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1.
Plant Biotechnol J ; 2024 Mar 18.
Article in English | MEDLINE | ID: mdl-38497586

ABSTRACT

Adzuki bean (Vigna angularis) is an important legume crop cultivated in over 30 countries worldwide. We developed a high-quality chromosome-level reference genome of adzuki bean cultivar Jingnong6 by combining PacBio Sequel long-read sequencing with short-read and Hi-C technologies. The assembled genome covers 97.8% of the adzuki bean genome with a contig N50 of approximately 16 Mb and a total of 32 738 protein-coding genes. We also generated a comprehensive genome variation map of adzuki bean by whole-genome resequencing (WGRS) of 322 diverse adzuki beans accessions including both wild and cultivated. Furthermore, we have conducted comparative genomics and a genome-wide association study (GWAS) on key agricultural traits to investigate the evolution and domestication. GWAS identified several candidate genes, including VaCycA3;1, VaHB15, VaANR1 and VaBm, that exhibited significant associations with domestication traits. Furthermore, we conducted functional analyses on the roles of VaANR1 and VaBm in regulating seed coat colour. We provided evidence for the highest genetic diversity of wild adzuki (Vigna angularis var. nipponensis) in China with the presence of the most original wild adzuki bean, and the occurrence of domestication process facilitating transition from wild to cultigen. The present study elucidates the genetic basis of adzuki bean domestication traits and provides crucial genomic resources to support future breeding efforts in adzuki bean.

2.
Acta Pharmacol Sin ; 45(7): 1492-1505, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38538718

ABSTRACT

Immunosuppression by the tumor microenvironment is a pivotal factor contributing to tumor progression and immunotherapy resistance. Priming the tumor immune microenvironment (TIME) has emerged as a promising strategy for improving the efficacy of cancer immunotherapy. In this study we investigated the effects of noninvasive radiofrequency radiation (RFR) exposure on tumor progression and TIME phenotype, as well as the antitumor potential of PD-1 blockage in a model of pulmonary metastatic melanoma (PMM). Mouse model of PMM was established by tail vein injection of B16F10 cells. From day 3 after injection, the mice were exposed to RFR at an average specific absorption rate of 9.7 W/kg for 1 h per day for 14 days. After RFR exposure, lung tissues were harvested and RNAs were extracted for transcriptome sequencing; PMM-infiltrating immune cells were isolated for single-cell RNA-seq analysis. We showed that RFR exposure significantly impeded PMM progression accompanied by remodeled TIME of PMM via altering the proportion and transcription profile of tumor-infiltrating immune cells. RFR exposure increased the activation and cytotoxicity signatures of tumor-infiltrating CD8+ T cells, particularly in the early activation subset with upregulated genes associated with T cell cytotoxicity. The PD-1 checkpoint pathway was upregulated by RFR exposure in CD8+ T cells. RFR exposure also augmented NK cell subsets with increased cytotoxic characteristics in PMM. RFR exposure enhanced the effector function of tumor-infiltrating CD8+ T cells and NK cells, evidenced by increased expression of cytotoxic molecules. RFR-induced inhibition of PMM growth was mediated by RFR-activated CD8+ T cells and NK cells. We conclude that noninvasive RFR exposure induces antitumor remodeling of the TIME, leading to inhibition of tumor progression, which provides a promising novel strategy for TIME priming and potential combination with cancer immunotherapy.


Subject(s)
CD8-Positive T-Lymphocytes , Killer Cells, Natural , Lung Neoplasms , Mice, Inbred C57BL , Tumor Microenvironment , Animals , Killer Cells, Natural/immunology , Tumor Microenvironment/immunology , Lung Neoplasms/immunology , Lung Neoplasms/pathology , Lung Neoplasms/therapy , CD8-Positive T-Lymphocytes/immunology , Mice , Melanoma, Experimental/immunology , Melanoma, Experimental/pathology , Melanoma, Experimental/therapy , Lymphocytes, Tumor-Infiltrating/immunology , Phenotype , Programmed Cell Death 1 Receptor , Immune Checkpoint Inhibitors/therapeutic use , Immune Checkpoint Inhibitors/pharmacology
3.
Proc Natl Acad Sci U S A ; 118(13)2021 03 30.
Article in English | MEDLINE | ID: mdl-33753478

ABSTRACT

Species in a shared environment tend to evolve similar adaptations under the influence of their phylogenetic context. Using snowfinches, a monophyletic group of passerine birds (Passeridae), we study the relative roles of ancestral and species-specific adaptations to an extreme high-elevation environment, the Qinghai-Tibet Plateau. Our ancestral trait reconstruction shows that the ancestral snowfinch occupied high elevations and had a larger body mass than most nonsnowfinches in Passeridae. Subsequently, this phenotypic adaptation diversified in the descendant species. By comparing high-quality genomes from representatives of the three phylogenetic lineages, we find that about 95% of genes under positive selection in the descendant species are different from those in the ancestor. Consistently, the biological functions enriched for these species differ from those of their ancestor to various degrees (semantic similarity values ranging from 0.27 to 0.5), suggesting that the three descendant species have evolved divergently from the initial adaptation in their common ancestor. Using a functional assay to a highly selective gene, DTL, we demonstrate that the nonsynonymous substitutions in the ancestor and descendant species have improved the repair capacity of ultraviolet-induced DNA damage. The repair kinetics of the DTL gene shows a twofold to fourfold variation across the ancestor and the descendants. Collectively, this study reveals an exceptional case of adaptive evolution to high-elevation environments, an evolutionary process with an initial adaptation in the common ancestor followed by adaptive diversification of the descendant species.


Subject(s)
Acclimatization/genetics , Body Size/genetics , Mutation Rate , Selection, Genetic , Altitude , Amino Acid Substitution , Animals , DNA Repair , Nuclear Proteins/genetics , Phylogeny , Species Specificity , Tibet
4.
Handb Exp Pharmacol ; 281: 103-140, 2023.
Article in English | MEDLINE | ID: mdl-37735301

ABSTRACT

Glia are integral components of neural networks and are crucial in both physiological functions and pathological processes of the brain. Many brain diseases involve glial abnormalities, including inflammatory changes, mitochondrial damage, calcium signaling disturbance, hemichannel opening, and loss of glutamate transporters. Induced pluripotent stem cell (iPSC)-derived glia provide opportunities to study the contributions of glia in human brain diseases. These cells have been used for human disease modeling as well as generating new therapies. This chapter introduces glial involvement in brain diseases, then summarizes different methods of generating iPSC-derived glia disease models of these cells. Finally, strategies for treating disease using iPSC-derived glia are discussed. The goal of this chapter is to provide an overview and shed light on the applications of iPSC-derived glia in brain disease research and treatment.


Subject(s)
Brain Diseases , Induced Pluripotent Stem Cells , Humans , Brain , Induced Pluripotent Stem Cells/physiology , Neuroglia
5.
Mol Biol Evol ; 38(10): 4238-4251, 2021 09 27.
Article in English | MEDLINE | ID: mdl-34003267

ABSTRACT

The number of olfactory receptor genes (ORs), which are responsible for detecting diverse odor molecules varies extensively among mammals as a result of frequent gene gains and losses that contribute to olfactory specialization. However, how OR expansions/contractions in fish are influenced by habitat and feeding habit and which OR subfamilies are important in each ecological niche is unknown. Here, we report a major OR expansion in a freshwater herbivorous fish, Megalobrama amblycephala, using a highly contiguous, chromosome-level assembly. We evaluate the possible contribution of OR expansion to habitat and feeding specialization by comparing the OR repertoire in 28 phylogenetically and ecologically diverse teleosts. In total, we analyzed > 4,000 ORs including 3,253 intact, 122 truncated, and 913 pseudogenes. The number of intact ORs is highly variable ranging from 20 to 279. We estimate that the most recent common ancestor of Osteichthyes had 62 intact ORs, which declined in most lineages except the freshwater Otophysa clade that has a substantial expansion in subfamily ß and ε ORs. Across teleosts, we found a strong association between duplications of ß and ε ORs and freshwater habitat. Nearly, all ORs were expressed in the olfactory epithelium (OE) in three tested fish species. Specifically, all the expanded ß and ε ORs were highly expressed in OE of M. amblycephala. Together, we provide molecular and functional evidence for how OR repertoires in fish have undergone gain and loss with respect to ecological factors and highlight the role of ß and ε OR in freshwater adaptation.


Subject(s)
Cyprinidae , Receptors, Odorant , Animals , Chromosomes , Cyprinidae/genetics , Fish Proteins/genetics , Fresh Water , Genome , Mammals/genetics , Receptors, Odorant/genetics
6.
Invest New Drugs ; 39(3): 686-696, 2021 06.
Article in English | MEDLINE | ID: mdl-33387131

ABSTRACT

G9a, a histone methyltransferase, has been found to be upregulated in a range of tumor tissues, and contributes to tumor growth and metastasis. However, the impact of G9a inhibition as a potential therapeutic target in nasopharyngeal carcinoma (NPC) is unclear. In the present study we aimed to investigate the anti-proliferative effect of G9a inhibition in the NPC cell lines CNE1 and CNE2, and to further elucidate the molecular mechanisms underlying these effects. The expression of G9a in NPC tumor tissues was significantly higher than that in normal nasopharyngeal tissues. The pharmacological inhibition of G9a by BIX-01294 (BIX) inhibited proliferation and induced caspase-independent apoptosis in NPC cells in vitro. Treatment with BIX induced autophagosome accumulation, which exacerbated the cytotoxic activity of BIX in NPC cells. Mechanistic studies have found that BIX impairs autophagosomes by initiating autophagy in a Beclin-1-independent way, and impairs autophagic degradation by inhibiting lysosomal cathepsin D activation, leading to lysosomal dysfunction. BIX was able to suppress tumor growth, possibly by inhibiting autophagic flux; it might therefore constitute a promising candidate for NPC therapy.


Subject(s)
Antineoplastic Agents/pharmacology , Azepines/pharmacology , Histone-Lysine N-Methyltransferase/antagonists & inhibitors , Nasopharyngeal Carcinoma/drug therapy , Nasopharyngeal Neoplasms/drug therapy , Quinazolines/pharmacology , Autophagosomes/drug effects , Cell Line, Tumor , Cell Physiological Phenomena/drug effects , Histocompatibility Antigens/genetics , Histocompatibility Antigens/metabolism , Histone-Lysine N-Methyltransferase/genetics , Histone-Lysine N-Methyltransferase/metabolism , Humans , Lysosomal-Associated Membrane Protein 2/metabolism , Lysosomal Membrane Proteins/metabolism , Lysosomes/drug effects , Nasopharyngeal Carcinoma/metabolism , Nasopharyngeal Neoplasms/metabolism , RNA, Small Interfering/genetics
7.
Ecotoxicol Environ Saf ; 223: 112554, 2021 Oct 15.
Article in English | MEDLINE | ID: mdl-34332247

ABSTRACT

Arsenic is one of the most common environmental pollutants. Neurotoxicity induced by arsenic has become a major public health concern. However, the effects of arsenic-induced neurotoxicity in the brain and the underlying molecular mechanisms are not well understood. N-acetyl-cysteine (NAC) is a thiol-based antioxidant that can antagonize heavy metal-induced neurotoxicity by scavenging reactive oxygen species (ROS). Here, we used the mouse oligodendrocyte precursor cell (OPC) line Oli-neu to explore the neurotoxic effects of arsenic and the protective effects of NAC. We found that arsenic exposure decreased cell viability, increased oxidative stress, caused mitochondrial dysfunction, and led to apoptosis of Oli-neu cells. Furthermore, we revealed that NAC treatment reversed these neurotoxic effects of arsenic. TMEM179, a key membrane protein, was found highly expressed in OPCs and to be an important factor in maintaining mitochondrial functions. We found that TMEM179 played a critical role in mediating the neurotoxic effects of arsenic and the protective role of NAC. PKCß is a downstream factor through which TMEM179 regulates the expression of apoptosis-related proteins. This study improves our understanding of the neurotoxic effects and mechanisms of arsenic exposure and the protective effects of NAC. It also identifies a potential molecular target, TMEM179, for the treatment of arsenic-induced neurotoxicity.


Subject(s)
Acetylcysteine , Arsenic , Acetylcysteine/metabolism , Acetylcysteine/pharmacology , Animals , Apoptosis , Arsenic/metabolism , Arsenic/toxicity , Mice , Mitochondria/metabolism , Oxidative Stress , Reactive Oxygen Species/metabolism
8.
Neurochem Res ; 45(5): 1130-1141, 2020 May.
Article in English | MEDLINE | ID: mdl-32080784

ABSTRACT

Alzheimer's disease (AD) is one of the most common neurodegenerative diseases, and no effective therapies have been found to prevent or cure AD to date. Berberine and curcumin are extracts from traditional Chinese herbs that have a long history of clinical benefits for AD. Here, using a transgenic AD mouse model, we found that the combined berberine and curcumin treatment had a much better effect on improving the cognitive function of mice than the single-drug treatment, suggesting synergic effects of the combined berberine and curcumin treatment. In addition, we found that the combined berberine and curcumin treatment had significant synergic effects on reducing soluble amyloid-ß-peptide(1-42) production. Furthermore, the combination treatment also had remarkable synergic effects on decreasing inflammatory responses and oxidative stress in both the cortex and hippocampus of AD mice. We also found that the combination treatment performed much better than the single drugs in reducing the APP and BACE1 levels and increasing AMPKα phosphorylation and cell autophagy, which might be the underlying mechanism of the synergic effects. Taken together, the result of this study reveal the synergic effects and potential underlying mechanisms of the combined berberine and curcumin treatment in improving the symptoms of AD in mice. This study sheds light on a new strategy for exploring new phytotherapies for AD and also emphasizes that more research should focus on the synergic effects of herbal drugs in the future.


Subject(s)
Alzheimer Disease/drug therapy , Berberine/administration & dosage , Brain/drug effects , Cognition/drug effects , Curcumin/administration & dosage , Oxidative Stress/drug effects , Alzheimer Disease/genetics , Alzheimer Disease/metabolism , Amyloid Precursor Protein Secretases/antagonists & inhibitors , Amyloid Precursor Protein Secretases/biosynthesis , Amyloid beta-Peptides/antagonists & inhibitors , Amyloid beta-Peptides/biosynthesis , Animals , Anti-Inflammatory Agents, Non-Steroidal/administration & dosage , Aspartic Acid Endopeptidases/antagonists & inhibitors , Aspartic Acid Endopeptidases/biosynthesis , Brain/metabolism , Cognition/physiology , Drug Synergism , Female , Male , Mice , Mice, Transgenic , Oxidative Stress/physiology , Peptide Fragments/antagonists & inhibitors , Peptide Fragments/biosynthesis
9.
Cereb Cortex ; 29(1): 54-69, 2019 01 01.
Article in English | MEDLINE | ID: mdl-29161339

ABSTRACT

Injury to the adult brain induces activation of local astrocytes, which serves as a compensatory response that modulates tissue damage and recovery. However, the mechanism governing astrocyte activation during brain injury remains largely unknown. Here we provide in vivo evidence that SOX2, a transcription factor critical for stem cells and brain development, is also required for injury-induced activation of adult cortical astrocytes. Genome-wide chromatin immunoprecipitation-seq analysis of mouse cortical tissues reveals that SOX2 binds to regulatory regions of genes associated with signaling pathways that control glial cell activation, such as Nr2e1, Mmd2, Wnt7a, and Akt2. Astrocyte-specific deletion of Sox2 in adult mice greatly diminishes glial response to controlled cortical impact injury and, most unexpectedly, dampens injury-induced cortical loss and benefits behavioral recovery of mice after injury. Together, these results uncover an essential role of SOX2 in somatic cells under pathological conditions and indicate that SOX2-dependent astrocyte activation could be targeted for functional recovery after traumatic brain injury.


Subject(s)
Astrocytes/metabolism , Brain Injuries, Traumatic/metabolism , Gene Deletion , Recovery of Function/physiology , SOXB1 Transcription Factors/deficiency , Animals , Astrocytes/pathology , Brain Injuries, Traumatic/genetics , Brain Injuries, Traumatic/pathology , Cells, Cultured , Female , Male , Maze Learning/physiology , Mice , Mice, Inbred C57BL , Mice, Transgenic , Neural Stem Cells , SOXB1 Transcription Factors/genetics
10.
Water Sci Technol ; 82(12): 2847-2856, 2020 Dec.
Article in English | MEDLINE | ID: mdl-33341775

ABSTRACT

A new kind of flat sheet ultrafiltration membrane was prepared by a promising membrane material, poly (aryl ether nitrile) (PEN), via non-solvent induced phase separation. The effect of solvents, N-methyl-2-pyrrolidone (NMP) and dimethyl acetamide (DMAc), as well as additive of poly (ethylene glycol) (PEG) with different molecular weights on the structure and permeation performance of synthesized membranes were investigated. Comparing with NMP, DMAc is more suitable for the casting solution preparation due to better solubility. A gradually changing pore from sponge-like to finger-like can be observed when PEG was added with DMAc as solvent, while a finger-like pore structure always appears in the NMP system with or without PEG. In both systems, the formation of macrovoids is effectively promoted by the addition of PEG, and higher porosity membranes can be obtained by PEG with higher molecular weight. With the increase of PEG molecular weight from 400 to 10,000 Da, the permeate flux increases from 74.5 to 114.3 L·m-2·h-1 and from 102.0 to 130.8 L·m-2·h-1 under a 100 kPa pressure-driven when NMP and DMAc were used as solvents, respectively. The membranes prepared by DMAc exhibit outstanding rejection of BSA with rejections all above 96.5%.


Subject(s)
Polyethylene Glycols , Ultrafiltration , Ether , Ethers , Membranes, Artificial , Nitriles , Polymers
11.
J Pineal Res ; 67(3): e12596, 2019 Oct.
Article in English | MEDLINE | ID: mdl-31332839

ABSTRACT

Trimethyltin chloride (TMT) is a potent neurotoxin that causes neuroinflammation and neuronal cell death. Melatonin is a well-known anti-inflammatory agent with significant neuroprotective activity. Male C57BL/6J mice were intraperitoneally injected with a single dose of melatonin (10 mg/kg) before exposure to TMT (2.8 mg/kg, ip). Thereafter, the mice received melatonin (10 mg/kg, ip) once a day for another three consecutive days. Melatonin dramatically alleviated TMT-induced neurotoxicity in mice by attenuating hippocampal neuron loss, inhibiting epilepsy-like seizures, and ameliorating memory deficits. Moreover, melatonin markedly suppressed TMT-induced neuroinflammatory responses and astrocyte activation, as shown by a decrease in inflammatory cytokine production as well as the downregulation of neurotoxic reactive astrocyte phenotype markers. Mechanistically, serine peptidase inhibitor clade A member 3N (SERPINA3N) was identified as playing a central role in the protective effects of melatonin based on quantitative proteome and bioinformatics analysis. Most importantly, melatonin significantly suppressed TMT-induced SERPINA3N upregulation at both the mRNA and protein levels. The overexpression of Serpina3n in the mouse hippocampus abolished the protective effects of melatonin on TMT-induced neuroinflammation and neurotoxicity. Melatonin protected cells against TMT-induced neurotoxicity by inhibiting SERPINA3N-mediated neuroinflammation. Melatonin may be a promising and practical agent for reducing TMT-induced neurotoxicity in clinical practice.


Subject(s)
Acute-Phase Proteins/metabolism , Melatonin/therapeutic use , Neurotoxicity Syndromes/drug therapy , Serpins/metabolism , Trimethyltin Compounds/toxicity , Acute-Phase Proteins/genetics , Animals , Hippocampus/drug effects , Hippocampus/metabolism , Male , Mice , Mice, Inbred C57BL , Neurons/drug effects , Neurons/metabolism , Neurotoxicity Syndromes/metabolism , Serpins/genetics
12.
Biochim Biophys Acta Mol Cell Res ; 1864(10): 1900-1912, 2017 Oct.
Article in English | MEDLINE | ID: mdl-28779972

ABSTRACT

Thyroid hormones play a crucial role in midbrain dopaminergic (DA) neuron development. However, the underlying molecular mechanisms remain largely unknown. In this study, we revealed that thyroid hormone treatment evokes significant calcium entry through canonical transient receptor potential (TRPC) channels in ventral midbrain neural stem cells and this calcium signaling is essential for thyroid hormone-dependent DA neuronal differentiation. We also found that TRPC1 is the dominant TRPC channel expressed in ventral midbrain neural stem cells which responds to thyroid hormone. In addition, thyroid hormone increases TRPC1 expression through its receptor alpha 1 during DA neuron differentiation, and, importantly, produces calcium signals by activating TRPC1 channels. In vivo and in vitro gene silencing experiments indicate that TRPC1-mediated calcium signaling is required for thyroid hormone-dependent DA neuronal differentiation. Finally, we confirmed that the activation of OTX2, a determinant of DA neuron development and the expression of which is induced by thyroid hormone, is dependent on TRPC1-mediated calcium signaling. These data revealed the molecular mechanisms of how thyroid hormone regulates DA neuron development from ventral midbrain neural stem cells, particularly endowing a novel physiological relevance to TRPC1 channels.


Subject(s)
Dopaminergic Neurons/metabolism , Neurogenesis/genetics , Otx Transcription Factors/genetics , TRPC Cation Channels/genetics , Thyroid Hormones/metabolism , Animals , Calcium/metabolism , Calcium Signaling/genetics , Cell Differentiation/genetics , Dopamine/metabolism , Gene Expression Regulation, Developmental , Gene Silencing , Mesencephalon/growth & development , Mesencephalon/metabolism , Mice , Neural Stem Cells/cytology , Neural Stem Cells/metabolism , Otx Transcription Factors/metabolism , TRPC Cation Channels/metabolism
13.
BMC Genomics ; 19(1): 68, 2018 01 22.
Article in English | MEDLINE | ID: mdl-29357812

ABSTRACT

BACKGROUND: Sweetpotato whitefly, Bemisia tabaci MED/Q and MEAM1/B, are two economically important invasive species that cause considerable damages to agriculture crops through direct feeding and indirect vectoring of plant pathogens. Recently, a draft genome of B. tabaci MED/Q has been assembled. In this study, we focus on the genomic comparison between MED/Q and MEAM1/B, with a special interest in MED/Q's genomic signatures that may contribute to the highly invasive nature of this emerging insect pest. RESULTS: The genomes of both species share similarity in syntenic blocks, but have significant divergence in the gene coding sequence. Expansion of cytochrome P450 monooxygenases and UDP glycosyltransferases in MED/Q and MEAM1/B genome is functionally validated for mediating insecticide resistance in MED/Q using in vivo RNAi. The amino acid biosynthesis pathways in MED/Q genome are partitioned among the host and endosymbiont genomes in a manner distinct from other hemipterans. Evidence of horizontal gene transfer to the host genome may explain their obligate relationship. Putative loss-of-function in the immune deficiency-signaling pathway due to the gene loss is a shared ancestral trait among hemipteran insects. CONCLUSIONS: The expansion of detoxification genes families, such as P450s, may contribute to the development of insecticide resistance traits and a broad host range in MED/Q and MEAM1/B, and facilitate species' invasions into intensively managed cropping systems. Numerical and compositional changes in multiple gene families (gene loss and gene gain) in the MED/Q genome sets a foundation for future hypothesis testing that will advance our understanding of adaptation, viral transmission, symbiosis, and plant-insect-pathogen tritrophic interactions.


Subject(s)
Genome, Insect , Hemiptera/classification , Hemiptera/genetics , Insect Proteins/genetics , Insecticide Resistance , Animals , Crops, Agricultural/parasitology , Cytochrome P-450 Enzyme System/genetics , Glucuronosyltransferase/genetics , Host Specificity , Multigene Family , Phylogeny , Symbiosis , Transcriptome
14.
Proc Natl Acad Sci U S A ; 112(43): 13213-8, 2015 Oct 27.
Article in English | MEDLINE | ID: mdl-26460024

ABSTRACT

Adzuki bean (Vigna angularis), an important legume crop, is grown in more than 30 countries of the world. The seed of adzuki bean, as an important source of starch, digestible protein, mineral elements, and vitamins, is widely used foods for at least a billion people. Here, we generated a high-quality draft genome sequence of adzuki bean by whole-genome shotgun sequencing. The assembled contig sequences reached to 450 Mb (83% of the genome) with an N50 of 38 kb, and the total scaffold sequences were 466.7 Mb with an N50 of 1.29 Mb. Of them, 372.9 Mb of scaffold sequences were assigned to the 11 chromosomes of adzuki bean by using a single nucleotide polymorphism genetic map. A total of 34,183 protein-coding genes were predicted. Functional analysis revealed that significant differences in starch and fat content between adzuki bean and soybean were likely due to transcriptional abundance, rather than copy number variations, of the genes related to starch and oil synthesis. We detected strong selection signals in domestication by the population analysis of 50 accessions including 11 wild, 11 semiwild, 17 landraces, and 11 improved varieties. In addition, the semiwild accessions were illuminated to have a closer relationship to the cultigen accessions than the wild type, suggesting that the semiwild adzuki bean might be a preliminary landrace and play some roles in the adzuki bean domestication. The genome sequence of adzuki bean will facilitate the identification of agronomically important genes and accelerate the improvement of adzuki bean.


Subject(s)
Biological Evolution , Crops, Agricultural/genetics , Fabaceae/chemistry , Fabaceae/genetics , Gene Expression Regulation, Plant/genetics , Genome, Plant/genetics , Base Sequence , Gene Expression Profiling , Lipids/analysis , Lipids/genetics , Molecular Sequence Annotation , Molecular Sequence Data , Sequence Analysis, DNA , Starch/analysis , Starch/genetics
15.
Proc Natl Acad Sci U S A ; 112(4): 1095-100, 2015 Jan 27.
Article in English | MEDLINE | ID: mdl-25583503

ABSTRACT

The Tibetan hulless barley (Hordeum vulgare L. var. nudum), also called "Qingke" in Chinese and "Ne" in Tibetan, is the staple food for Tibetans and an important livestock feed in the Tibetan Plateau. The diploid nature and adaptation to diverse environments of the highland give it unique resources for genetic research and crop improvement. Here we produced a 3.89-Gb draft assembly of Tibetan hulless barley with 36,151 predicted protein-coding genes. Comparative analyses revealed the divergence times and synteny between barley and other representative Poaceae genomes. The expansion of the gene family related to stress responses was found in Tibetan hulless barley. Resequencing of 10 barley accessions uncovered high levels of genetic variation in Tibetan wild barley and genetic divergence between Tibetan and non-Tibetan barley genomes. Selective sweep analyses demonstrate adaptive correlations of genes under selection with extensive environmental variables. Our results not only construct a genomic framework for crop improvement but also provide evolutionary insights of highland adaptation of Tibetan hulless barley.


Subject(s)
Acclimatization/physiology , Genetic Variation/physiology , Genome, Plant/physiology , Hordeum/genetics , Base Sequence , Molecular Sequence Data , Tibet
16.
Cell Tissue Res ; 368(1): 145-157, 2017 04.
Article in English | MEDLINE | ID: mdl-27807703

ABSTRACT

Toll-like receptor 4 (TLR4) plays critical roles in vascular inflammation, lipid accumulation and atherosclerosis development. However, the mechanisms underlying these processes are still not well established, especially in vascular smooth muscle cells (VSMCs). ATP-binding cassette transporter G1 (ABCG1) is one of the key genes mediating inflammation and cellular lipid accumulation. The function of TLR4 in regulating the expression of ABCG1 and the underlying molecular mechanisms remain to be elucidated. In this study, we cultured VSMCs from the thoracic aortas of mice and treated the cells with 50 µg/ml oxidized low-density lipoprotein (oxLDL) to activate TLR4 signaling. We observed that activating TLR4 with oxLDL induced inflammatory responses and lipid accumulation in VSMCs. The expression of peroxisome proliferator-activated receptor gamma (PPARγ), liver X receptor alpha (LXRα) and ABCG1 was inhibited by TLR4 activation. However, these effects could be reversed by knocking out TLR4. PPARγ activation by rosiglitazone rescued LXRα and ABCG1 expression and reduced TLR4-induced inflammation and lipid accumulation. Silencing PPARγ expression with a specific small interfering RNA (siRNA) inhibited LXRα and ABCG1 expression and, importantly, enhanced TLR4-induced inflammation and lipid accumulation. In conclusion, ABCG1 expression was down-regulated by TLR4, which induces inflammation and lipid accumulation in VSMCs via PPARγ/LXRα signaling. These findings indicate a novel molecular mechanism underlying TLR4-induced inflammation and lipid accumulation.


Subject(s)
ATP Binding Cassette Transporter, Subfamily G, Member 1/metabolism , Inflammation/pathology , Lipid Metabolism , Liver X Receptors/metabolism , Myocytes, Smooth Muscle/metabolism , Myocytes, Smooth Muscle/pathology , PPAR gamma/metabolism , Toll-Like Receptor 4/metabolism , Animals , Down-Regulation/drug effects , Gene Silencing/drug effects , Lipid Metabolism/drug effects , Lipoproteins, LDL/pharmacology , Mice, Knockout , Models, Biological , Muscle, Smooth, Vascular/pathology , Myocytes, Smooth Muscle/drug effects , Rosiglitazone , Signal Transduction/drug effects , Thiazolidinediones/pharmacology , Toll-Like Receptor 4/deficiency
17.
Cereb Cortex ; 26(9): 3690-3704, 2016 09.
Article in English | MEDLINE | ID: mdl-27405333

ABSTRACT

Glial precursor transplantation provides a potential therapy for brain disorders. Before its clinical application, experimental evidence needs to indicate that engrafted glial cells are functionally incorporated into the existing circuits and become essential partners of neurons for executing fundamental brain functions. While previous experiments supporting for their functional integration have been obtained under in vitro conditions using slice preparations, in vivo evidence for such integration is still lacking. Here, we utilized in vivo two-photon Ca(2+) imaging along with immunohistochemistry, fluorescent indicator labeling-based axon tracing and correlated light/electron microscopy to analyze the profiles and the functional status of glial precursor cell-derived astrocytes in adult mouse neocortex. We show that after being transplanted into somatosensory cortex, precursor-derived astrocytes are able to survive for more than a year and respond with Ca(2+) signals to sensory stimulation. These sensory-evoked responses are mediated by functionally-expressed nicotinic receptors and newly-established synaptic contacts with the host cholinergic afferents. Our results provide in vivo evidence for a functional integration of transplanted astrocytes into adult mammalian neocortex, representing a proof-of-principle for sensory cortex remodeling through addition of essential neural elements. Moreover, we provide strong support for the use of glial precursor transplantation to understand glia-related neural development in vivo.


Subject(s)
Astrocytes/physiology , Astrocytes/transplantation , Calcium Signaling/physiology , Electric Stimulation/methods , Neocortex/cytology , Neocortex/physiology , Somatosensory Cortex/physiology , Action Potentials/physiology , Animals , Astrocytes/cytology , Cell Differentiation/physiology , Female , Humans , Male , Mice , Neocortex/surgery , Neural Stem Cells/cytology , Neural Stem Cells/physiology , Neural Stem Cells/transplantation , Signal Transduction/physiology
18.
Des Monomers Polym ; 20(1): 97-105, 2017.
Article in English | MEDLINE | ID: mdl-29491783

ABSTRACT

A diamine monomer, 4,4'-bis(5-amino-2-pyridinoxy)benzophenone, was designed and synthesized, and used to react with commercially different kinds of aromatic dianhydrides to prepare a series of polyimides containing pyridine and ketone units via the classical two-step procedure. Glass transition temperatures (Tg) of the resultant polyimides PI-(1-5) derived from 4,4'-bis(5-amino-2-pyridinoxy) benzophenone with various dianhydrides ranged from 201 to 310 °C measured by differential scanning calorimetry. The temperatures for 5%wt loss of the resultant polyimides in nitrogen atmosphere obtained from the thermogravimetric analysis curves fell in the range of 472-501 °C. The temperatures for 10%wt loss of the resultant polyimides in nitrogen atmosphere fell in the range of 491-537 °C. Meanwhile, the char yields at 800 °C were in the range of 55.3-60.8%. Moreover, the moisture absorption of polyimide films was measured in the range of 0.37-2.09%. The thin films showed outstanding mechanical properties with tensile strengths of 103-145 MPa, an elongation at break of 12.9-15.2%, and a tensile modulus of 1.20-1.88 Gpa, respectively. The coefficients of thermal expansion of the resultant polyimides were obtained among 26-62 ppm °C-1. To sum up, this series of polyimides had a good combination of properties applied for high-performance materials and showed promising potential applications in the fields of optoelectronic devices.

19.
Des Monomers Polym ; 20(1): 449-457, 2017.
Article in English | MEDLINE | ID: mdl-29491816

ABSTRACT

In order to obtain highly optical transparency polyimides, two novel aromatic diamine monomers containing pyridine and kinky structures, 1,1-bis[4-(5-amino-2-pyridinoxy)phenyl]diphenylmethane (BAPDBP) and 1,1-bis[4-(5-amino-2-pyridinoxy)phenyl]-1-phenylethane (BAPDAP), were designed and synthesized. Polyimides based on BAPDBP, BAPDAP, 2,2-bis[4-(5-amino-2-pyridinoxy)phenyl]propane (BAPDP) with various commercial dianhydrides were prepared for comparison and structure-property relationships study. The structures of the polyimides were characterized by Fourier transform infrared (FT-IR) spectrometer, wide-angle X-ray diffractograms (XRD) and elemental analysis. Film properties including solubility, optical transparency, water uptake, thermal and mechanical properties were also evaluated. The introduction of pyridine and kinky structure into the backbones that polyimides presented good optical properties with 91-97% transparent at 500 nm and a low cut-off wavelength at 353-398 nm. Moreover, phenyl pendant groups of the polyimides showed high glass transition temperatures (Tg ) in the range of 257-281 °C. These results suggest that the incorporating pyridine, kinky and bulky substituents to polymer backbone can improve the optical transparency effectively without sacrificing the thermal properties.

20.
Cell Physiol Biochem ; 39(3): 961-74, 2016.
Article in English | MEDLINE | ID: mdl-27513750

ABSTRACT

BACKGROUND: Both cadmium (Cd) and bisphenol A (BPA) are commonly encountered in humans' daily activities, but their combined genotoxic effects remain unclear. METHODS: In the present study, we exposed a mouse embryonic fibroblast cell line (NIH3T3) to Cd for 24 h, followed by a 24 h BPA exposure to evaluate toxicity. The cytotoxicity was evaluated by viability with CCK-8 assay and lactate dehydrogenase (LDH) release. Reactive oxygen species (ROS) production was measured by 2',7'-dichlorofluorescein diacetate (DCFH-DA). And DNA damage was measured by 8-hydroxydeoxyguanosine (8-OHdG), phosphorylated H2AX (γH2AX) and the comet assay. The flow cytometry was used to detect cell cycle distribution, and apoptosis was determined by TUNEL assay and western blot against poly-ADP-ribose polymerase (PARP). RESULTS: The results showed that Cd or BPA treatments alone (with the exception of BPA exposure at 50 µM) did not alter cell viability. However, pre-treatment with Cd aggravated the BPA-induced reduction in cell viability; increased BPA-induced LDH release, ROS production, DNA damage and G2 phase arrest; and elevated BPA-induced TUNEL-positive cells and the expression levels of cleaved PARP. Cd exposure concurrently decreased the expression of 8-oxoguanine-DNA glycosylase-1 (OGG1), whereas OGG1 over-expression abolished the enhancement of Cd on BPA-induced genotoxicity and cytotoxicity. CONCLUSION: These findings indicate that Cd exposure aggravates BPA-induced genotoxicity and cytotoxicity through OGG1 inhibition.


Subject(s)
Air Pollutants, Occupational/pharmacology , Benzhydryl Compounds/pharmacology , Cadmium Chloride/pharmacology , DNA Damage , DNA Glycosylases/antagonists & inhibitors , Estrogens, Non-Steroidal/pharmacology , Phenols/pharmacology , Animals , Cell Survival/drug effects , Comet Assay , DNA Glycosylases/genetics , DNA Glycosylases/metabolism , Drug Combinations , G2 Phase Cell Cycle Checkpoints/drug effects , Gene Expression Regulation , Histones/genetics , Histones/metabolism , L-Lactate Dehydrogenase/metabolism , Mice , NIH 3T3 Cells , Phosphorylation/drug effects , Poly(ADP-ribose) Polymerases/genetics , Poly(ADP-ribose) Polymerases/metabolism , Reactive Oxygen Species/agonists , Reactive Oxygen Species/metabolism
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