scholarly journals Ultra-High-Density QTL Marker Mapping for Seedling Photomorphogenesis Mediating Arabidopsis Establishment in Southern Patagonia

2021 ◽  
Vol 12 ◽  
Author(s):  
Daniel Matsusaka ◽  
Daniele Filiault ◽  
Diego H. Sanchez ◽  
Javier F. Botto
Keyword(s):  
Complex Traits ◽  
Red Light ◽  
High Density ◽  
Potential Candidate ◽  
Hypocotyl Length ◽  
Light Responses ◽  
Wide Range ◽  
Southern Patagonia ◽  
Ril Population ◽  
Wild Accessions

Arabidopsis thaliana shows a wide range of genetic and trait variation among wild accessions. Because of its unparalleled biological and genomic resources, Arabidopsis has a high potential for the identification of genes underlying ecologically important complex traits, thus providing new insights on genome evolution. Previous research suggested that distinct light responses were crucial for Arabidopsis establishment in a peculiar ecological niche of southern Patagonia. The aim of this study was to explore the genetic basis of contrasting light-associated physiological traits that may have mediated the rapid adaptation to this new environment. From a biparental cross between the photomorphogenic contrasting accessions Patagonia (Pat) and Columbia (Col-0), we generated a novel recombinant inbred line (RIL) population, which was entirely next-generation sequenced to achieve ultra-high-density saturating molecular markers resulting in supreme mapping sensitivity. We validated the quality of the RIL population by quantitative trait loci (QTL) mapping for seedling de-etiolation, finding seven QTLs for hypocotyl length in the dark and continuous blue light (Bc), continuous red light (Rc), and continuous far-red light (FRc). The most relevant QTLs, Rc1 and Bc1, were mapped close together to chromosome V; the former for Rc and Rc/dark, and the latter for Bc, FRc, and dark treatments. The additive effects of both QTLs were confirmed by independent heterogeneous inbred families (HIFs), and we explored TZP and ABA1 as potential candidate genes for Rc1 and Bc1QTLs, respectively. We conclude that the Pat × Col-0 RIL population is a valuable novel genetic resource to explore other adaptive traits in Arabidopsis.

Pitted morningglory (Ipomoea lacunosa) germination and emergence as affected by environmental factors and seeding depth

Weed Science ◽  
2006 ◽  
Vol 54 (5) ◽  
pp. 910-916 ◽  
Author(s):  
Marcos J. Oliveira ◽  
Jason K. Norsworthy
Keyword(s):  
Red Light ◽  
Soil Surface ◽  
Moisture Stress ◽  
Hypocotyl Elongation ◽  
Burial Depth ◽  
Hypocotyl Length ◽  
Solution Ph ◽  
Wide Range ◽  
Pitted Morningglory ◽  
Ph Range

Laboratory and greenhouse experiments were conducted to determine the effect of light, temperature, solution pH, solution osmotic potential, and oxygen concentration on pitted morningglory germination and radicle plus hypocotyl elongation, and seeding depth on its subsequent emergence. Daily exposure of seed to natural light resulted in lower germination than in darkness, whereas germination was not influenced by brief exposure to red or far-red light. Germination occurred over a wide range of constant temperatures, from 7.5 to 52.5 C, with optimum germination between 20 and 25 C. Germination occurred at solution pH range of 3 to 10 and was optimal from pH 6 to 8. Radicle plus hypocotyl elongation was influenced by the interaction of temperature and solution pH. A combination of acidic medium (pH 6) and high temperature (30 C) resulted in the greatest radicle plus hypocotyl length of 7.6 cm after a 7-d incubation. Germination and radicle plus hypocotyl elongation, averaged over the 15 and 30 C temperature, decreased with increasing moisture stress, with less than 3% normalized germination at −1.0 MPa. Germination was 29, 40, and 51% at 2, 10, and 20% oxygen, respectively, averaged over 15 and 30 C. Germination of seed lying on the soil surface covered with filter paper or without any cover was similar, averaging 64%. Normalized emergence, relative to germination on the soil surface, decreased with increasing burial depth to 4% emergence at 10 cm, with a mean emergence depth of 4.1 cm, averaged across two soil types.

scholarly journals Genomic Structure and Variation of Nuclear Factor (Erythroid-Derived 2)-Like 2

2013 ◽  
Vol 2013 ◽  
pp. 1-24 ◽  
Author(s):  
Hye-Youn Cho
Keyword(s):  
Complex Traits ◽  
Genomic Structure ◽  
Inbred Mouse ◽  
High Density ◽  
Mouse Strains ◽  
Sequencing Analysis ◽  
Nuclear Factor ◽  
Genetic Characteristics ◽  
Density Mapping ◽  
Wide Range

High-density mapping of mammalian genomes has enabled a wide range of genetic investigations including the mapping of polygenic traits, determination of quantitative trait loci, and phylogenetic comparison. Genome sequencing analysis of inbred mouse strains has identified high-density single nucleotide polymorphisms (SNPs) for investigation of complex traits, which has become a useful tool for biomedical research of human disease to alleviate ethical and practical problems of experimentation in humans. Nuclear factor (erythroid-derived 2)-like 2 (NRF2) encodes a key host defense transcription factor. This review describes genetic characteristics of humanNRF2and its homologs in other vertebrate species.NRF2is evolutionally conserved and shares sequence homology among species. Compilation of publically available SNPs and other genetic mutations shows that humanNRF2is highly polymorphic with a mutagenic frequency of 1 per every 72 bp. Functional at-risk alleles and haplotypes have been demonstrated in various human disorders. In addition, other pathogenic alterations including somatic mutations and misregulated epigenetic processes inNRF2have led to oncogenic cell survival. Comprehensive information from the current review addresses association ofNRF2variation and disease phenotypes and supports the new insights into therapeutic strategies.

Growth Response and Carbohydrate Status of Gibberellin-treated Spectral Filter-grown Chrysanthemum Plants

HortScience ◽  
1998 ◽  
Vol 33 (3) ◽  
pp. 522c-522
Author(s):  
Anuradha Tatineni ◽  
Sonja L. Maki ◽  
Nihal C. Rajapakse
Keyword(s):  
Plant Height ◽  
Growth Regulation ◽  
Red Light ◽  
Sucrose Phosphate Synthase ◽  
Spectral Filter ◽  
Spectral Filters ◽  
Wide Range ◽  
Ornamental Crops ◽  
Carbohydrate Levels ◽  
Carbohydrate Status

Interest in the use of non- (or less) chemical methods to reduce the height of ornamental crops has increased tremendously. Manipulation of greenhouse light quality is one alternative for plant growth regulation. We have shown that eliminating far-red light from the greenhouse environment with liquid CuSO4 spectral filters is effective in reducing the height of a wide range of plants though plant carbohydrate status is also altered under CuSO4 filter. In previous studies, application of GA3 reversed both the reduction of plant height and carbohydrate status of CuSO4 spectral filter grown plants. It has been proposed that GAs enhance the activity of the enzyme sucrose phosphate synthase to regulate carbohydrate levels. In the present study the role of exogenously applied GA19, GA1, and GA3 in overcoming the reduction of plant height and carbohydrate levels was investigated. Chrysanthemum plants were treated weekly for 4 weeks with saturating doses of GA19, GA1 and GA3 (25 μg) or the growth retardants paclobutrazol and prohexadione. GA1 was also applied with paclobutrazol and prohexadione to assess whether response to GAs is altered under CuSO4 filter. GA1 and GA3 promoted growth similarly under control or CuSO4 filter. GA19 was least effective in promoting growth under CuSO4 filter. In summary, these results suggest that gibberellin physiology is altered under spectral filters with the conversion of GA19 a possible point of regulation. The correlation between the carbohydrate status and the growth of the plants will be discussed.

scholarly journals Phenotypic Characterisation for Growth and Nut Characteristics Revealed the Extent of Genetic Diversity in Wild Macadamia Germplasm

Agriculture ◽  
2021 ◽  
Vol 11 (7) ◽  
pp. 680
Author(s):  
Thuy T. P. Mai ◽  
Craig M. Hardner ◽  
Mobashwer M. Alam ◽  
Robert J. Henry ◽  
Bruce L. Topp
Keyword(s):  
Genetic Diversity ◽  
Growth Traits ◽  
Principal Component ◽  
Conservation Strategies ◽  
Wild Germplasm ◽  
Phenotypic Characterisation ◽  
Wide Range ◽  
Genetic And Environmental Factors ◽  
Positive Correlations ◽  
Wild Accessions

Macadamia is a recently domesticated Australian native nut crop, and a large proportion of its wild germplasm is unexploited. Aiming to explore the existing diversity, 247 wild accessions from four species and inter-specific hybrids were phenotyped. A wide range of variation was found in growth and nut traits. Broad-sense heritability of traits were moderate (0.43–0.64), which suggested that both genetic and environmental factors are equally important for the variability of the traits. Correlations among the growth traits were significantly positive (0.49–0.76). There were significant positive correlations among the nut traits except for kernel recovery. The association between kernel recovery and shell thickness was highly significant and negative. Principal component analysis of the traits separated representative species groups. Accessions from Macadamia integrifolia Maiden and Betche, M. tetraphylla L.A.S. Johnson, and admixtures were clustered into one group and those of M. ternifolia F. Muell were separated into another group. In both M. integrifolia and M. tetraphylla groups, variation within site was greater than across sites, which suggested that the conservation strategies should concentrate on increased sampling within sites to capture wide genetic diversity. This study provides a background on the utilisation of wild germplasm as a genetic resource to be used in breeding programs and the direction for gene pool conservation.

scholarly journals Integration of early disease-resistance phenotyping, histological characterization, and transcriptome sequencing reveals insights into downy mildew resistance in impatiens

2021 ◽  
Vol 8 (1) ◽  
Author(s):  
Ze Peng ◽  
Yanhong He ◽  
Saroj Parajuli ◽  
Qian You ◽  
Weining Wang ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Downy Mildew ◽  
Transcriptome Sequencing ◽  
Early Stage ◽  
Economic Losses ◽  
Potential Candidate ◽  
Early Disease ◽  
True Leaf ◽  
Cotyledon Stage ◽  
Wide Range

AbstractDowny mildew (DM), caused by obligate parasitic oomycetes, is a destructive disease for a wide range of crops worldwide. Recent outbreaks of impatiens downy mildew (IDM) in many countries have caused huge economic losses. A system to reveal plant–pathogen interactions in the early stage of infection and quickly assess resistance/susceptibility of plants to DM is desired. In this study, we established an early and rapid system to achieve these goals using impatiens as a model. Thirty-two cultivars of Impatiens walleriana and I. hawkeri were evaluated for their responses to IDM at cotyledon, first/second pair of true leaf, and mature plant stages. All I. walleriana cultivars were highly susceptible to IDM. While all I. hawkeri cultivars were resistant to IDM starting at the first true leaf stage, many (14/16) were susceptible to IDM at the cotyledon stage. Two cultivars showed resistance even at the cotyledon stage. Histological characterization showed that the resistance mechanism of the I. hawkeri cultivars resembles that in grapevine and type II resistance in sunflower. By integrating full-length transcriptome sequencing (Iso-Seq) and RNA-Seq, we constructed the first reference transcriptome for Impatiens comprised of 48,758 sequences with an N50 length of 2060 bp. Comparative transcriptome and qRT-PCR analyses revealed strong candidate genes for IDM resistance, including three resistance genes orthologous to the sunflower gene RGC203, a potential candidate associated with DM resistance. Our approach of integrating early disease-resistance phenotyping, histological characterization, and transcriptome analysis lay a solid foundation to improve DM resistance in impatiens and may provide a model for other crops.

scholarly journals Genome-wide association study and gene network analyses reveal potential candidate genes for high night temperature tolerance in rice

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Raju Bheemanahalli ◽  
Montana Knight ◽  
Cherryl Quinones ◽  
Colleen J. Doherty ◽  
S. V. Krishna Jagadish
Keyword(s):  
Grain Size ◽  
Candidate Genes ◽  
Gene Network ◽  
Genome Wide Association ◽  
Potential Candidate ◽  
Genetic Loci ◽  
Stay Green ◽  
Yield And Quality ◽  
Genome Wide ◽  
Wide Range

AbstractHigh night temperatures (HNT) are shown to significantly reduce rice (Oryza sativa L.) yield and quality. A better understanding of the genetic architecture of HNT tolerance will help rice breeders to develop varieties adapted to future warmer climates. In this study, a diverse indica rice panel displayed a wide range of phenotypic variability in yield and quality traits under control night (24 °C) and higher night (29 °C) temperatures. Genome-wide association analysis revealed 38 genetic loci associated across treatments (18 for control and 20 for HNT). Nineteen loci were detected with the relative changes in the traits between control and HNT. Positive phenotypic correlations and co-located genetic loci with previously cloned grain size genes revealed common genetic regulation between control and HNT, particularly grain size. Network-based predictive models prioritized 20 causal genes at the genetic loci based on known gene/s expression under HNT in rice. Our study provides important insights for future candidate gene validation and molecular marker development to enhance HNT tolerance in rice. Integrated physiological, genomic, and gene network-informed approaches indicate that the candidate genes for stay-green trait may be relevant to minimizing HNT-induced yield and quality losses during grain filling in rice by optimizing source-sink relationships.

scholarly journals Purification and Characterization of Asparaginase fromPhaseolus vulgarisSeeds

2015 ◽  
Vol 2015 ◽  
pp. 1-6 ◽  
Author(s):  
Saleh A. Mohamed ◽  
Mohamed F. Elshal ◽  
Taha A. Kumosani ◽  
Alia M. Aldahlawi
Keyword(s):  
Acute Lymphoblastic Leukemia ◽  
Lymphoblastic Leukemia ◽  
Potential Candidate ◽  
Purification And Characterization ◽  
Apparent Homogeneity ◽  
Wide Range ◽  
Optimum Ph ◽  
Glutaminase Activity ◽  
Low Activity

L-asparaginase from bacteria has been used in treatment of acute lymphoblastic leukemia. The aim of this study was to purify and characterize L-asparaginase fromPhaseolus vulgarisseeds instead of microbial sources. L-asparaginase was purified to apparent homogeneity. The enzyme has molecular mass of 79 kDa. The purified asparaginase had very low activity toward a number of asparagine and glutamine analogues. L-asparaginase was free from glutaminase activity. Kinetic parameters, Km andVmax of purified enzyme, were found to be 6.72 mM and 0.16 μM, respectively. The enzyme had optimum pH at 8.0. The enzyme showed high stability at alkaline pH (pH 7.5–9.0) when incubated for up to 24 h. L-asparaginase had the same temperature optimum and thermal stability at 37°C. K+was able to greatly enhance the activity of asparaginase by 150% compared with other metals tested. In conclusion, L-asparaginase showed no glutaminase activity and good stability over a wide range of physiological conditions, and thus it could be used as a potential candidate for treatment of acute lymphoblastic leukemia.

Influence of Polypropylene Fiber in Strength of Foamed Concrete

2012 ◽  
Vol 488-489 ◽  
pp. 253-257 ◽  
Author(s):  
Josef Hadipramana ◽  
Abdul Aziz Abdul Samad ◽  
Zi Jun Zhao ◽  
Noridah Mohammad ◽  
W. Wirdawati
Keyword(s):  
Tensile Strength ◽  
Mechanical Test ◽  
Polypropylene Fiber ◽  
High Density ◽  
Splitting Tensile Strength ◽  
Normal Concrete ◽  
Wide Range ◽  
Foamed Concrete ◽  
Strength Result ◽  
And Behavior

Foamed concrete is material that can be used in wide range of constructions and produced in high density. This investigation examined effect of chopped Polypropylene Fiber (PF) that mixed into admixture concerning strength of foamed concrete high density. Mechanical test were performed to measure effect of PF on improving compressive and splitting tensile strength. Result indicate that PF significantly improving compressive strength and behavior of PF where drawn into foamed concrete similarly with normal concrete. The fibrillated PF has been occurred and reduced the micro crack of matrix and prevented propagation crack growth. The presence of PF improved splitting tensile strength was not significantly. Influence of porous of foamed concrete is considered. Scanning Electron Microscope (SEM) exhibits condition microstructure of foamed concrete reinforced PF that alter microstructure, especially interfacial bonding due to PF presence.

scholarly journals Construction of a High-Density Genetic Map from RNA-Seq Data for an Arabidopsis Bay-0 × Shahdara RIL Population

2017 ◽  
Vol 8 ◽  
Author(s):  
Elise A. R. Serin ◽  
L. B. Snoek ◽  
Harm Nijveen ◽  
Leo A. J. Willems ◽  
Jose M. Jiménez-Gómez ◽  
...  
Keyword(s):  
Genetic Map ◽  
High Density ◽  
Rna Seq ◽  
Ril Population

MiR-145-5p modulates lipid metabolism and M2 macrophage polarization by targeting PAK7 and regulating β-catenin signaling in hyperlipidemia

2021 ◽  
pp. 1-7
Author(s):  
Huijun Chen ◽  
Jing Gao ◽  
Qian Xu ◽  
Dongmei Wan ◽  
Wenji Zhai ◽  
...  
Keyword(s):  
Lipid Metabolism ◽  
High Density Lipoprotein ◽  
Macrophage Polarization ◽  
Density Lipoprotein ◽  
High Density ◽  
M2 Macrophage ◽  
Cardiac Tissues ◽  
Potential Biomarker ◽  
Wide Range ◽  
M2 Macrophage Polarization

The present study aims to explore the role of microRNA 145-5p (miR-145-5p) in hyperlipidemia. Using bioinformatics tools and a wide range of function and mechanism assays, we attempted to understand the specific function and potential mechanism of miR-145-5p in hyperlipidemia. A cholesterol-enriched diet induced an increase of serum cholesterol and triacylglycerol but a decrease of serum high-density lipoprotein. MiR-145-5p level was decreased in hyperlipidemia rat models. MiR-145-5p regulated lipid metabolism by antagonizing the alteration of high-density lipoprotein, cholesterol, and triacylglycerol in serum mediated by a cholesterol-enriched diet. In mechanism, miR-145-5p directly bound with p21 protein (RAC1)-activated kinase 7 (PAK7) and negatively regulated mRNA and protein levels of PAK7 in THP-1 cells. Furthermore, miR-145-5p level was negatively associated with PAK7 level in rat cardiac tissues. Finally, overexpression of PAK7 reversed the effects of miR-145-5p on β-catenin activation and M2 macrophages polarization in THP-1 cells. In conclusion, MiR-145-5p modulated lipid metabolism and M2 macrophage polarization by targeting PAK7 and regulating β-catenin signaling in hyperlipidemia, which may provide a potential biomarker for the treatment of hyperlipidemia-induced cardiovascular diseases.

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