Fingerprints of climatic changes through the late Cenozoic in southern Asian flora: Magnolia section Michelia (Magnoliaceae).

BACKGROUND AND AIMS: Ongoing global warming is a challenge for humankind. A series of drastic climatic changes have been proven to have occurred throughout the Cenozoic based on a variety of geological evidence, which helps to better understand our planet's future climate. Notably, extant biomes have recorded drastic environmental shifts. The climate in southern Asia, which hosts high biodiversity, is deeply impacted by the Asian monsoon. The origins and evolutionary dynamics of biomes occurring between the tropics and sub-tropics in southern Asia have probably been deeply impacted by climatic changes; however, these aspects remain poorly studied. We tested whether the evolutionary dynamics of the above biomes have recorded the drastic, late Cenozoic environmental shifts, by focusing on Magnolia section Michelia of the family Magnoliaceae. METHODS: We established a fine time-calibrated phylogeny of M. section Michelia based on complete plastid genomes and inferred its ancestral ranges. Finally, we estimated the evolutionary dynamics of this section through time, determining its diversification rate and the dispersal events that occurred between tropical and sub-tropical areas. KEY RESULTS: The tropical origin of M. section Michelia was dated to the late Oligocene; however, the diversification of its core group (i.e. M. section Michelia subsection Michelia) has occurred mainly from the late Miocene onward. Two key evolutionary shifts (dated approx. 8 and approx. 3 million years ago, respectively) were identified, each of them probably in response to drastic climatic changes. CONCLUSION: Here, we inferred the underlying evolutionary dynamics of biomes in southern Asia, which probably reflect late Cenozoic climatic changes. The occurrence of modern Asian monsoons was probably fundamental for the origin of M. section Michelia; moreover, the occurrence of asymmetric dispersal events between the tropics and sub-tropics hint at an adaptation strategy of M. section Michelia to global cooling, in agreement with the tropical conservatism hypothesis.

Laser-induced fluorescence thermometry of supercritical CO2 flows inside a micro-channel.

This work demonstrates a thermometric technique using laser-induced fluorescence (LIF) in supercritical carbon dioxide flows in a micro-channel. Rhodamine 6G was used as a temperature-sensitive fluorescent dye. The flow conditions were at a pressure of 7.9 MPa and temperature in the range of 23°-90°C. 2D spatial distributions and time-resolved temperature profiles were obtained at this high pressure. Measured LIF signals showed close relations to the temperatures obtained from resistance temperature detectors.

A Systems Biology Approach to Investigating the Interaction between Serotonin Synthesis by Tryptophan Hydroxylase and the Metabolic Homeostasis.

Obesity has become a global public health and economic problem. Obesity is a major risk factor for a number of complications, such as type 2 diabetes, cardiovascular disease, fatty liver disease, and cancer. Serotonin (5-hydroxytryptamine [5-HT]) is a biogenic monoamine that plays various roles in metabolic homeostasis. It is well known that central 5-HT regulates appetite and mood. Several 5-HT receptor agonists and selective serotonin receptor uptake inhibitors (SSRIs) have shown beneficial effects on appetite and mood control in clinics. Although several genetic polymorphisms related to 5-HT synthesis and its receptors are strongly associated with obesity, there is little evidence of the role of peripheral 5-HT in human metabolism. In this study, we performed a systemic analysis of transcriptome data from the Genotype-Tissue Expression (GTEX) database. We investigated the expression of 5-HT and tryptophan hydroxylase (TPH), the rate-limiting enzyme of 5-HT biosynthesis, in the human brain and peripheral tissues. We also performed differential gene expression analysis and predicted changes in metabolites by comparing gene expressions of tissues with high TPH expression to the gene expressions of tissues with low TPH expression. Our analyses provide strong evidence that serotonin plays an important role in the regulation of metabolic homeostasis in humans.

Risk factors for and clinical outcomes of carbapenem non-susceptible gram negative bacilli bacteremia in patients with acute myelogenous leukemia.

BACKGROUND: Carbapenem is frequently used when gram negative bacilli (GNB) bacteremia is detected especially in neutropenic patients. Consequently, appropriate treatment could be delayed in GNB bacteremia cases involving organisms which are not susceptible to carbapenem (carba-NS), resulting in a poor clinical outcomes. Here, we explored risk factors for carba-NS GNB bacteremia and its clinical outcomes in patients with acute myelogenous leukemia (AML) that underwent chemotherapy. METHODS: We reviewed all GNB bacteremia cases that occurred during induction or consolidation chemotherapy, over a 15-year period, in a tertiary-care hospital. RESULTS: Among 489 GNB bacteremia cases from 324 patients, 45 (9.2%) were carba-NS and 444 (90.8%) were carbapenem susceptible GNB. Independent risk factors for carba-NS GNB bacteremia were: carbapenem use at bacteremia onset (adjusted odds ratio [aOR]: 91.2; 95% confidence interval [95%CI]: 29.3-284.1; P < 0.001); isolation of carbapenem-resistant Acinetobacter baumannii (aOR: 19.4, 95%CI: 3.4-112.5; P = 0.001) in the prior year; and days from chemotherapy to GNB bacteremia (aOR: 1.1 per day, 95%CI: 1.1-1.2; P < 0.001). Carba-NS bacteremia was independently associated with in-hospital mortality (aOR: 6.6, 95%CI: 3.0-14.8; P < 0.001). CONSLUSION: Carba-NS organisms should be considered for antibiotic selection in AML patients having these risk factors.

Development of an ultrasound triggered nanomedicine-microbubble complex for chemo-photodynamic-gene therapy.

Recently, combination therapy has received much attention because of its highly therapeutic effect in various types of cancers. In particular, chemo-photodynamic combination therapy has been considered as an outstanding strategy. However, an abnormal increase in tumor angiogenesis caused by reactive oxygen species (ROS) generated during photodynamic therapy (PDT) has been reported. In this study, the complex of doxorubicin (DOX)-encapsulating anti-angiogenic small interfering RNA (siRNA) nanoparticle and chlorin e6 (Ce6)-encapsulating microbubble has been developed to suppress tumor angiogenesis. The first compartment, doxorubicin-encapsulating siRNA nanoparticle, was electrostatically coated using two biocompatible polymers to prevent the damage of genetic materials. The other part, Ce6-encapsulating microbubble, serves as an ultrasound-triggered local delivery system as well as a drug carrier. Both the in vitro and in vivo experimental results demonstrate successful inhibition of angiogenesis with a minimized damage of siRNAs caused by ROS as well as improved therapeutic effect by chemo-photodynamic-gene triple combination therapy using ultrasound-triggered local delivery.

Discovery of Non-Peptidic Compounds against Chagas Disease Applying Pharmacophore Guided Molecular Modelling Approaches.

Chagas disease is one of the primary causes of heart diseases accounting to 50,000 lives annually and is listed as the neglected tropical disease. Because the currently available therapies have greater toxic effects with higher resistance, there is a dire need to develop new drugs to combat the disease. In this pursuit, the 3D QSAR ligand-pharmacophore (pharm 1) and receptor-based pharmacophore (pharm 2) search was initiated to retrieve the candidate compounds from universal natural compounds database. The validated models were allowed to map the universal natural compounds database. The obtained lead candidates were subjected to molecular docking against cysteine protease (PDB code: 1ME3) employing -Cdocker available on the discovery studio. Subsequently, two Hits have satisfied the selection criteria and were escalated to molecular dynamics simulation and binding free energy calculations. These Hits have demonstrated higher dock scores, displayed interactions with the key residues portraying an ideal binding mode complemented by mapping to all the features of pharm 1 and pharm 2. Additionally, they have rendered stable root mean square deviation (RMSD) and potential energy profiles illuminating their potentiality as the prospective antichagastic agents. The study further demonstrates the mechanism of inhibition by tetrad residues compromising of Gly23 and Asn70 holding the ligand at each ends and the residues Gly65 and Gly160 clamping the Hits at the center. The notable feature is that the Hits lie in close proximity with the residues Glu66 and Leu67, accommodating within the S1, S2 and S3 subsites. Considering these findings, the study suggests that the Hits may be regarded as effective therapeutics against Chagas disease.

Few-femtosecond-resolution characterization and suppression of excess timing jitter and drift in indoor atmospheric frequency comb transfer.

We characterize the timing jitter spectral density of the time-of-flight (TOF) in the indoor atmospheric transfer of optical pulse train over 10 decades of Fourier frequency range (10 µHz - 100 kHz) with sub-100-as resolution using a balanced optical cross-correlator (BOC). Based on the well-known theory for atmospheric transfer of a laser beam, we could fit the measured timing jitter power spectral density to the theory and analyze it with a fairly good agreement from 20 mHz to 10 Hz Fourier frequency range. Moreover, we demonstrate that the BOC-based timing stabilization method can suppress the excess fluctuations in timing from >200 fs (rms) to 2.6 fs (rms) maintained over 130 hours when an optical pulse train is transferred over a 76.2-m long free-space beam path in laboratory environment. The demonstrated stabilization result corresponds to 4 × 10(-20) overlapping Allan deviation at 117,000 s averaging time.

Evaluation of restriction and Cas endonuclease kinetics using matrix-insensitive magnetic biosensors.

The enzymatic actions of endonucleases in vivo can be altered due to bound substrates and differences in local environments, including enzyme concentration, pH, salinity, ionic strength, and temperature. Thus, accurate estimation of enzymatic reactions in vivo using matrix-dependent methods in solution can be challenging. Here, we report a matrix-insensitive magnetic biosensing platform that enables the measurement of endonuclease activity under different conditions with varying pH, salinity, ionic strength, and temperature. Using biosensor arrays and orthogonal pairs of oligonucleotides, we quantitatively characterized the enzymatic activity of EcoRI under different buffer conditions and in the presence of inhibitors. To mimic a more physiological environment, we monitored the sequence-dependent star activity of EcoRI under unconventional conditions. Furthermore, enzymatic activity was measured in cell culture media, saliva, and serum. Last, we estimated the effective cleavage rates of Cas12a on anchored single-strand DNAs using this platform, which more closely resembles in vivo settings. This platform will facilitate precise characterization of restriction and Cas endonucleases under various conditions.

Inhibition of HTR2B-mediated serotonin signaling in colorectal cancer suppresses tumor growth through ERK signaling.

Colorectal cancer (CRC) is a leading cause of cancer-related mortality worldwide. Serotonin (5-HT) is a biogenic monoamine that acts as a neurotransmitter in the central nervous system and as a paracrine, exocrine, or endocrine messenger in peripheral tissues. In this study, we hypothesized that inhibition of serotonin signaling using 5-HT receptor 2B (HTR2B) inhibitors could potentially impede the progression of CRC. We treated CT26 and COLO-205 cells with SB204741, an inhibitor of HTR2B, and evaluated CRC cell proliferation and migration. We then evaluated the effects of HTR2B inhibition in a xenograft mouse model of human colorectal cancer. We also evaluated the role of a novel inhibitor, GM-60186, using both in vitro and in vivo models. RNA sequencing analysis was performed to elucidate the underlying mechanism of the anti-tumor effects of pharmacological inhibition of HTR2B on CRC. In both CRC cell lines and xenograft mouse models, we show that pharmacological inhibition of HTR2B with SB204741 and GM-60186 significantly inhibits CRC cell proliferation and migration. HTR2B inhibition leads to the suppression of extracellular signal-regulated kinase (ERK) signaling, a critical pathway in CRC pathogenesis. Notably, transcriptomic analysis reveals distinct gene expression changes associated with HTR2B inhibition, providing insight into its therapeutic potential. In this study, we found that pharmacological inhibition of HTR2B suppressed CRC proliferation via ERK signaling. In addition, we proposed a novel HTR2B inhibitor for the treatment of CRC. This study highlights the potential role of HTR2B signaling in CRC. These inhibitors may contribute to new therapeutics for CRC treatment.

Phylogenomic insights into Neotropical Magnolia relationships.

Despite extensive research into the phylogenetic relationships of the genus Magnolia, Neotropical taxa have been neglected. This is partly because their numbers have recently doubled and now account for almost half of the global richness. Therefore, by sampling one-third of all Neotropical taxa their relationships were studied using morphological, nuclear, and plastome data. Two major clades were identified: Clade I, comprising Magnolia sect. Talauma, Magnolia sect. Splendentes from the Neotropics, and the Asian Magnolia sect. Gwillimia; while Clade II included the Neotropical clades Magnolia sect. Macrophylla and Magnolia sect. Magnolia, along with the remaining non-Neotropical sections. Within Clade I, Magnolia sect. Talauma was geographically divided into a northern subclade grouping Mexican and Central American taxa, and a southern subclade comprising South American and Caribbean taxa. Magnolia sect. Splendentes was also dichotomously divided, corresponding to the former Magnolia sect. Talauma subsect. Cubenses and Magnolia sect. Talauma subsect. Dugandiodendron. In Clade II, the relationships within Magnolia sect. Macrophylla and Magnolia sect. Magnolia were unclear, suggesting a species complex in all Magnolia sect. Macrophylla taxa. In total, 25 morphological traits were assessed, and ancestral state reconstructions were carried out. Only the joined clustering of mature follicles was a synapomorphy for the southern subclade of Magnolia sect. Talauma. In conclusion, this highlights the need to re-assess the taxonomic delimitation of certain groups, to update the infrageneric classification of Neotropical clades and to explore morphological traits to support them.

Anti-Aging and Lightening Effects of Au-Decorated Zeolite-Based Biocompatible Nanocomposites in Epidermal Delivery Systems.

The main challenges in developing zeolites as cosmetic drug delivery systems are their cytotoxicities and the formation of drug-loading pore structures. In this study, Au-decorated zeolite nanocomposites were synthesized as an epidermal delivery system. Thus, 50 nm-sized Au nanoparticles were successfully deposited on zeolite 13X (super cage (α) and sodalite (ß) cage structures) using the Turkevich method. Various cosmetic drugs, such as niacinamide, sulforaphane, and adenosine, were loaded under in vitro and in vivo observations. The Au-decorated zeolite nanocomposites exhibited effective cosmetic drug-loading efficiencies of 3.5 to 22.5 wt% under various conditions. For in vitro cytotoxic observations, B16F10 cells were treated with various cosmetic drugs. Niacinamide, sulforaphane, and adenosine-loaded Au-decorated zeolite nanocomposites exhibited clear cell viability of over 80%. Wrinkle improvement and a reduction in melanin content on the skin surface were observed in vivo. The adenosine delivery system exhibited an enhanced wrinkle improvement of 203% compared to 0.04 wt% of the pure adenosine system. The niacinamide- and sulforaphane-loaded Au-decorated zeolite nanocomposites decreased the skin surface melanin content by 123% and 222%, respectively, compared to 2 and 0.01 wt% of pure niacinamide and sulforaphane systems, respectively. As a result, Au-decorated zeolite nanocomposites show great potential as cosmetic drug epidermal delivery systems for both anti-aging and lightening effects.

Anti-Oxidant and Anti-Aging Effects of Phlorizin Are Mediated by DAF-16-Induced Stress Response and Autophagy in Caenorhabditis elegans.

Phlorizin (phloridzin) is a polyphenolic phytochemical primarily found in unripe Malus (apple). It is a glucoside of phloretin and acts as an inhibitor of renal glucose transport, thus lowering blood glucose. The objective of this study was to determine effects of dietary supplementation with phlorizin on stress response, aging, and age-related diseases using Caenorhabditis elegans as a model system. Survival after oxidative stress or ultraviolet irradiation was significantly increased by pre-treatment of phlorizin. Dietary supplementation with phlorizin also significantly extended lifespans without reducing fertility. Age-related decline of muscle function was delayed by supplementation with phlorizin. Phlorizin induced the expression of stress-responsive genes hsp-16.2 and sod-3 and nuclear localization of DAF-16, a FOXO transcription factor modulating stress response and lifespan in C. elegans. Amyloid-beta-induced toxicity was significantly reduced by phlorizin. This effect was dependent on DAF-16 and SKN-1. Increased mortality induced with a high-glucose diet was partially prevented by phlorizin via SKN-1. Inactivation of dopaminergic neurons observed in a Parkinson's disease model was completely recovered by supplementation with phlorizin. Genetic analysis suggests that lifespan extension by phlorizin is mediated through oxidative stress response and autophagy. Taken together, these data suggest that phlorizin has strong anti-oxidant and anti-aging activities with potential to be developed as a novel anti-oxidant nutraceutical against aging and age-related diseases.

Effects of Fisetin, a Plant-Derived Flavonoid, on Response to Oxidative Stress, Aging, and Age-Related Diseases in Caenorhabditis elegans.

Fisetin (3,3',4',7-tetrahydroxyflavone), a flavonoid abundant in various fruits and vegetables, including apple, strawberry, and onion, shows several beneficial effects such as anti-oxidant, anti-inflammatory, and anti-tumor effects. The free radical theory of aging suggests that age-related accumulation of oxidative damage is the major cause of aging and that decreasing cellular oxidative stress can regulate aging. Here, we investigated the effects of dietary supplementation with fisetin on the stress response, aging, and age-related diseases. Fisetin reduced the cellular ROS levels and increased the resistance to oxidative stress. However, the response to UV irradiation was not affected by fisetin. Both the mean and maximum lifespans were significantly extended by fisetin; lifespan extension by fisetin was accompanied by reduced fertility as a trade-off. Age-related decline in motility was also delayed by supplementation with fisetin. Amyloid beta-induced toxicity was markedly decreased by fisetin, which required DAF-16 and SKN-1. Reduced motility induced by a high-glucose diet was completely recovered by supplementation with fisetin, which was dependent on SKN-1. Using a Parkinson's disease model, we showed that degeneration of dopaminergic neurons was significantly inhibited by treatment with fisetin. Genetic analysis revealed that lifespan extension by fisetin was mediated by DAF-16-induced stress response and autophagy. These findings support the free radical theory of aging and suggest that fisetin can be a strong candidate for use in novel anti-aging anti-oxidant nutraceuticals.

Silver-Nanoparticle-Assisted Modulation of NH3 Desorption on MIL-101.

Ammonia has recently emerged as a promising hydrogen carrier for renewable energy conversion. Establishing a better understanding and control of ammonia adsorption and desorption is necessary to improve future energy generation. Metal-organic frameworks (MOFs) have shown improved ammonia capacity and stability over conventional adsorbents such as silica and zeolite. However, ammonia desorption requires high temperature over 150 °C, which is not desirable for energy-efficient ammonia reuse and recycling. Here, we loaded silver nanoparticles from 6.6 to 51.4 wt% in MIL-101 (Ag@MIL-101) using an impregnation method to develop an efficient MOF-based hybrid adsorbent for ammonia uptake. The incorporation of metal nanoparticles into MIL-101 has not been widely explored for ammonia uptake, even though such hybrid nanostructures have significantly enhanced catalytic activities and gas sensing capacities. Structural features of Ag@MIL-101 with different Ag wt% were examined using transmission electron microscopy, X-ray powder diffraction, and infrared spectroscopy, demonstrating successful formation of silver nanoparticles in MIL-101. Ag@MIL-101 (6.6 wt%) showed hysteresis in the N2 isotherm and an increase in the fraction of larger pores, indicating that mesopores were generated during the impregnation. Temperature-programmed desorption with ammonia was performed to understand the binding affinity of ammonia molecules on Ag@MIL-101. The binding affinity was the lowest with Ag@MIL-101 (6.6 wt%), including the largest relative fraction in the amount of desorbed ammonia molecules. It was presumed that cooperative interaction between the silver nanoparticle and the MIL-101 framework for ammonia molecules could allow such a decrease in the desorption temperature. Our design strategy with metal nanoparticles incorporated into MOFs would contribute to develop hybrid MOFs that reduce energy consumption when reusing ammonia from storage.

Exploring the Genetic Associations Between the Use of Statins and Alzheimer's Disease.

Objective: Alzheimer's disease (AD) is the most common cause of dementia. The statins have shown beneficial effects on cognitive functions and reduced the risk of dementia development. However, the exact mechanisms of statin effects in AD are not yet fully understood. In this study, we aimed to explore the underlying mechanisms of statin on AD. Methods: We downloaded AD blood dataset (GSE63060) and statin-related blood gene expression dataset (GSE86216). Then we performed gene expression analysis of each dataset and compared blood gene expressions between AD patients and statin-treated patients. Then, we downloaded mouse embryonic neural stem cell dataset (GSE111945) and performed gene expression analysis. Results: From the human blood dataset, we identified upregulated/downregulated genes in AD patients and statin-treated patients. Some of the upregulated genes (AEN, MBTPS1, ABCG1) in the blood of AD patients are downregulated in statin-treated patients. Several downregulated genes (FGL2, HMGCS1, PSME2, SRSF3, and ATG3) are upregulated in statin-treated patients. Gene set enrichment analysis using mouse stem cell dataset revealed a significant relationship of Kyoto Encyclopedia of Genes and Genomes-defined pathway of AD in statin-treated neural stem cells compared to vehicle-treated neural stem cells (normalized enrichment score: -2.24 in male and -1.6 in female). Conclusion: These gene expression analyses from human blood and mouse neural stem cell demonstrate the important clues on the molecular mechanisms of impacts of statin on AD disease. Further studies are needed to investigate the exact role of candidate genes and pathways suggested in our AD pathogenesis study.

Synergistic Effect of MIL-101/Reduced Graphene Oxide Nanocomposites on High-Pressure Ammonia Uptake.

Ammonia has emerged as a potential working fluid in adsorption heat pumps (AHPs) for clean energy conversion. It would be necessary to develop an efficient adsorbent with high-density ammonia uptake under high gas pressures in the low-temperature range for waste heat. Herein, a porous nanocomposite with MIL-101(Cr)-NH2 (MIL-A) and reduced graphene oxide (rGO) was developed to enhance the ammonia adsorption capacity over high ammonia pressures (3-5 bar) and low working temperatures (20-40 °C). A one-pot hydrothermal reaction could form a two-dimensional sheet-like nanocomposite where MIL-A nanoparticles were well deposited on the surface of rGO. The MIL-A nanoparticles were shown to grow on the rGO surface through chemical bonding between chromium metal centers in MIL-A and oxygen species in rGO. We demonstrated that the nanocomposite with 2% GO showed higher ammonia uptake capacity at 5 bar compared with pure MIL-A and rGO. Our strategy to incorporate rGO with MIL-A nanoparticles would further be generalizable to other metal-organic frameworks for improving the ammonia adsorption capacity in AHPs.

Supplementation with phosphatidylethanolamine confers anti-oxidant and anti-aging effects via hormesis and reduced insulin/IGF-1-like signaling in C. elegans.

Phosphatidylethanolamine is a major component of phospholipids with both structural and metabolic functions in cells. Previous studies have revealed that phosphatidylethanolamine can modulate autophagy with a protective effect against age-related diseases. We examined the effect of dietary supplementation with phosphatidylethanolamine on stress response and aging in Caenorhabditis elegans. Phosphatidylethanolamine increased resistance to oxidative stress without effect on heat stress or ultraviolet irradiation. Both mean and maximum lifespans were significantly increased by phosphatidylethanolamine while fertility was reduced as a trade-off. Age-related decline of muscle function was delayed in animals treated with phosphatidylethanolamine. Supplementation with phosphatidylethanolamine suppressed toxic effect of amyloid ß and high-glucose diet. Increased ROS levels and induction of stress-responsive genes after dietary supplementation with phosphatidylethanolamine suggest that anti-oxidative stress and anti-aging effects of phosphatidylethanolamine might be though hormesis. Genetic analysis using long-lived mutants and knockdown by RNAi revealed that the lifespan-extending effect of phosphatidylethanolamine overlapped with that of reduced insulin/IGF-1-like signaling and required DAF-16, a downstream transcription factor known to regulate the expression of many stress-responsive genes. These findings indicate that phosphatidylethanolamine has anti-oxidative stress and anti-aging activities with its underlying mechanisms involving hormesis and reduced insulin/IGF-1-like signaling in C. elegans.

The complete chloroplast genome of Abeliophyllum distichum f. lilacinum Nakai (Oleaceae) from the Chungbuk Province, Korea.

The chloroplast genome of Abeliophyllum distichum f. lilacinum Nakai, classified to a monotypic in this genus, and an endemic species in Korea, was sequenced to understand the genetic differences among intraspecies and cultivars of A. distichum. The chloroplast genome length is 156,015 bp (GC ratio is 37.8%) and has a typical quadripartite structure: 86,779 bp large single copy (35.8%) and 17,828 bp small single copy (31.9%) regions separated by two 25,704 bp inverted repeat (43.2%) regions. The genome encodes for 133 genes (88 protein-coding genes, eight rRNAs, and 37 tRNAs). Six to 99 SNPs and seven to 18 INDEL regions (19 bp to 72 bp) were identified against available chloroplast genomes of A. distichum. Phylogenetic trees show that A. distichum f. lilacinum is clustered with the Dae Ryun cultivar which has a larger fruit body. Our analyses suggest additional research, such as Genotyping-By-Sequencing, for understanding relationship between morphology and genotype of A. distichum.

Genome-wide comparative analyses of GATA transcription factors among seven Populus genomes.

GATA transcription factors (TFs) are widespread eukaryotic regulators whose DNA-binding domain is a class IV zinc finger motif (CX2CX17-20CX2C) followed by a basic region. We identified 262 GATA genes (389 GATA TFs) from seven Populus genomes using the pipeline of GATA-TFDB. Alternative splicing forms of Populus GATA genes exhibit dynamics of GATA gene structures including partial or full loss of GATA domain and additional domains. Subfamily III of Populus GATA genes display lack CCT and/or TIFY domains. 21 Populus GATA gene clusters (PCs) were defined in the phylogenetic tree of GATA domains, suggesting the possibility of subfunctionalization and neofunctionalization. Expression analysis of Populus GATA genes identified the five PCs displaying tissue-specific expression, providing the clues of their biological functions. Amino acid patterns of Populus GATA motifs display well conserved manner of Populus GATA genes. The five Populus GATA genes were predicted as membrane-bound GATA TFs. Biased chromosomal distributions of GATA genes of three Populus species. Our comparative analysis approaches of the Populus GATA genes will be a cornerstone to understand various plant TF characteristics including evolutionary insights.

The complete chloroplast genome of Chrysanthemum zawadskii Herbich (Asteraceae) isolated in Korea.

We have determined the complete chloroplast genome of Chrysanthemum zawadskii Herbich isolated in Korea. The circular chloroplast genome of C. zawadskii is 151,137 bp long and has four subregions: 83,041 bp of large single copy and 18,350 bp of small single copy regions are separated by 24,873 bp of inverted repeat regions including 133 genes (87 protein-coding genes, eight rRNA genes, 37 tRNAs, and one pseudogene). There are 65 to 152 single nucleotide polymorphisms and 33 to 64 insertion and deletion regions (178 bp to 372 bp in length) identified against three available chloroplast genomes of C. zawadskii. The phylogenetic tree shows that C. zawadskii is clustered as a paraphyletic group with C. zawadskii subsp. coreanum, displaying incongruency between species and clades.