Development of Eighteen Microsatellite Markers in Anemone amurensis (Ranunculaceae) and Cross-Amplification in Congeneric Species

Polyploidy plays an important role in the evolution of plant genomes. To enable the investigation of the polyploidy events within the genus Anemone, we developed eighteen microsatellite markers from the hexaploid species A. amurensis (Ranunculaceae), and tested their transferability in five closely related species. The number of total alleles (NA) for each resulting locus varied from one to eight. The polymorphism information content (PIC) and Nei’s genetic diversity (NGD) for these microsatellites ranged from 0.00 to 0.71 and 0.00 to 0.91, respectively. For each population, the NA was one to seven, and the values of PIC and NGD varied from 0.00 to 0.84 and 0.00 to 0.95, respectively. In addition, most of these microsatellites can be amplified successfully in the congeneric species. These microsatellite primers provide us an opportunity to study the polyploid evolution in the genus Anemone

Performance Assessment of Solar Assisted Absorption Heat Pump System with Parabolic Trough Collectors

AbstractA solar assisted absorption heat pump (AHP) system was installed in Tianjin University for space heating in winter and heat water supply. The primary heat source for the AHP is supplied from parabolic trough collectors. In this paper, experimental and simulation are presented to give an overview assessment of the whole system. The performance of the solar collectors in steady and transient state was investigated, the thermal efficiency curve that characterizing the optical and heat loss of the collectors was carried out with a series of tests. For the whole system, the absorption heat pump performance during operating test was measured and presented.The simulation were performed by TRNSYS using the measured meteorological data and the estimated building load with the specific building type and structure, the daily and monthly operation showed that the solar radiation had significant impact on the ratio of useful energy provided by solar collectors, a high instantaneous solar fraction during the sunshine time while a very low average daily solar fraction was seen from the simulation results, this indicated that a thermal storage is necessary to improve the system performance and lower the auxiliary energy usage

Evapotranspiration and its components over a rainfed spring maize cropland under plastic film on the Loess Plateau, China

Aim of study: To determine seasonal variations in evapotranspiration (ET) and its components; and ascertain the key factors controlling ET and its components in a rainfed spring maize field under plastic film.Area of study: Shouyang County in Shanxi Province on the eastern Loess Plateau, ChinaMaterial and methods: Eddy covariance system combined with micro-lysimeters and meteorological observing instruments were used in the field. The manual method was used to measure the green leaf area index (GLAI) during the growing season.Main results: In 2015 and 2016, the growing season ET accounted for 80% and 79% of annual ET, respectively. Soil evaporation (E) accounted for 36% and 33% of the growing season ET in 2015 and 2016, respectively. The daily crop coefficient increased with increasing GLAI until a threshold of ~3 m2 m−2 in the canopy-increasing stage, and decreased linearly with decreasing GLAI in the canopy-decreasing stage. At equivalent GLAI, daily basal crop coefficient and soil water evaporation coefficient were generally higher in the canopy-increasing and -decreasing stages, respectively. During the growing season, the most important factor controlling daily ET, T, and E was net radiation (Rn), followed by GLAI for daily ET and T, and soil water content at 10-cm depth for daily E; during the non-growing season, daily ET was mainly controlled by Rn.Research highlights: The daily crop coefficient and its components reacted differently to GLAI in the canopy-increasing and -decreasing stages

Association Analysis and Identification of ZmHKT1;5 Variation With Salt-Stress Tolerance

The high-affinity potassium transporter (HKT) genes are essential for plant salt stress tolerance. However, there were limited studies on HKTs in maize (Zea mays), and it is basically unknown whether natural sequence variations in these genes are associated with the phenotypic variability of salt tolerance. Here, the characterization of ZmHKT1;5 was reported. Under salt stress, ZmHKT1;5 expression increased strongly in salt-tolerant inbred lines, which accompanied a better-balanced Na+/K+ ratio and preferable plant growth. The association between sequence variations in ZmHKT1;5 and salt tolerance was evaluated in a diverse population comprising 54 maize varieties from different maize production regions of China. Two SNPs (A134G and A511G) in the coding region of ZmHKT1;5 were significantly associated with different salt tolerance levels in maize varieties. In addition, the favorable allele of ZmHKT1; 5 identified in salt tolerant maize varieties effectively endowed plant salt tolerance. Transgenic tobacco plants of overexpressing the favorable allele displayed enhanced tolerance to salt stress better than overexpressing the wild type ZmHKT1;5. Our research showed that ZmHKT1;5 expression could effectively enhance salt tolerance by maintaining an optimal Na+/K+ balance and increasing the antioxidant activity that keeps reactive oxygen species (ROS) at a low accumulation level. Especially, the two SNPs in ZmHKT1;5 might be related with new amino acid residues to confer salt tolerance in maize.Key Message: Two SNPs of ZmHKT1;5 related with salt tolerance were identified by association analysis. Overexpressing ZmHKT1;5 in tobaccos showed that the SNPs might enhance its ability to regulating Na+/K+ homeostasis

Network Pharmacology-Based Validation of Caveolin-1 as a Key Mediator of Ai Du Qing Inhibition of Drug Resistance in Breast Cancer

Chinese formulas have been paid increasing attention in cancer multidisciplinary therapy due to their multi-targets and multi-substances property. Here, we aim to investigate the anti-breast cancer and chemosensitizing function of Ai Du Qing (ADQ) formula made up of Hedyotis diffusa, Curcuma zedoaria (Christm.) Rosc., Astragalus membranaceus (Fisch.) Bunge, and Glycyrrhiza uralensis Fisch. Our findings revealed that ADQ significantly inhibited cell proliferation in both parental and chemo-resistant breast cancer cells, but with little cytotoxcity effects on the normal cells. Besides, ADQ was found to facilitate the G2/M arresting and apoptosis induction effects of paclitaxel. Network pharmacology and bioinformatics analysis further demonstrated that ADQ yielded 132 candidate compounds and 297 potential targets, and shared 22 putative targets associating with breast cancer chemoresponse. Enrichment analysis and experimental validation demonstrated that ADQ might improve breast cancer chemosensitivity via inhibiting caveolin-1, which further triggered expression changes of cell cycle-related proteins p21/cyclinB1 and apoptosis-associated proteins PARP1, BAX and Bcl-2. Besides, ADQ enhanced in vivo paclitaxel chemosensitivity on breast cancer. Our study not only uncovers the novel function and mechanisms of ADQ in chemosensitizing breast cancer at least partly via targeting caveolin-1, but also sheds novel light in utilizing network pharmacology in Chinese Medicine research

Decreased but persistent epigenetic age acceleration is associated with changes in T-cell subsets after initiation of highly active antiretroviral therapy in persons living with HIV

IntroductionPersons living with HIV (PLWH) experience the early onset of age-related illnesses, even in the setting of successful human immunodeficiency virus (HIV) suppression with highly active antiretroviral therapy (HAART). HIV infection is associated with accelerated epigenetic aging as measured using DNA methylation (DNAm)-based estimates of biological age and of telomere length (TL).MethodsDNAm levels (Infinium MethylationEPIC BeadChip) from peripheral blood mononuclear cells from 200 PLWH and 199 HIV-seronegative (SN) participants matched on chronologic age, hepatitis C virus, and time intervals were used to calculate epigenetic age acceleration, expressed as age-adjusted acceleration residuals from 4 epigenetic clocks [Horvath’s pan-tissue age acceleration residual (AAR), extrinsic epigenetic age acceleration (EEAA), phenotypic epigenetic age acceleration (PEAA), and grim epigenetic age acceleration (GEAA)] plus age-adjusted DNAm-based TL (aaDNAmTL). Epigenetic age acceleration was compared for PLWH and SN participants at two visits: up to 1.5 years prior and 2–3 years after HAART (or equivalent visits). Flow cytometry was performed in PLWH and SN participants at both visits to evaluate T-cell subsets.ResultsEpigenetic age acceleration in PLWH decreased after the initiation of HAART but remained greater post-HAART than that in age-matched SN participants, with differences in medians of 6.6, 9.1, and 7.7 years for AAR, EEAA, and PEAA, respectively, and 0.39 units of aaDNAmTL shortening (all p < 0.001). Cumulative HIV viral load after HAART initiation was associated with some epigenetic acceleration (EEAA, PEAA, and aaDNAmTL), but even PLWH with undetectable HIV post-HAART showed persistent epigenetic age acceleration compared to SN participants (p < 0.001). AAR, EEAA, and aaDNAmTL showed significant associations with total, naïve, and senescent CD8 T-cell counts; the total CD4 T-cell counts were associated with AAR, EEAA, and PEAA (p = 0.04 to <0.001). In an epigenome-wide analysis using weighted gene co-methylation network analyses, 11 modules demonstrated significant DNAm differences pre- to post-HAART initiation. Of these, nine were previously identified as significantly different from pre- to post-HIV infection but in the opposite direction.DiscussionIn this large longitudinal study, we demonstrated that, although the magnitude of the difference decreases with HAART is associated with the cumulative viral load, PLWH are persistently epigenetically older than age-matched SN participants even after the successful initiation of HAART, and these changes are associated with changes in T-cell subsets

Effects of highly active antiretroviral therapy initiation on epigenomic DNA methylation in persons living with HIV

Introduction: Highly active antiretroviral therapy (HAART) helps improve some measures of accelerated epigenetic aging in persons living with HIV (PLWH), but its overall impact on the epigenome is not fully understood.Methods: In this study, we analyzed the DNA methylation profiles of PLWH (n = 187) shortly before and approximately 2–3 years after they started HAART, as well as matched seronegative (SN) controls (n = 187), taken at two time intervals. Our aim was to identify specific CpGs and biologic pathways associated with HIV infection and initiation of HAART. Additionally, we attempted to identify epigenetic changes associated with HAART initiation that were independent of HIV-associated changes, using matched HIV seronegative (SN) controls (matched on age, hepatitis C status, and interval between visits) to identify CpGs that did not differ between PLWH and SN pre-HAART but were significantly associated with HAART initiation while being unrelated to HIV viral load. Epigenome-wide association studies (EWAS) on >850,000 CpG sites were performed using pre- and post-HAART samples from PLWH. The results were then annotated using the Genomic Regions Enrichment of Annotations Tool (GREAT).Results: When only pre- and post-HAART visits in PLWH were compared, gene ontologies related to immune function and diseases related to immune function were significant, though with less significance for PLWH with detectable HIV viral loads (>50 copies/mL) at the post-HAART visit. To specifically elucidate the effects of HAART separately from HIV-induced methylation changes, we performed EWAS of HAART while also controlling for HIV viral load, and found gene ontologies associated with transplant rejection, transplant-related diseases, and other immunologic signatures. Additionally, we performed a more focused analysis that examined CpGs reaching genome-wide significance (p < 1 × 10−7) from the viral load-controlled EWAS that did not differ between all PLWH and matched SN controls pre-HAART. These CpGs were found to be near genes that play a role in retroviral drug metabolism, diffuse large B cell lymphoma proliferation, and gastric cancer metastasis.Discussion: Overall, this study provides insight into potential biological functions associated with DNA methylation changes induced by HAART initiation in persons living with HIV

Phenology data in middle and eastern Eurasia from 1982 to 2015

The folder named SOS stores the SOS data. The folder named EOS stores the EOS data. The "xlsx" files store the data corresponding to the figure in the article

Data from: Discrepancies in vegetation phenology trends and shift patterns in different climatic zones in middle and eastern Eurasia between 1982 and 2015

Changes in vegetation phenology directly reflect the response of vegetation growth to climate change. In this study, using the Normalized Difference Vegetation Index (NDVI) dataset from 1982 to 2015, we extracted start date of vegetation growing season (SOS), end date of vegetation growing season (EOS) and length of vegetation growing season (LOS) in the middle and eastern Eurasia region and evaluated linear trends in SOS, EOS and LOS for the entire study area, as well as for four climatic zones. The results show that the LOS has significantly increased by 0.27 d/yr (days per year), mostly due to a significantly advanced SOS (-0.20 d/yr) and a slightly delayed EOS (0.07 d/yr) over the entire study area from 1982 to 2015. The vegetation phenology trends in the four climatic zones are not continuous throughout the 34 year period. Furthermore, discrepancies in the shifting patterns of vegetation phenology trend existed among different climatic zones. Turning points (TP) of SOS trends in the Cold zone, Temperate zone and Tibetan Plateau zone occurred in the mid or late 1990s. The advanced trends of SOS in the Cold zone, Temperate zone and Tibetan Plateau zone exhibited accelerated, stalled and reversed patterns after the corresponding TP, respectively. The TP did not occurred in Cold-Temperate zone, where the SOS showed a consistent and continuous advance. TPs of EOS trends in the Cold zone, Cold-Temperate zone, Temperate zone and Tibetan Plateau zone occurred in the late 1980s or mid-1990s. The EOS in the Cold zone, Cold-Temperate zone, Temperate zone and Tibetan Plateau zone showed weak advanced or delayed trends after the corresponding TP, which were comparable with the delayed trends before the corresponding TP. The shift patterns of LOS trends were primarily influenced by the shift patterns of SOS trends and were also heterogeneous within climatic zones