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1.
PLoS One ; 14(3): e0212840, 2019.
Article in English | MEDLINE | ID: mdl-30835761

ABSTRACT

Increased concentrations of atmospheric CO2 are predicted to reduce the content of essential elements such as protein, zinc, and iron in C3 grains and legumes, threatening the nutrition of billions of people in the next 50 years. However, this prediction has mostly been limited to grain crops, and moreover, we have little information about either the underlying mechanism or an effective intervention to mitigate these reductions. Here, we present a broader picture of the reductions in elemental content among crops grown under elevated CO2 concentration. By using a new approach, flow analysis of elements, we show that lower absorption and/or translocation to grains is a key factor underlying such elemental changes. On the basis of these findings, we propose two effective interventions-namely, growing C4 instead of C3 crops, and genetic improvements-to minimize the elemental changes in crops, and thereby avoid an impairment of human nutrition under conditions of elevated CO2.


Subject(s)
Atmosphere/chemistry , Carbon Dioxide/physiology , Crop Production/methods , Crops, Agricultural/physiology , Photosynthesis/physiology , Crop Production/trends , Crops, Agricultural/chemistry , Fabaceae/chemistry , Fabaceae/physiology , Feeding Behavior/physiology , Food Supply , Humans , Micronutrients/administration & dosage , Micronutrients/physiology , Oryza/chemistry , Oryza/physiology , Plants, Genetically Modified/chemistry , Plants, Genetically Modified/physiology
2.
Sci Rep ; 7(1): 15958, 2017 11 21.
Article in English | MEDLINE | ID: mdl-29162918

ABSTRACT

Little is known about the genetic basis of leaf and canopy photosynthesis. Here we aimed to detect novel quantitative trait loci (QTL) controlling photosynthesis by increasing leaf nitrogen content (LNC) per leaf area and analysed its effect on leaf and canopy photosynthesis. To identify QTL that increase photosynthetic rate in leaves, we screened chromosome segment substitution lines (CSSLs) of Oryza sativa ssp. japonica cultivar Koshihikari and O. sativa ssp. indica cultivar Nona Bokra using LNC per leaf area as the phenotype indicator. Locus leaf nitrogen content on chromosome four (qLNC4) is associated with increased LNC and photosynthetic rate per leaf area. Moreover, a non-synonymous amino acid substitution was identified in the NARROW LEAF 1 (NAL1) gene located in the qLNC4 region. This NAL1 allele increases LNC and photosynthetic rate per leaf area in flag leaves but does not increase whole-leaf photosynthesis. This NAL1 allele also increases light capture and whole-leaf nitrogen content of the lower leaves and is associated with slower senescence in flag leaves. These results suggest that this NAL1 allele does not increase whole-leaf photosynthesis but plays a role in regulating spatial and temporal trade-offs among traits at the whole-plant level.


Subject(s)
Loss of Function Mutation/genetics , Oryza/genetics , Oryza/physiology , Photosynthesis , Plant Leaves/physiology , Plant Proteins/genetics , Light , Molecular Sequence Annotation , Nitrogen/metabolism , Odds Ratio , Oryza/radiation effects , Photosynthesis/radiation effects , Plant Leaves/radiation effects , Plant Proteins/metabolism , Quantitative Trait Loci/genetics
3.
Front Microbiol ; 6: 136, 2015.
Article in English | MEDLINE | ID: mdl-25750640

ABSTRACT

A number of studies have shown that elevated atmospheric CO2 ([CO2]) affects rice yields and grain quality. However, the responses of root-associated bacteria to [CO2] elevation have not been characterized in a large-scale field study. We conducted a free-air CO2 enrichment (FACE) experiment (ambient + 200 µmol.mol(-1)) using three rice cultivars (Akita 63, Takanari, and Koshihikari) and two experimental lines of Koshihikari [chromosome segment substitution and near-isogenic lines (NILs)] to determine the effects of [CO2] elevation on the community structure of rice root-associated bacteria. Microbial DNA was extracted from rice roots at the panicle formation stage and analyzed by pyrosequencing the bacterial 16S rRNA gene to characterize the members of the bacterial community. Principal coordinate analysis of a weighted UniFrac distance matrix revealed that the community structure was clearly affected by elevated [CO2]. The predominant community members at class level were Alpha-, Beta-, and Gamma-proteobacteria in the control (ambient) and FACE plots. The relative abundance of Methylocystaceae, the major methane-oxidizing bacteria in rice roots, tended to decrease with increasing [CO2] levels. Quantitative PCR revealed a decreased copy number of the methane monooxygenase (pmoA) gene and increased methyl coenzyme M reductase (mcrA) in elevated [CO2]. These results suggest elevated [CO2] suppresses methane oxidation and promotes methanogenesis in rice roots; this process affects the carbon cycle in rice paddy fields.

4.
Nat Genet ; 45(6): 707-11, 2013 Jun.
Article in English | MEDLINE | ID: mdl-23583977

ABSTRACT

Increases in the yield of rice, a staple crop for more than half of the global population, are imperative to support rapid population growth. Grain weight is a major determining factor of yield. Here, we report the cloning and functional analysis of THOUSAND-GRAIN WEIGHT 6 (TGW6), a gene from the Indian landrace rice Kasalath. TGW6 encodes a novel protein with indole-3-acetic acid (IAA)-glucose hydrolase activity. In sink organs, the Nipponbare tgw6 allele affects the timing of the transition from the syncytial to the cellular phase by controlling IAA supply and limiting cell number and grain length. Most notably, loss of function of the Kasalath allele enhances grain weight through pleiotropic effects on source organs and leads to significant yield increases. Our findings suggest that TGW6 may be useful for further improvements in yield characteristics in most cultivars.


Subject(s)
Hydrolases/genetics , Oryza/enzymology , Plant Proteins/genetics , Seeds/enzymology , Catalytic Domain , Chromosome Mapping , Cloning, Molecular , Gene Expression , Genetic Pleiotropy , Haplotypes , Hydrolases/chemistry , Hydrolases/metabolism , Hydrolysis , Indoleacetic Acids/chemistry , Indoleacetic Acids/metabolism , Models, Molecular , Molecular Sequence Data , Oryza/genetics , Oryza/growth & development , Plant Proteins/chemistry , Plant Proteins/metabolism , Seeds/genetics , Seeds/growth & development , Structural Homology, Protein
5.
Plant Methods ; 6: 12, 2010 Apr 21.
Article in English | MEDLINE | ID: mdl-20409329

ABSTRACT

BACKGROUND: Genotype analysis using multiple single nucleotide polymorphisms (SNPs) is a useful but labor-intensive or high-cost procedure in plant research. Here we describe an alternative genotyping method that is suited to multi-sample or multi-locus SNP genotyping and does not require electrophoresis or specialized equipment. RESULTS: We have developed a simple method for multi-sample or multi-locus SNP genotyping using allele-specific primers (ASP). More specifically, we (1) improved the design of allele-specific primers, (2) established a method to detect PCR products optically without electrophoresis, and (3) standardized PCR conditions for parallel genomic assay using various allele-specific primers. As an illustration of multi-sample SNP genotyping using ASP, we mapped the locus for lodging resistance in a typhoon (lrt5). Additionally, we successfully tested multi-locus ASP-PCR analysis using 96 SNPs located throughout the genomes of rice (Oryza sativa) cultivars 'Koshihikari' and 'Kasalath', and demonstrated its applicability to other diverse cultivars/subspecies, including wild rice (O. rufipogon). CONCLUSION: Our ASP methodology allows characterization of SNPs genotypes without electrophoresis, expensive probes or specialized equipment, and is highly versatile due to the flexibility in the design of primers. The method could be established easily in any molecular biology laboratory, and is applicable to diverse organisms.

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