Miracle-dz/UniFAR-FTUs huggingface dataset:
Hydrogen peroxide induces nucleus pulposus cell apoptosis by ATF4/CHOP signaling pathway

Oxidative stress induces excessive apoptosis resulting in the reduction of intervertebral disc cells, the consequent reduction of extracellular matrix (ECM) synthesis, and compositional changes, which is the pathological basis for intervertebral disc degeneration (IVDD). The present study explored the activating transcription factor 4 (ATF4)/C/EBP homologous protein (CHOP) signaling pathway in the H2O2-induced nucleus pulposus (NP) cell apoptosis. Human degenerated intervertebral discs were collected from Lumbar disc surgery. NP cells isolated from the tissues were cultured with H2O2 to induce apoptosis in vitro. Malondialdehyde (MDA) analysis was performed to determine the reactive oxygen species (ROS) of the tissue. Western blot analysis and reverse transcription-polymerase chain reaction (RT-PCR) were performed to analyze collagen II, ATF4, CHOP, and caspase-9 gene expression. Flow cytometry was used to determine the apoptotic ratio of NP cells. siRNA was also used to silence ATF4 and CHOP gene expression. NP tissues in higher degenerated degree underwent much more MDA, expressed less collagen II, more ATF4, CHOP, and caspase-9 compared with the mildly degenerated tissues. H2O2 induced NP cell apoptosis by upregulating expression of ATF4, CHOP and caspase-9. The silencing of ATF4 or CHOP alleviated NP cell apoptosis by suppressing caspase-9 expression. Inhibiting caspase-9 did not affect ATF4 and CHOP expression but protected NP cells from apoptosis. In this study, we found H2O2 could promote NP cell apoptosis by activating the ATF4/CHOP signaling pathway resulting in the upregulation of caspase-9. Interdict of ATF4, CHOP, or caspase-9 contributed to the reduction of apoptosis caused by H2O2.
Treatment with catalpol protects against cisplatin-induced renal injury through Nrf2 and NF-κB signaling pathways

Cisplatin (CP) is one of the most widely used chemotherapy drugs for cancer treatment, but it often leads to nephrotoxicity. It is well known that catalpol exhibits antioxidant and anti-inflammatory functions, thus the present study aimed to investigate the potential protective effects of catalpol on CP-induced kidney injury in rats, in addition to determining the underlying mechanisms. Sprague-Dawley rats were treated with 25, 50 or 100 mg/kg catalpol for two days, injected with 20 mg/kg cisplatin and catalpol on day 3 and sacrificed on day 4. The histological analysis of isolated kidney tissues was performed using hematoxylin and eosin staining, cleaved caspase-3 expression levels were analyzed using western blotting and the expression levels of inflammatory cytokines in the tissues, including tumor necrosis factor α (TNF-α), interleukin (IL)-1β, IL-6, IL-8, IL-10 and inducible nitric oxide synthase (iNOS) were evaluated using ELISAs. Furthermore, the mRNA and protein expression levels of nuclear factor erythroid 2-related factor 2 (Nrf2), heme oxygenase 1 (HO-1), kelch-like ECH-associated protein 1 (Keap1), NF-κB and inhibitory κB (IκB) were determined using reverse transcription-quantitative PCR and western blotting, respectively. The results revealed that the treatment with catalpol prevented the histopathological injury and renal dysfunction caused by CP. In addition, catalpol significantly suppressed the CP-induced apoptosis of tubular cells, inhibited the CP-induced upregulation of TNF-α, IL-1β, IL-6, IL-8 and iNOS and promoted the production of the anti-inflammatory cytokine IL-10. Additionally, the mRNA and protein expression levels of Nrf2, HO-1 and IκB in the kidney tissues were increased, whereas the expression levels of Keap1 and NF-κB were significantly decreased following the treatment with catalpol. In conclusion, these results suggested that catalpol may inhibit CP-induced renal injury and suppress the associated inflammatory response through activating the Nrf2 and inhibiting the NF-κB signaling pathways, respectively.
Chronic Thromboembolic Pulmonary Hypertension in a Child With Sickle Cell Disease

Chronic thromboembolic pulmonary hypertension is a potentially curable form of pre-capillary pulmonary hypertension (PH) resulting from incomplete resolution of pulmonary thromboemboli. We describe an 11-year-old boy with homozygous sickle cell disease with an indwelling catheter found to have severe PH on routine screening echocardiography. The diagnosis was confirmed by CT, ventilation-perfusion scintigraphy, and right heart catheterization. The patient was medically managed until undergoing pulmonary thromboendarterectomy with resolution of his PH. This case highlights the need for pediatric providers to be aware of this underdiagnosed form of PH, particularly for patients at high risk.
Autumn Habitat Selection by Snow Leopard ( Uncia uncia ) in Beita Mountain, Xinjiang, China

Habitat selection of Snow Leopard (Unica unica) in Beita Mountain of the Alt ay Mountain system in northeast Xinjiang was conducted from September to October 2004. Six habitat features of 59 sites used by Snow Leopard and 30 random plot s were measured by locating 15 transects surveys in the study area. Vanderploge and Scavia's selectivity index was used to assess Snow Leopard's selection fo r the different habitat parameters. Principal Component Analysis was used as th e primary factor. The results indicated that Snow Leopard preferred the altitud e between 2 000-2 200 m and avoided 2 600-3 000 m; selected cliff base, ridgelin e and avoided hillside and valley bottom; utilized the shrub and rejected the fo rest; selected the non-grazing area and avoided the slightly broken region; pre ferred north orientation and rejected the south orientation. The results show t hat grazing status, vegetation type, topography and the ruggedness are the prima ry factors for the habitat selection of Snow Leopard.
In Kluyveromyces lactis a Pair of Paralogous Isozymes Catalyze the First Committed Step of Leucine Biosynthesis in Either the Mitochondria or the Cytosol

Divergence of paralogous pairs, resulting from gene duplication, plays an important role in the evolution of specialized or novel gene functions. Analysis of selected duplicated pairs has elucidated some of the mechanisms underlying the functional diversification of Saccharomyces cerevisiae (S. cerevisiae) paralogous genes. Similar studies of the orthologous pairs extant in pre-whole genome duplication yeast species, such as Kluyveromyces lactis (K. lactis) remain to be addressed. The genome of K. lactis, an aerobic yeast, includes gene pairs generated by sporadic duplications. The genome of this organism comprises the KlLEU4 and KlLEU4BIS paralogous pair, annotated as putative α-isopropylmalate synthases (α-IPMSs), considered to be the orthologs of the S. cerevisiae ScLEU4/ScLEU9 paralogous genes. The enzymes encoded by the latter two genes are mitochondrially located, differing in their sensitivity to leucine allosteric inhibition resulting in ScLeu4-ScLeu4 and ScLeu4-ScLeu9 sensitive dimers and ScLeu9-ScLeu9 relatively resistant homodimers. Previous work has shown that, in a Scleu4Δ mutant, ScLEU9 expression is increased and assembly of ScLeu9-ScLeu9 leucine resistant homodimers results in loss of feedback regulation of leucine biosynthesis, leading to leucine accumulation and decreased growth rate. Here we report that: (i) K. lactis harbors a sporadic gene duplication, comprising the KlLEU4, syntenic with S. cerevisiae ScLEU4 and ScLEU9, and the non-syntenic KlLEU4BIS, arising from a pre-WGD event. (ii) That both, KlLEU4 and KlLEU4BIS encode leucine sensitive α-IPMSs isozymes, located in the mitochondria (KlLeu4) and the cytosol (KlLeu4BIS), respectively. (iii) That both, KlLEU4 or KlLEU4BIS complement the Scleu4Δ Scleu9Δ leucine auxotrophic phenotype and revert the enhanced ScLEU9 transcription observed in a Scleu4Δ ScLEU9 mutant. The Scleu4Δ ScLEU9 growth mutant phenotype is only fully complemented when transformed with the syntenic KlLEU4 mitochondrial isoform. KlLEU4 and KlLEU4BIS underwent a different diversification pathways than that leading to ScLEU4/ScLEU9. KlLEU4 could be considered as the functional ortholog of ScLEU4, since its encoded isozyme can complement both the Scleu4Δ Scleu9Δ leucine auxotrophy and the Scleu4Δ ScLEU9 complex phenotype.
Clinicopathological association and prognostic value of long non-coding RNA CASC9 in patients with cancer: A meta-analysis

Several studies have reported a prognostic role of the long non-coding RNA (lncRNA) cancer susceptibility candidate 9 (CASC9) in various cancer types, but its clinical significance has remained inconclusive. The aim of the present meta-analysis was to evaluate the impact of CASC9 expression on the prognosis and clinicopathological features of patients with cancer patients. The PubMed, Embase, Cochrane Library and Web of Science databases were searched for relevant literature and eight studies, including 565 patients with cancer, were selected. The quality of these studies was appraised with the Newcastle-Ottawa Scale (NOS) and the association between CASC9 expression and prognosis or clinicopathological features was analyzed. Patients with high expression levels of CASC9 in their tumor tissues had a lower overall survival rate compared with those in the low CASC9 expression group (hazard ratio=2.25, 95% CI: 1.60-3.17, P<0.001). Furthermore, elevated CASC9 expression was significantly associated with deeper tumor invasion [odds ratio (OR)=2.66, 95% CI: 1.72-4.14, P<0.001], poor tumor differentiation (OR=2.44, 95% CI: 1.24-4.78, P=0.009), lymph node metastasis (OR=3.42, 95% CI: 1.98-5.92, P<0.001) and advanced clinical stage (OR=3.21, 95% CI: 2.21-4.66, P<0.001). In conclusion, CASC9 is a promising biomarker for predicting the prognosis of cancer patients and should be validated in the clinic.
Analysis of Ha-ras Gene in the B6C3F1 Mouse Liver by Non-RI PCR-SSCP

The codon 61 of the activated Ha-ras gene is detected most frequently among mutations of proto-oncogenes in spontaneously-occurring hepatocellular tumors in B6C3F1 mice. In the present study, the ras mutations and their patterns in normal liver tissue, foci of cellular alteration (FCA), and hepatocellular tumor from untreated mice were analyzed using the non-RI PCR-SSCP method. The Ha-ras gene with mutated codon 61 was detected in 1.6% (2/122) from normal liver tissues, 16.7% (6/36) from spontaneous FCA tissues, 30.4% (48/158) from spontaneous hepatocellular tumor tissues, and 7.7% (3/39) from normal portion in spontaneous hepatocellular tumor tissues. Furthermore, mutation in the Ha-ras gene was compared between spontaneous and induced hepatocellular proliferative lesions including hepatocellular tumor from archival materials at our Center. Although no clear difference was found between genotoxic carcinogen and non-genotoxic carcinogens in the incidence of Ha-ras gene mutation in the induced tumors, the incidence of Ha-ras gene mutation in FCA, which was induced by genotoxic carcinogen, was higher than that in FCA induced by non-genotoxic carcinogens. These data suggested that to analyze the incidence of Ha-ras gene mutation in proliferative lesions in the livers of B6C3F1 mice, especially in the FCA is useful in evaluation of hepatocarcinogenicity of the chemicals.
Inflammation: Cause or Consequence of Epilepsy?

Epilepsy is the third most common neurological disorder, affecting about 70 million people worldwide. It is defined as a central nervous system disorder which affects the neuronal activity in the brain, causing unprovoked seizures and other behavioral changes. Unfortunately, one-third of epilepsy patients are unrespon-sive to available therapies and patients who respond to antiepileptic drugs often complain of debilitating side effects. In the effort of devising a suitable therapy for epilepsy treatment, researchers delved into the origin of seizures and the epileptogenic process and found an association between epilepsy and inflammation. Here, we discuss the involvement of inflammatory mediators in the development and progression of seizures and epileptogenesis, supported by clinical shreds of evidence. Subsequently, we discuss the role of inflammation in the generation of seizures, as it is debatable whether inflammation is the cause or consequence of epilepsy, along with experimental models in inflammation and epilepsy research.
Moss inhabiting flea beetles of the West Indies III: Erinaceialtica, a new genus from Hispaniola (Coleoptera, Chrysomelidae, Galerucinae, Alticini)

Abstract Erinaceialtica Konstantinov & Linzmeier, a new genus of moss inhabiting flea beetles, containing seven species from the Dominican Republic and Haiti is described and illustrated. Five species are new (E. gabbysalazarae, E. janestanleyae, E. rickstanleyi (the type species), E. rileyi, and E. thomasi) and two species are transferred from Aedmon: A. albicincta (Blake) and A. hugonis (Blake) comb. nov. The new genus is compared to Aedmon Clark, Apleuraltica Bechyne, Andersonaltica Linzmeier & Konstantinov, Distigmoptera Blake, and Ulrica Scherer. Keys to Erinaceialtica and related genera and to Erinaceialtica species are provided.
Molecular Identification and Dual Functions of Two Different CXC Chemokines in Nile Tilapia (Oreochromis niloticus) against Streptococcus agalactiae and Flavobacterium columnare

Two CXC chemokines in Nile tilapia (On-CXC1 and On-CXC2) were identified at both the genomic and proteomic levels. A southern blot analysis and comparison searching in Ensembl confirmed the typical structure of the CXC chemokine genes and provided evidence for unusual mechanisms used to generate the two different CXC chemokine transcripts that have not been reported in other vertebrate species so far. The expression levels of On-CXC1 and On-CXC2 were analyzed by quantitative real-time PCR. These two mRNAs were detected in various tissues of normal Nile tilapia, especially in the spleen, heart, and head kidney, indicating a homeostatic function in immunosurveillance. A time-course experiment clearly demonstrated that these two transcripts were effectively enhanced in the head kidney, spleen and trunk kidney of Nile tilapia 6, 12 and 24 h after injection with Streptococcus agalactiae but were down-regulated in all tested tissues at 48 h, reflecting the fact that they have short half-lives during the crucial response to pathogens that is characteristic of CXC chemokine genes in other vertebrates. Functional analyses obviously exhibited that these two CXC chemokines at concentrations of 1–10 μg strongly inactivated S. agalactiae and Flavobacterium columnare and effectively induced phagocytosis of leukocytes in vitro.
miR-29b enhances the proliferation and migration of bone marrow mesenchymal stem cells in rats with castration-induced osteoporosis through the PI3K/AKT and TGF-β/Smad signaling pathways

The aim of the present study was to investigate the role of microRNA (miR)-29b in the proliferation and migration of bone marrow mesenchymal stem cells (BMSCs) in rats with castration-induced osteoporosis and the relevant mechanisms. The gene expression profiling microarray technique was utilized to sequence the BMSCs with overexpressed miR-29b. The intersection of the potential targets and the genes downregulated in the sequencing were utilized for GO enrichment analysis. Gene set enrichment analysis (GSEA) was employed to analyze the effect of miR-29b on signaling pathways. Additionally, the effects of miR-29b overexpression on the phosphatidylinositol 3-kinase (PI3K)/protein kinase B (AKT) and transforming growth factor-β (TGF-β)/Drosophila mothers against decapentaplegic protein (Smad) signaling pathways were detected via RT-qPCR assay and western blotting. The expression level of miR-29b was found to be significantly reduced in bone marrow tissues of postmenopausal osteoporosis patients and BMSCs of rats with castration-induced osteoporosis established via ovariectomy. Based on transcriptome sequencing and bioinformatics software prediction, 76 potential targets of miR-29b were obtained, which were distinctly enriched in such biological processes as cell proliferation, cell cycle, cell migration and cell adhesion. The results of CCK-8 and EdU assays showed that overexpression of miR-29b overtly promoted the proliferation of BMSCs in rats with castration-induced osteoporosis. Moreover, the Transwell assay results revealed that the overexpression of miR-29b significantly facilitated the migration of BMSCs in rats with castration-induced osteoporosis. According to RT-qPCR assay and western blotting, miR-29b activated the PI3K/AKT and TGF-β/Smad signaling pathways. miR-29b exhibited a clearly lower expression level in the bone marrow tissues of the postmenopausal osteoporosis patients and BMSCs of rats with castration-induced osteoporosis established via ovariectomy. Overexpression of miR-29b was able to enhance the proliferation and migration ability of BMSCs in rats with castration-induced osteoporosis, and such an enhancement may be correlated with the activation of the PI3K/AKT and TGF-β/Smad signaling pathways.
Photorespiration Coupled With CO2 Assimilation Protects Photosystem I From Photoinhibition Under Moderate Poly(Ethylene Glycol)-Induced Osmotic Stress in Rice

Photorespiration coupled with CO2 assimilation is thought to act as a defense system against photoinhibition caused by osmotic stress. In the present study, we examined whether such a mechanism is operative for the protection of photosystem I (PSI) in rice (Oryza sativa L.) including transgenic plants with decreased and increased Rubisco content (RBCS-antisense and RBCS-sense plants, respectively). All plants were hydroponically grown and moderate osmotic stress was imposed using hydroponic culture solutions containing poly(ethylene glycol) (PEG) at 16% or 20% (w/v) for 2 d. In wild-type plants, the rates of CO2 assimilation (A) were significantly decreased by the PEG treatment, whereas the photorespiration activity estimated from the rates of electron transport in photosystem II (PSII) and A were not affected. The maximal quantum efficiency of PSII (F v/F m) and the maximal activity of PSI (P m) were also not affected. In RBCS-antisense plants, A and the estimated photorespiration activity were considerably lower than those in wild-type plants in the presence or absence of the PEG treatment. P m and both F v/F m and P m decreased in the 16% PEG-treated and 20% PEG-treated RBCS-antisense plants, respectively. Thus, the decrease in Rubisco content led to the photoinhibition of PSI and PSII, indicating the importance of photorespiration coupled with CO2 assimilation for the protection of PSI from moderate PEG-induced osmotic stress. It was also shown that PSI was more sensitive to osmotic stress than PSII. In the PEG-treated wild-type and RBCS-antisense plants, osmotic-stress responses of the photosynthetic electron transport reactions upstream of PSI led to the oxidation of P700, which is thought to prevent PSI from over-reduction. Although such a defense system operated, it was not sufficient for the protection of PSI in RBCS-antisense plants. In addition, there were no large differences in the parameters measured between wild-type and RBCS-sense plants, as overproduction of Rubisco did not increase photorespiration activity.
Morphometric analysis to differentiate taxonomically seven species of Eleutherodactylus (Amphibia: Anura: Leptodactylidae) from an Andean cloud forest of Colombia

The genus Eleutherodactylus contains a large number of species and species groups that have had a notoriously difficult taxonomy. Morphometric analyses open new approaches and perspectives to evaluate morphological characters in the taxonomic context. Morphometric and statistical analyses were applied to differentiate taxonomically seven Eleutherodactylus species that co-occur in an Andean cloud forest (six of these belonging to the unistrigatus group). Fifty one characters were evaluated to determine those characters that best separate the species and species groups. Using morphometric analyses we were able to discriminate among species and species groups defined a priori. Qualitative characters, particularly the colour patterns, allowed recognising the juveniles of two groups; however, the discriminant analyses could not differentiate them. Quantitative characters allowed easy recognition of those species with a large sample size. Ten of the eleven quantitative variables showed a good discriminatory power: Linear combination of tympanum-eye distance and eyelid width, tympanum-eye distance, tympanum diameter, phalangeal width of finger IV, head length, eyelid width, head width, eye diameter, snout-vent length, and interorbital distance. Distance between eye and nostril was excluded from the discriminant model because of its low discriminatory power. Thus, morphometric and qualitative variables proved be useful in differentiating among Eleutherodactylus species and species groups at adult and juvenile levels.
Inferring Disease-Associated Microbes Based on Multi-Data Integration and Network Consistency Projection

Plenty of microbes in our human body play a vital role in the process of cell physiology. In recent years, there is accumulating evidence indicating that microbes are closely related to many complex human diseases. In-depth investigation of disease-associated microbes can contribute to understanding the pathogenesis of diseases and thus provide novel strategies for the treatment, diagnosis, and prevention of diseases. To date, many computational models have been proposed for predicting microbe–disease associations using available similarity networks. However, these similarity networks are not effectively fused. In this study, we proposed a novel computational model based on multi-data integration and network consistency projection for Human Microbe–Disease Associations Prediction (HMDA-Pred), which fuses multiple similarity networks by a linear network fusion method. HMDA-Pred yielded AUC values of 0.9589 and 0.9361 ± 0.0037 in the experiments of leave-one-out cross validation (LOOCV) and 5-fold cross validation (5-fold CV), respectively. Furthermore, in case studies, 10, 8, and 10 out of the top 10 predicted microbes of asthma, colon cancer, and inflammatory bowel disease were confirmed by the literatures, respectively.
Multi-gene phylogenetic evidence suggests Dictyoarthrinium belongs in Didymosphaeriaceae (Pleosporales, Dothideomycetes) and Dictyoarthrinium musae sp. nov. on Musa from Thailand

Abstract Dead leaves of Musa sp. (banana) were collected in northern Thailand during an investigation of saprobic fungi. Preliminary morphological observations revealed that three specimens belong to Dictyoarthrinium. Phylogenetic analyses of combined SSU, LSU, ITS and tef1-α sequence data revealed that Dictyoarthrinium forms a clade in Didymosphaeriaceae (Massarineae, Pleosporales, Dothideomycetes) sister to Spegazzinia. Based on contrasting morphological features with the extant taxa of Dictyoarthrinium, coupled with the multigene analyses, Dictyoarthrinium musae sp. nov. is introduced herein. Our study provides the first detailed molecular investigation for Dictyoarthrinium and supports its placement in Didymosphaeriaceae (Massarineae, Pleosporales, Dothideomycetes). Previously, Dictyoarthrinium was classified in Apiosporaceae (Xylariales, Sordariomycetes).