floral homeotic genes in regulating flower development remains largely elusive. In this work, we studied the genetic interactions of OsMADS1 with B-, C-, and D-class genes along with physical interactions among their proteins. We show that the physical and genetic interactions between OsMADS1 and OsMADS3 are essential for floral meristem activity maintenance and organ identity specification; while OsMADS1 physically and genetically interacts with OsMADS58 in regulating floral meristem determinacy and suppressing spikelet meristem reversion. We provided important genetic evidence to support the neofunctionalization of two rice C-class genes (OsMADS3 and OsMADS58) during flower development. Gene expression profiling and quantitative RT-PCR analyses further revealed that OsMADS1 affects the expression of many genes involved in floral identity and hormone signaling, and chromatin immunoprecipitation (ChIP)-PCR assay further demonstrated that OsMADS17 is a direct target gene of OsMADS1. Taken together, these results reveal that OsMADS1 has diversified regulatory functions in specifying rice floral organ and meristem identity, probably through its genetic and physical interactions with different floral homeotic regulators.


Subject(s)
Epistasis, Genetic , Flowers/growth & development , Flowers/genetics , Genes, Homeobox , MADS Domain Proteins/genetics , Oryza/genetics , Plant Proteins/genetics , Gene Expression Regulation, Developmental , Gene Expression Regulation, Plant , Genes, Plant , MADS Domain Proteins/metabolism , Meristem/genetics , Oligonucleotide Array Sequence Analysis , Oryza/growth & development , Phenotype , Plant Proteins/metabolism
5.
Plant J ; 82(4): 570-81, 2015 May.
Article in English | MEDLINE | ID: mdl-25754973

ABSTRACT

Transport of photoassimilates from leaf tissues (source regions) to the sink organs is essential for plant development. Here, we show that a phytohormone, the brassinosteroids (BRs) promotes pollen and seed development in rice by directly promoting expression of Carbon Starved Anther (CSA) which encodes a MYB domain protein. Over-expression of the BR-synthesis gene D11 or a BR-signaling factor OsBZR1 results in higher sugar accumulation in developing anthers and seeds, as well as higher grain yield compared with control non-transgenic plants. Conversely, knockdown of D11 or OsBZR1 expression causes defective pollen maturation and reduced seed size and weight, with less accumulation of starch in comparison with the control. Mechanically, OsBZR1 directly promotes CSA expression and CSA directly triggers expression of sugar partitioning and metabolic genes during pollen and seed development. These findings provide insight into how BRs enhance plant reproduction and grain yield in an important agricultural crop.


Subject(s)
Brassinosteroids/metabolism , Oryza/growth & development , Oryza/metabolism , Plant Proteins/metabolism , Pollen/growth & development , Pollen/metabolism , Seeds/growth & development , Seeds/metabolism , Gene Expression Regulation, Plant/genetics , Gene Expression Regulation, Plant/physiology , Oryza/genetics , Plant Proteins/genetics , Plants, Genetically Modified/genetics , Plants, Genetically Modified/growth & development , Plants, Genetically Modified/metabolism , Pollen/genetics , Seeds/genetics
6.
J Integr Plant Biol ; 56(10): 979-94, 2014 Oct.
Article in English | MEDLINE | ID: mdl-24798002

ABSTRACT

Anther cuticle and pollen exine act as protective envelopes for the male gametophyte or pollen grain, but the mechanism underlying the synthesis of these lipidic polymers remains unclear. Previously, a tapetum-expressed CYP703A3, a putative cytochrome P450 fatty acid hydroxylase, was shown to be essential for male fertility in rice (Oryza sativa L.). However, the biochemical and biological roles of CYP703A3 has not been characterized. Here, we observed that cyp703a3-2 caused by one base insertion in CYP703A3 displays defective pollen exine and anther epicuticular layer, which differs from Arabidopsis cyp703a2 in which only defective pollen exine occurs. Consistently, chemical composition assay showed that levels of cutin monomers and wax components were dramatically reduced in cyp703a3-2 anthers. Unlike the wide range of substrates of Arabidopsis CYP703A2, CYP703A3 functions as an in-chain hydroxylase only for a specific substrate, lauric acid, preferably generating 7-hydroxylated lauric acid. Moreover, chromatin immunoprecipitation and expression analyses revealed that the expression of CYP703A3 is directly regulated by Tapetum Degeneration Retardation, a known regulator of tapetum PCD and pollen exine formation. Collectively, our results suggest that CYP703A3 represents a conserved and diversified biochemical pathway for in-chain hydroxylation of lauric acid required for the development of male organ in higher plants.


Subject(s)
Cytochrome P-450 Enzyme System/metabolism , Flowers/growth & development , Oryza/enzymology , Plant Proteins/metabolism , Amino Acid Sequence , Base Sequence , Lauric Acids/metabolism , Membrane Lipids/metabolism , Molecular Sequence Data , Oryza/genetics , Oryza/growth & development , Phenotype , Waxes/metabolism
7.
Nat Commun ; 5: 3476, 2014 Mar 19.
Article in English | MEDLINE | ID: mdl-24647160

ABSTRACT

The spikelet is the basal unit of inflorescence in grasses, and its formation is crucial for reproductive success and cereal yield. Here, we report a previously unknown role of the plant hormone jasmonic acid (JA) in determining rice (Oryza sativa) spikelet morphogenesis. The extra glume 1 (eg1) and eg2 mutants exhibit altered spikelet morphology with changed floral organ identity and number, as well as defective floral meristem determinacy. We show that EG1 is a plastid-targeted lipase that participates in JA biosynthesis, and EG2/OsJAZ1 is a JA signalling repressor that interacts with a putative JA receptor, OsCOI1b, to trigger OsJAZ1's degradation during spikelet development. OsJAZ1 also interacts with OsMYC2, a transcription factor in the JA signalling pathway, and represses OsMYC2's role in activating OsMADS1, an E-class gene crucial to the spikelet development. This work discovers a key regulatory mechanism of grass spikelet development and suggests that the role of JA in reproduction has diversified during the flowering plant evolution.


Subject(s)
Cyclopentanes/pharmacology , Inflorescence/drug effects , Oryza/drug effects , Oxylipins/pharmacology , Base Sequence , Cyclopentanes/metabolism , Gene Expression Regulation, Developmental/drug effects , Gene Expression Regulation, Plant/drug effects , Green Fluorescent Proteins/genetics , Green Fluorescent Proteins/metabolism , Immunoblotting , In Situ Hybridization , Inflorescence/genetics , Inflorescence/growth & development , Microscopy, Confocal , Microscopy, Electron, Scanning , Molecular Sequence Data , Mutation , Oryza/genetics , Oryza/growth & development , Oxylipins/metabolism , Plant Development/drug effects , Plant Development/genetics , Plant Growth Regulators/metabolism , Plant Growth Regulators/pharmacology , Plant Proteins/genetics , Plant Proteins/metabolism , Plants, Genetically Modified , Protein Binding , Reverse Transcriptase Polymerase Chain Reaction , Two-Hybrid System Techniques
8.
Mol Plant ; 6(3): 743-56, 2013 May.
Article in English | MEDLINE | ID: mdl-23300256

ABSTRACT

Rice (Oryza sativa) has unique floral patterns that contribute to grain yield. However, the molecular mechanism underlying the specification of floral organ identities in rice, particularly the interaction among floral homeotic genes, remains poorly understood. Here, we show that the floral homeotic gene OsMADS16 (also called SUPERWOMAN1, SPW1, a B-class gene) acts together with the rice C-class genes OsMADS3 and OsMADS58 in specifying floral organ patterning. OsMADS16 and the two C-class genes have an overlapping expression pattern in the third whorl founder cells. Compared with the single mutants, both spw1-1 osmads3-4 and spw1-1 osmads58 double mutants exhibit additional whorls of glume-like organs within the flower, particularly an extra whorl of six glume-like structures formed at the position of the wild-type stamens. These ectopic glume-like structures were shown to have palea identity through cellular observation and in situ hybridization analysis using marker genes. Our results suggest that B- and C-class genes play a key role in suppressing indeterminate growth within the floral meristem, particularly whorl-3 primordia. We also hypothesize that, in contrast to previous assumptions, the specialized spikelet organ in rice, the palea, is the counterpart of the sepal in eudicots, and the lemma is homologous to the bract.


Subject(s)
Body Patterning/genetics , Epistasis, Genetic , Flowers/growth & development , Flowers/genetics , MADS Domain Proteins/genetics , Oryza/growth & development , Oryza/genetics , Flowers/ultrastructure , Gene Expression Regulation, Plant , Genes, Plant , MADS Domain Proteins/metabolism , Mutation/genetics , Oryza/ultrastructure , Phenotype
9.
Plant Cell ; 23(7): 2536-52, 2011 Jul.
Article in English | MEDLINE | ID: mdl-21784949

ABSTRACT

AGAMOUS-LIKE6 (AGL6) genes play essential roles in flower development, but whether and how they work with floral organ identity genes remain less understood. Here, we describe interactions of the rice (Oryza sativa) AGL6 gene MADS6 with other rice floral homeotic genes in flower development. Genetic analyses revealed that MADS6 specifies the identity of the three inner whorls and floral meristem determinacy redundantly with SUPERWOMAN1/MADS16 (B-gene) or MADS3 (C-gene). MADS6 was shown to define carpel/ovule development and floral determinacy by interacting with MADS13 (D-gene) and control the palea and floral meristem identities together with the YABBY gene DROOPING LEAF. Expression analyses revealed that the transcript levels of six B-, C-, and E-class genes were reduced in mads6-1 at the early flower developmental stage, suggesting that MADS6 is a key regulator of early flower development. Moreover, MADS6 can directly bind to a putative regulatory motif on MADS58 (C-gene), and mads6-1 mads58 displayed phenotypes similar to that of mads6-1. These results suggest that MADS6 is a key player in specifying flower development via interacting with other floral homeotic genes in rice, thus providing new insights into the mechanism by which flower development is controlled.


Subject(s)
Flowers , Gene Expression Regulation, Plant , Genes, Homeobox , MADS Domain Proteins/metabolism , Meristem , Oryza/genetics , Oryza/physiology , Plant Proteins/metabolism , Flowers/anatomy & histology , Flowers/physiology , Gene Expression Profiling , Genes, Plant , In Situ Hybridization , MADS Domain Proteins/genetics , Meristem/anatomy & histology , Meristem/physiology , Microarray Analysis , Molecular Sequence Data , Oryza/anatomy & histology , Phenotype , Plant Proteins/genetics
10.
Plant Physiol ; 156(1): 263-74, 2011 May.
Article in English | MEDLINE | ID: mdl-21444646

ABSTRACT

Grass plants develop unique floral patterns that determine grain production. However, the molecular mechanism underlying the specification of floral organ identities and meristem determinacy, including the interaction among floral homeotic genes, remains largely unknown in grasses. Here, we report the interactions of rice (Oryza sativa) floral homeotic genes, OsMADS3 (a C-class gene), OsMADS13 (a D-class gene), and DROOPING LEAF (DL), in specifying floral organ identities and floral meristem determinacy. The interaction among these genes was revealed through the analysis of double mutants. osmads13-3 osmads3-4 displayed a loss of floral meristem determinacy and generated abundant carpelloid structures containing severe defective ovules in the flower center, which were not detectable in the single mutant. In addition, in situ hybridization and yeast two-hybrid analyses revealed that OsMADS13 and OsMADS3 did not regulate each other's transcription or interact at the protein level. This indicates that OsMADS3 plays a synergistic role with OsMADS13 in both ovule development and floral meristem termination. Strikingly, osmads3-4 dl-sup6 displayed a severe loss of floral meristem determinacy and produced supernumerary whorls of lodicule-like organs at the forth whorl, suggesting that OsMADS3 and DL synergistically terminate the floral meristem. Furthermore, the defects of osmads13-3 dl-sup6 flowers appeared identical to those of dl-sup6, and the OsMADS13 expression was undetectable in dl-sup6 flowers. These observations suggest that DL and OsMADS13 may function in the same pathway specifying the identity of carpel/ovule and floral meristem. Collectively, we propose a model to illustrate the role of OsMADS3, DL, and OsMADS13 in the specification of flower organ identity and meristem determinacy in rice.


Subject(s)
Gene Expression Regulation, Plant , Oryza/genetics , Plant Proteins/genetics , Alleles , Flowers/genetics , Flowers/growth & development , Gene Expression Regulation, Developmental , In Situ Hybridization , MADS Domain Proteins/genetics , MADS Domain Proteins/metabolism , Meristem/genetics , Meristem/growth & development , Mutation , Oryza/growth & development , Ovule/genetics , Ovule/growth & development , Phenotype , Plant Leaves/genetics , Plant Leaves/growth & development , Plant Proteins/metabolism , Plants, Genetically Modified , Two-Hybrid System Techniques
11.
Plant Cell ; 23(2): 515-33, 2011 Feb.
Article in English | MEDLINE | ID: mdl-21297036

ABSTRACT

The rice (Oryza sativa) floral homeotic C-class gene, MADS3, was previously shown to be required for stamen identity determination during early flower development. Here, we describe a role for MADS3 in regulating late anther development and pollen formation. Consistent with this role, MADS3 is highly expressed in the tapetum and microspores during late anther development, and a newly identified MADS3 mutant allele, mads3-4, displays defective anther walls, aborted microspores, and complete male sterility. During late anther development, mads3-4 exhibits oxidative stress-related phenotypes. Microarray analysis revealed expression level changes in many genes in mads3-4 anthers. Some of these genes encode proteins involved in reactive oxygen species (ROS) homeostasis; among them is MT-1-4b, which encodes a type 1 small Cys-rich and metal binding protein. In vivo and in vitro assays showed that MADS3 is associated with the promoter of MT-1-4b, and recombinant MT-1-4b has superoxide anion and hydroxyl radical scavenging activity. Reducing the expression of MT-1-4b causes decreased pollen fertility and an increased level of superoxide anion in transgenic plants. Our findings suggest that MADS3 is a key transcriptional regulator that functions in rice male reproductive development, at least in part, by modulating ROS levels through MT-1-4b.


Subject(s)
Flowers/growth & development , MADS Domain Proteins/metabolism , Oryza/genetics , Plant Proteins/metabolism , Reactive Oxygen Species/metabolism , Cloning, Molecular , Gene Expression Profiling , Gene Expression Regulation, Developmental , Gene Expression Regulation, Plant , Genetic Complementation Test , Homeostasis , MADS Domain Proteins/genetics , Mutation , Oligonucleotide Array Sequence Analysis , Oryza/growth & development , Oryza/metabolism , Oxidative Stress , Plant Infertility , Plant Proteins/genetics , Plants, Genetically Modified/genetics , Plants, Genetically Modified/growth & development , Plants, Genetically Modified/metabolism , RNA, Plant/genetics , Superoxides/metabolism
12.
Plant Physiol ; 154(1): 149-62, 2010 Sep.
Article in English | MEDLINE | ID: mdl-20610705

ABSTRACT

Synthesis of lipidic components in anthers, including of the pollen exine, is essential for plant male reproductive development. Plant lipid transfer proteins (LTPs) are small, abundant lipid-binding proteins that have the ability to exchange lipids between membranes in vitro. However, their biological role in male reproductive development remains less understood. Here, we report the crucial role of OsC6 in regulating postmeiotic anther development in rice (Oryza sativa). Found in monocots, OsC6 belongs to a distinct clade from previously identified LTP1 and LTP2 family members found in both dicots and monocots. OsC6 expression is mainly detectable in tapetal cells and weakly in microspores from stage 9 to stage 11 of anther development. Immunological assays indicated that OsC6 is widely distributed in anther tissues such as the tapetal cytoplasm, the extracellular space between the tapetum and middle layer, and the anther locule and anther cuticle. Biochemical assays indicated that recombinant OsC6 has lipid binding activity. Moreover, plants in which OsC6 was silenced had defective development of orbicules (i.e. Ubisch bodies) and pollen exine and had reduced pollen fertility. Furthermore, additional evidence is provided that the expression of OsC6 is positively regulated by a basic helix-loop-helix transcription factor, Tapetum Degeneration Retardation (TDR). Extra granule-like structures were observed on the inner surface of the tdr tapetal layer when the expression of OsC6 was driven by the TDR promoter compared with the tdr mutant. These data suggest that OsC6 plays a crucial role in the development of lipidic orbicules and pollen exine during anther development in rice.


Subject(s)
Antigens, Plant/metabolism , Carrier Proteins/metabolism , Flowers/cytology , Flowers/growth & development , Meiosis , Oryza/cytology , Oryza/growth & development , Plant Proteins/metabolism , Amino Acid Sequence , Antigens, Plant/chemistry , Antigens, Plant/genetics , Base Sequence , Carrier Proteins/chemistry , Carrier Proteins/genetics , Cytoplasmic Granules/metabolism , Extracellular Space/metabolism , Fertility/physiology , Flowers/ultrastructure , Gene Expression Regulation, Plant , Gene Silencing , Lipid Metabolism , Models, Biological , Molecular Sequence Data , Oryza/genetics , Oryza/ultrastructure , Plant Proteins/chemistry , Plant Proteins/genetics , Pollen/cytology , Pollen/ultrastructure , Promoter Regions, Genetic/genetics , Protein Binding , Protein Transport , RNA Interference , Recombinant Proteins/metabolism
13.
Plant Physiol ; 153(2): 728-40, 2010 Jun.
Article in English | MEDLINE | ID: mdl-20395452

ABSTRACT

Grass plants develop distinct inflorescences and spikelets that determine grain yields. However, the mechanisms underlying the specification of inflorescences and spikelets in grasses remain largely unknown. Here, we report the biological role of one SEPALLATA (SEP)-like gene, OsMADS34, in controlling the development of inflorescences and spikelets in rice (Oryza sativa). OsMADS34 encodes a MADS box protein containing a short carboxyl terminus without transcriptional activation activity in yeast cells. We demonstrate the ubiquitous expression of OsMADS34 in roots, leaves, and primordia of inflorescence and spikelet organs. Compared with the wild type, osmads34 mutants developed altered inflorescence morphology, with an increased number of primary branches and a decreased number of secondary branches. In addition, osmads34 mutants displayed a decreased spikelet number and altered spikelet morphology, with lemma/leaf-like elongated sterile lemmas. Moreover, analysis of the double mutant osmads34 osmads1 suggests that OsMADS34 specifies the identities of floral organs, including the lemma/palea, lodicules, stamens, and carpel, in combination with another rice SEP-like gene, OsMADS1. Collectively, our study suggests that the origin and diversification of OsMADS34 and OsMADS1 contribute to the origin of distinct grass inflorescences and spikelets.


Subject(s)
Flowers/growth & development , MADS Domain Proteins/metabolism , Oryza/genetics , Plant Proteins/metabolism , Amino Acid Sequence , Base Sequence , Cloning, Molecular , Gene Expression Regulation, Developmental , Gene Expression Regulation, Plant , Genetic Complementation Test , MADS Domain Proteins/genetics , Molecular Sequence Data , Mutation , Oryza/growth & development , Oryza/metabolism , Plant Proteins/genetics , RNA, Plant/genetics
14.
Cell Res ; 20(3): 299-313, 2010 Mar.
Article in English | MEDLINE | ID: mdl-20038961

ABSTRACT

Although AGAMOUS-LIKE6 (AGL6) MADS-box genes are ancient with wide distributions in gymnosperms and angiosperms, their functions remain poorly understood. Here, we show the biological role of the AGL6-like gene, OsMADS6, in specifying floral organ and meristem identities in rice (Oryza sativa L.). OsMADS6 was strongly expressed in the floral meristem at early stages. Subsequently, OsMADS6 transcripts were mainly detectable in paleas, lodicules, carpels and the integument of ovule, as well as in the receptacle. Compared to wild type plants, osmads6 mutants displayed altered palea identity, extra glume-like or mosaic organs, abnormal carpel development and loss of floral meristem determinacy. Strikingly, mutation of a SEPALLATA (SEP)-like gene, OsMADS1 (LHS1), enhanced the defect of osmads6 flowers, and no inner floral organs or glume-like structures were observed in whorls 2 and 3 of osmads1-z osmads6-1 flowers. Furthermore, the osmads1-z osmads6-1 double mutants developed severely indeterminate floral meristems. Our finding, therefore, suggests that the ancient OsMADS6 gene is able to specify "floral state" by determining floral organ and meristem identities in monocot crop rice together with OsMADS1.


Subject(s)
Flowers/metabolism , MADS Domain Proteins/metabolism , Meristem/metabolism , Oryza/growth & development , Plant Proteins/metabolism , Amino Acid Sequence , Base Sequence , Flowers/growth & development , Genes, Plant , MADS Domain Proteins/classification , MADS Domain Proteins/genetics , Meristem/growth & development , Molecular Sequence Data , Mutation , Oryza/genetics , Oryza/metabolism , Ovule/metabolism , Phenotype , Phylogeny , Plant Proteins/classification , Plant Proteins/genetics
15.
J Agric Food Chem ; 54(26): 9735-40, 2006 Dec 27.
Article in English | MEDLINE | ID: mdl-17177494

ABSTRACT

Polymerase chain reaction (PCR) methods have been the main technical support for the detection of genetically modified organisms (GMOs). To date, GMO-specific PCR detection strategies have been developed basically at four different levels, such as screening-, gene-, construct-, and event-specific detection methods. Event-specific PCR detection method is the primary trend in GMO detection because of its high specificity based on the flanking sequence of exogenous integrant. GM canola, event T45, with tolerance to glufosinate ammonium is one of the commercial genetically modified (GM) canola events approved in China. In this study, the 5'-integration junction sequence between host plant DNA and the integrated gene construct of T45 canola was cloned and revealed by means of TAIL-PCR. Specific PCR primers and TaqMan probes were designed based upon the revealed sequence, and qualitative and quantitative TaqMan real-time PCR detection assays employing these primers and probe were developed. In qualitative PCR, the limit of detection (LOD) was 0.1% for T45 canola in 100 ng of genomic DNA. The quantitative PCR assay showed limits of detection and quantification (LOD and LOQ) of 5 and 50 haploid genome copies, respectively. In addition, three mixed canola samples with known GM contents were detected employing the developed real-time PCR assay, and expected results were obtained. These results indicated that the developed event-specific PCR methods can be used for identification and quantification of T45 canola and its derivates.


Subject(s)
Brassica napus/genetics , Plants, Genetically Modified/genetics , Polymerase Chain Reaction/methods , Base Sequence , DNA, Plant/analysis , DNA, Plant/chemistry , Molecular Sequence Data , Quality Control
16.
Plant Cell ; 18(11): 2999-3014, 2006 Nov.
Article in English | MEDLINE | ID: mdl-17138695

ABSTRACT

In flowering plants, tapetum degeneration is proposed to be triggered by a programmed cell death (PCD) process during late stages of pollen development; the PCD is thought to provide cellular contents supporting pollen wall formation and to allow the subsequent pollen release. However, the molecular basis regulating tapetum PCD in plants remains poorly understood. We report the isolation and characterization of a rice (Oryza sativa) male sterile mutant tapetum degeneration retardation (tdr), which exhibits degeneration retardation of the tapetum and middle layer as well as collapse of microspores. The TDR gene is preferentially expressed in the tapetum and encodes a putative basic helix-loop-helix protein, which is likely localized to the nucleus. More importantly, two genes, Os CP1 and Os c6, encoding a Cys protease and a protease inhibitor, respectively, were shown to be the likely direct targets of TDR through chromatin immunoprecipitation analyses and the electrophoretic mobility shift assay. These results indicate that TDR is a key component of the molecular network regulating rice tapetum development and degeneration.


Subject(s)
Apoptosis , Flowers/cytology , Flowers/growth & development , Genes, Plant/genetics , Oryza/growth & development , Oryza/metabolism , Plant Proteins/metabolism , Amino Acid Sequence , DNA Fragmentation , Flowers/ultrastructure , Gene Expression Regulation, Plant , Molecular Sequence Data , Mutation/genetics , Oryza/cytology , Oryza/genetics , Phenotype , Phylogeny , Plant Proteins/chemistry , Plant Proteins/genetics , Plant Proteins/isolation & purification , Protein Binding , RNA, Messenger/genetics , RNA, Messenger/metabolism , Sequence Analysis, Protein
17.
Plant Physiol ; 142(3): 1039-52, 2006 Nov.
Article in English | MEDLINE | ID: mdl-17012407

ABSTRACT

To understand the molecular mechanism regulating meristem development in the monocot rice (Oryza sativa), we describe here the isolation and characterization of three floral organ number4 (fon4) alleles and the cloning of the FON4 gene. The fon4 mutants showed abnormal enlargement of the embryonic and vegetative shoot apical meristems (SAMs) and the inflorescence and floral meristems. Likely due to enlarged SAMs, fon4 mutants produced thick culms (stems) and increased numbers of both primary rachis branches and floral organs. We identified FON4 using a map-based cloning approach and found it encodes a small putatively secreted protein, which is the putative ortholog of the Arabidopsis (Arabidopsis thaliana) CLAVATA3 (CLV3) gene. FON4 transcripts mainly accumulated in the small group of cells at the apex of the SAMs, whereas the rice ortholog of CLV1 (FON1) is expressed throughout the SAMs, suggesting that the putative FON4 ligand might be sequestered as a possible mechanism for rice meristem regulation. Exogenous application of the peptides FON4p and CLV3p corresponding to the CLV3/ESR-related (CLE) motifs of FON4 and CLV3, respectively, resulted in termination of SAMs in rice, and treatment with CLV3p caused consumption of both rice and Arabidopsis root meristems, suggesting that the CLV pathway in limiting meristem size is conserved in both rice and Arabidopsis. However, exogenous FON4p did not have an obvious effect on limiting both rice and Arabidopsis root meristems, suggesting that the CLE motifs of Arabidopsis CLV3 and FON4 are potentially functionally divergent.


Subject(s)
Arabidopsis Proteins/genetics , Arabidopsis/genetics , Genes, Plant/genetics , Meristem/anatomy & histology , Oryza/growth & development , Oryza/genetics , Amino Acid Sequence , Chromosome Mapping , Chromosomes, Plant , Cloning, Molecular , Flowers/genetics , Flowers/ultrastructure , Gene Expression Regulation, Plant , Meristem/genetics , Meristem/growth & development , Molecular Sequence Data , Mutation , Oryza/anatomy & histology
18.
Cell Res ; 16(5): 507-18, 2006 May.
Article in English | MEDLINE | ID: mdl-16699546

ABSTRACT

To understand the expansion of multicopy microRNA (miRNA) families in plants, we localized the reported miRNA genes from Arabidopsis and rice to their chromosomes, respectively, and observed that 37% of 117 miRNA genes from Arabidopsis and 35% of 173 miRNA genes from rice were segmental duplications in the genome. In order to characterize whether the expression diversification has occurred among plant multicopy miRNA family members, we designed PCR primers targeting 48 predicted miRNA precursors from 10 families in Arabidopsis and rice. Results from RT-PCR data suggest that the transcribed precursors of members within the same miRNA family were present at different expression levels. In addition, although miR160 and miR162 sequences were conserved in Arabidopsis and rice, we found that the expression patterns of these genes differed between the two species. These data suggested that expression diversification has occurred in multicopy miRNA families, increasing our understanding of the expression regulation of miRNAs in plants.


Subject(s)
Arabidopsis/genetics , Gene Duplication , MicroRNAs/genetics , Oryza/genetics , Arabidopsis/metabolism , Base Sequence , Chromosome Mapping , Chromosomes, Plant/genetics , Gene Expression Regulation, Plant , Genes, Plant/genetics , MicroRNAs/chemistry , MicroRNAs/metabolism , Molecular Sequence Data , Nucleic Acid Conformation , Oryza/metabolism , Plant Proteins/genetics , Plant Proteins/metabolism , RNA Processing, Post-Transcriptional , Reverse Transcriptase Polymerase Chain Reaction , Sequence Homology, Nucleic Acid
19.
J Agric Food Chem ; 53(24): 9312-8, 2005 Nov 30.
Article in English | MEDLINE | ID: mdl-16302741

ABSTRACT

Because of the genetically modified organisms (GMOs) labeling policies issued in many countries and areas, polymerase chain reaction (PCR) methods were developed for the execution of GMO labeling policies, such as screening, gene specific, construct specific, and event specific PCR detection methods, which have become a mainstay of GMOs detection. The event specific PCR detection method is the primary trend in GMOs detection because of its high specificity based on the flanking sequence of the exogenous integrant. This genetically modified maize, MON863, contains a Cry3Bb1 coding sequence that produces a protein with enhanced insecticidal activity against the coleopteran pest, corn rootworm. In this study, the 5'-integration junction sequence between the host plant DNA and the integrated gene construct of the genetically modified maize MON863 was revealed by means of thermal asymmetric interlaced-PCR, and the specific PCR primers and TaqMan probe were designed based upon the revealed 5'-integration junction sequence; the conventional qualitative PCR and quantitative TaqMan real-time PCR detection methods employing these primers and probes were successfully developed. In conventional qualitative PCR assay, the limit of detection (LOD) was 0.1% for MON863 in 100 ng of maize genomic DNA for one reaction. In the quantitative TaqMan real-time PCR assay, the LOD and the limit of quantification were eight and 80 haploid genome copies, respectively. In addition, three mixed maize samples with known MON863 contents were detected using the established real-time PCR systems, and the ideal results indicated that the established event specific real-time PCR detection systems were reliable, sensitive, and accurate.


Subject(s)
Plants, Genetically Modified/genetics , Polymerase Chain Reaction/methods , Zea mays/genetics , Animals , Bacillus thuringiensis Toxins , Bacterial Proteins/genetics , Bacterial Toxins/genetics , Base Sequence , Cloning, Molecular , Coleoptera , DNA, Plant/chemistry , Endotoxins/genetics , Hemolysin Proteins , Insecticides , Molecular Sequence Data , Reproducibility of Results
20.
Transgenic Res ; 14(6): 817-31, 2005 Dec.
Article in English | MEDLINE | ID: mdl-16315089

ABSTRACT

Based on the DNA sequences of the junctions between recombinant and cotton genomic DNA of the two genetically modified (GM) cotton varieties, herbicide-tolerance Mon1445 and insect-resistant Mon531, event-specific primers and probes for qualitative and quantitative PCR detection for both GM cotton varieties were designed, and corresponding detection methods were developed. In qualitative PCR detection, the simplex and multiplex PCR detection systems were established and employed to identify Mon1445 and Mon531 from other GM cottons and crops. The limits of detection (LODs) of the simplex PCR were 0.05% for both Mon1445 and Mon531 using 100 ng DNA templates in one reaction, and the LOD of multiplex PCR analysis was 0.1%. For further quantitative detection using TaqMan real-time PCR systems for Mon1445 and Mon531, one plasmid pMD-ECS, used as reference molecule was constructed, which contained the quantitative amplified fragments of Mon1445, Mon531, and cotton endogenous reference gene. The limits of quantification (LOQs) of Mon1445 and Mon531 event-specific PCR systems using plasmid pMD-ECS as reference molecule were 10 copies, and the quantification range was from 0.03 to 100% in 100 ng of the DNA template for one reaction. Thereafter, five mixed cotton samples containing 0, 0.5, 0.9, 3 and 5% Mon1445 or Mon531 were quantified using established real-time PCR systems to evaluate the accuracy and precision of the developed real-time PCR detection systems. The accuracy expressed as bias varied from 1.33 to 8.89% for tested Mon1445 cotton samples, and from 2.67 to 6.80% for Mon531. The precision expressed as relative standard deviations (RSD) were different from 1.13 to 30.00% for Mon1445 cotton, and from 1.27 to 24.68% for Mon531. The range of RSD was similar to other laboratory results (25%). Concluded from above results, we believed that the established event-specific qualitative and quantitative PCR systems for Mon1445 and Mon531 in this study are acceptable and suitable for GM cotton identification and quantification.


Subject(s)
DNA, Plant/analysis , Gossypium/genetics , Plants, Genetically Modified/genetics , Polymerase Chain Reaction/methods , Animals , Base Sequence , Drug Resistance , Gossypium/chemistry , Herbicides/pharmacology , Insecta/pathogenicity , Insecticide Resistance , Molecular Sequence Data , Pest Control, Biological , Plant Proteins/metabolism , Reference Standards , Seeds/chemistry
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