Additional file 1 of Cytoplasmic genome contributions to domestication and improvement of modern maize

Additional file 1: Table S1. List of assembled maize cytoplasmic genomes. Table S2. Whole genome resequencing of 630 maize accessions. Table S3. High-quality (HQ) SNPs of mitogenomes for evolution analysis. Table S4. High-quality (HQ) SNPs of plastomes for evolution analysis. Table S5. High-quality (HQ) SNPs of mitogenomes for population genetic analysis. Table S6. High-quality (HQ) SNPs of mitogenomes and plastomes for GWAS with 64 individual traits of 15 agronomic trait groups. Table S7. High-quality (HQ) SNPs of mitogenomes and plastomes for GWAS with 17 agronomic traits

Data_Sheet_1_A cross-sectional study on the association between dietary inflammatory index and hyperuricemia based on NHANES 2005–2018.docx

BackgroundHyperuricemia is a common condition that can lead to gout and other related diseases. It has been suggested that Inflammatory factors play important role in the development and progression of hyperuricemia. The dietary inflammatory index (DII) enables the assessment of the inflammatory potential of an individual’s diet. This study aimed to investigate the association between DII and hyperuricemia.MethodsThis study was performed based on a cross-sectional dataset from the National Health and Nutrition Examination Survey (NHANES) 2005–2018. Participants aged 18 years and above with dietary intake and serum uric acid level information were included. DII scores were calculated using dietary intake data, based on which participants were categorized into tertiles. Multivariable logistic regression analysis was adopted to investigate the association between DII and hyperuricemia.ResultsAmong a total of 31,781 participants in the analysis, 5,491 had hyperuricemia. After adjusting confounding factors, the odds of hyperuricemia are significantly higher in the second (OR 1.17, 95% CI 1.07–1.29) and third tertiles (OR 1.31, 95% CI 1.19–1.44) relative to the first one.ConclusionThis study suggested that diet with higher inflammatory potential, as measured by DII, is associated with increased hyperuricemia risk. These findings indicated that dietary modification may be a potential approach for hyperuricemia’s prevention and control.</p

Destruxin A Induces and Binds HSPs in <i>Bombyx mori</i> Bm12 Cells

Destruxin A (DA) is a cyclodepsipeptidic mycotoxin isolated from the entomopathogenic fungus, <i>Metarhizium anisopliae</i>. It has insecticidal activity against host insect’s innate immunity system, but the molecular mechanism is not yet elucidated. In our previous experiment, four HSPs (heat shock proteins, BmHSP70–3, BmHSP75, BmHSP83, and BmHSCP) were characterized from the specific protein electrophoretic bands of <i>Bombyx mori</i> Bm12 cell line treated with DA in the test of drug affinity responsive target stability (DARTS), which implied that these HSPs might be kinds of DA-affinity proteins, or DA induces them up-regulated expression. Therefore, in current research, the interactions of DA and HSPs were explored through analysis of bio-layer interferometry (BLI) employing FortBio OcteteQK. The expression levels of HSPs genes were surveyed by quantitative real-time polymerase chain reaction (qPCR). The results indicated that DA had no interactions with BmHSP70–3, BmHSP75, and BmHSP83, but had affinity to BmHSCP with a <i>K</i>_D value of 88.1 μM, in BLI analysis. However, the expression levels of all HSPs genes were significantly up-regulated after the Bm12 cells were treated by DA. In conclusion, DA can induce the four HSPs expression in Bm12 cells, but DA only binds to BmHSCP. Our research provides new insights on understanding of the action mechanisms of destruxins

Table_2_StTCP15 regulates potato tuber sprouting by modulating the dynamic balance between abscisic acid and gibberellic acid.DOCX

The major stages of the potato life cycle are tuber dormancy and sprouting, however, there is still known very little of the mechanisms that control these processes. TCP (Theosinte branch I, Cycloidea, proliferationcell factors 1 and 2) transcription factors play a key role in plant growth and dormancy related developmental processes. Previous researches demonstrated that TCP transcription factor StTCP15 had a function in the promotion of dormancy. To elucidate the function of StTCP15 gene, it was cloned from potato cultivar “Desiree,” which encodes a polypeptide consisting of 414 amino acids and is mainly found in the nucleus. The potato tubers of StTCP15 overexpression lines sprouted in advance, while the potato tubers of StTCP15 down-regulated expression lines showed delayed sprouting. In addition, it was also found that overexpression lines of StTCP15 extremely significantly reduced the ratio of abscisic acid (ABA)/gibberellic acid (GA3), while the superoxide dismutase activity decreased, and the activity of peroxidase and catalase increased compared with the wild type. The opposite result was found in the down-regulated expression lines of StTCP15 gene. Three interacting proteins, StSnRK1, StF-Box and StGID1, were screened by Yeast two-hybrid, and verified by Bimolecular Fluorescence Complementation and Split-luciferase, indicating that StTCP15 could affect ABA and GA3 signaling pathways to regulate potato tuber dormancy and sprouting. Together, these results demonstrated that StTCP15 regulated potato tuber dormancy and sprouting by affecting the dynamic balance between ABA and GA3. The result could provide some information on the molecular mechanism of StTCP15 regulating potato tuber dormancy and sprouting.</p

Data_Sheet_1_StTCP15 regulates potato tuber sprouting by modulating the dynamic balance between abscisic acid and gibberellic acid.docx

The major stages of the potato life cycle are tuber dormancy and sprouting, however, there is still known very little of the mechanisms that control these processes. TCP (Theosinte branch I, Cycloidea, proliferationcell factors 1 and 2) transcription factors play a key role in plant growth and dormancy related developmental processes. Previous researches demonstrated that TCP transcription factor StTCP15 had a function in the promotion of dormancy. To elucidate the function of StTCP15 gene, it was cloned from potato cultivar “Desiree,” which encodes a polypeptide consisting of 414 amino acids and is mainly found in the nucleus. The potato tubers of StTCP15 overexpression lines sprouted in advance, while the potato tubers of StTCP15 down-regulated expression lines showed delayed sprouting. In addition, it was also found that overexpression lines of StTCP15 extremely significantly reduced the ratio of abscisic acid (ABA)/gibberellic acid (GA3), while the superoxide dismutase activity decreased, and the activity of peroxidase and catalase increased compared with the wild type. The opposite result was found in the down-regulated expression lines of StTCP15 gene. Three interacting proteins, StSnRK1, StF-Box and StGID1, were screened by Yeast two-hybrid, and verified by Bimolecular Fluorescence Complementation and Split-luciferase, indicating that StTCP15 could affect ABA and GA3 signaling pathways to regulate potato tuber dormancy and sprouting. Together, these results demonstrated that StTCP15 regulated potato tuber dormancy and sprouting by affecting the dynamic balance between ABA and GA3. The result could provide some information on the molecular mechanism of StTCP15 regulating potato tuber dormancy and sprouting.</p

Modeling the inactivation kinetics of lactic acid bacteria in a spray dryer

Changes in the viability of probiotic cells during spray drying were tracked, by developing an inactivation model of Lactobacillus rhamnosus GG (LGG) and coupling the model to the drying kinetics of spray drying using Computational Fluid Dynamics simulation. Six inactivation models in the Arrhenius-equation form were developed using single droplet drying experiments with average drying rates of 0.011–0.044 kg/kg/s; all gave reliable goodness-of-fit. In simulating spray drying process, the predicted moisture content of LGG-containing particles well followed experimental trends. However, only inactivation model 6, which incorporated droplet temperature, moisture content, rate of temperature change, and drying rate, accurately predicted the survival of LGG. Models 1–5 that incorporated fewer kinetics parameters with higher activation energy values underestimated the degree of inactivation. The findings highlighted the crucial effects of the rates of temperature and moisture content change on the inactivation of probiotics during rapid drying with average drying rates of 0.31–0.81 kg/kg/s.</p

Strain Hardening Behavior of Poly(vinyl alcohol)/Borate Hydrogels

The large-amplitude oscillatory shear (LAOS) behavior of poly­(vinyl alcohol) (PVA)/borate hydrogels was investigated with the change of scanning frequency (ω) as well as concentrations of borate and PVA. The different types (Types I–IV) of LAOS behavior are successfully classified by the mean number of elastically active subchains per PVA chain (<i>f</i>_eas) and Deborah number (<i>D</i>_e = ωτ, τ is the relaxation time of sample). For the samples with Type I behavior (both storage modulus <i>G</i>′ and loss modulus <i>G</i>″ increase with strain amplitude γ, i.e., intercycle strain hardening), the critical value of strain amplitude (γ_crit) at the onset of intercycle strain hardening is almost the same when <i>D</i>_e > ∼2 (Region 3), while the value of Weissenberg number (<i>Wi</i> = γ<i>D</i>_e) at γ_crit is similar when <i>D</i>_e < ∼0.2 (Region 1). For intracycle behavior in the Lissajous curve, intracycle strain hardening is only observed in viscous Lissajous curve of Region 1 or in the elastic Lissajous curve of Region 3. In Region 1, both intercycle and intracycle strain hardening are mainly caused by the strain rate-induced increase in the number of elastically active chains, while non-Gaussian stretching of polymer chains starts to contribute as <i>Wi</i> > 1. In Region 3, strain-induced non-Gaussian stretching of polymer chains results in both intercycle and intracycle strain hardening. In Region 2 (∼0.2 < <i>D</i>_e < ∼2), two involved mechanisms both contribute to intercycle strain hardening. Furthermore, by analyzing the influence of characteristic value of <i>D</i>_e as 1 on the rheological behavior of PVA/borate hydrogels, it is concluded that intercycle strain hardening is dominated by strain-rate-induced increase in the number of elastically active chains when <i>D</i>_e < 1, while strain-induced non-Gaussian stretching dominates when <i>D</i>_e > 1

Strain Hardening Behavior of Poly(vinyl alcohol)/Borate Hydrogels

The large-amplitude oscillatory shear (LAOS) behavior of poly­(vinyl alcohol) (PVA)/borate hydrogels was investigated with the change of scanning frequency (ω) as well as concentrations of borate and PVA. The different types (Types I–IV) of LAOS behavior are successfully classified by the mean number of elastically active subchains per PVA chain (<i>f</i>_eas) and Deborah number (<i>D</i>_e = ωτ, τ is the relaxation time of sample). For the samples with Type I behavior (both storage modulus <i>G</i>′ and loss modulus <i>G</i>″ increase with strain amplitude γ, i.e., intercycle strain hardening), the critical value of strain amplitude (γ_crit) at the onset of intercycle strain hardening is almost the same when <i>D</i>_e > ∼2 (Region 3), while the value of Weissenberg number (<i>Wi</i> = γ<i>D</i>_e) at γ_crit is similar when <i>D</i>_e < ∼0.2 (Region 1). For intracycle behavior in the Lissajous curve, intracycle strain hardening is only observed in viscous Lissajous curve of Region 1 or in the elastic Lissajous curve of Region 3. In Region 1, both intercycle and intracycle strain hardening are mainly caused by the strain rate-induced increase in the number of elastically active chains, while non-Gaussian stretching of polymer chains starts to contribute as <i>Wi</i> > 1. In Region 3, strain-induced non-Gaussian stretching of polymer chains results in both intercycle and intracycle strain hardening. In Region 2 (∼0.2 < <i>D</i>_e < ∼2), two involved mechanisms both contribute to intercycle strain hardening. Furthermore, by analyzing the influence of characteristic value of <i>D</i>_e as 1 on the rheological behavior of PVA/borate hydrogels, it is concluded that intercycle strain hardening is dominated by strain-rate-induced increase in the number of elastically active chains when <i>D</i>_e < 1, while strain-induced non-Gaussian stretching dominates when <i>D</i>_e > 1

Co-localization of OX₁R and NADPH oxidase subunits in RVLM.

<p>Double immunofluorescent staining showing the OX₁R and NADPH oxidase subunit gp91^phox or p47 ^phox co-localized in RVLM; the OX₁R shown in red (A, D, G and J), and the gp91 ^phox (B and E) or p47 ^phox (H and K), in green; the merged images showing yellow color (C, F, I and L); scale bars = 10µm in A, B, C, G, H and I, 5µm in D, E, F, J, k and L. RVLM: rostral ventrolateral medulla.</p

Dependences of Rheological and Compression Mechanical Properties on Cellular Structures for Impact-Protective Materials

In this study, three typical impact-protective materials, D3O, PORON XRD, and DEFLEXION were chosen to explore the dependences of rheological and compression mechanical properties on the internal cellular structures with polymer matrix characteristics, which were examined using Fourier transform infrared spectroscopy, thermogravimetric analyses, and scanning electron microscopy with energy dispersive spectroscopy. The rheological property of these three foaming materials were examined using a rheometer, and the mechanical property in a compression mode was further examined using an Instron universal tensile testing machine. The dependences of rheological parameters, such as dynamic moduli, normalized moduli, and loss tangent, on angular frequency, and the dependences of mechanical properties in compression, such as the degree of strain-hardening, hysteresis, and elastic recovery, on the strain rate for D3O, PORON XRD, and DEFLEXION can be well-correlated with their internal cellular structural parameters, revealing, for example, that D3O and PORON XRD exhibit simultaneously high strength and great energy loss in a high-frequency impact, making them suitable for use as soft, close-fitting materials; however, DEFLEXION dissipates much energy whether it suffers a large strain rate or not, making it suitable for use as a high-risk impact-protective material. The rheometry and compression tests used in this study can provide the basic references for selecting and characterizing certain impact-protective materials for applications